Citrus Sinensis ID: 035406

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50-------
Protein Sequence
MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV
Secondary Structure (PSIPRED)
ccccccEEEEEEEEEcccccHHEEEEEEcccccccccEEEEEEEEEEEEEEEEEEEc
Secondary Structure Prediction (SSPRO)
ccHHccEEEEEEEEEcccccHHHHHHHHHHccccccccccccEEEEEEEEEEEEEEc
Coil and Loop (DISEMBL)
MSNEYDYLFKLLLIGDSSVGKSCLLLRfaddsyvdsyISTIGVDFVSLSSIYMYICV
Flexible Loop (DISEMBL)
MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV
Low Complexity Region (SEG)
MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV
Disordered region (IsUnstruct)
****YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC*
Disordered Region (DISOPRED)
**NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV
Disordered Region (DISEMBL)
MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV
Disordered Region (DISPRO)
*SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHi
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV
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	57	2.2.26 [Sep-21-2011]
Q9ZRE2	205	Ras-related protein RABD1	yes	no	0.789	0.219	0.955	2e-18
P16976	208	GTP-binding protein YPTM1	N/A	no	0.789	0.216	0.955	3e-18
Q9FPJ4	202	Ras-related protein RABD2	no	no	0.789	0.222	0.911	1e-17
Q05737	203	GTP-binding protein YPTM2	N/A	no	0.789	0.221	0.911	2e-17
Q9SEH3	202	Ras-related protein RABD2	no	no	0.789	0.222	0.911	2e-17
P28188	203	Ras-related protein RABD2	no	no	0.789	0.221	0.888	5e-17
P40392	202	Ras-related protein RIC1	no	no	0.789	0.222	0.888	7e-17
Q01890	201	Ras-like GTP-binding prot	N/A	no	0.789	0.223	0.866	1e-16
Q06AU7	201	Ras-related protein Rab-1	yes	no	0.789	0.223	0.866	1e-16
Q5RE13	201	Ras-related protein Rab-1	no	no	0.789	0.223	0.866	1e-16

>sp|Q9ZRE2|RABD1_ARATH Ras-related protein RABD1 OS=Arabidopsis thaliana GN=RABD1 PE=1 SV=1

 Score = 91.3 bits (225), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 43/45 (95%), Positives = 45/45 (100%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MSNEYDYLFKLLLIGDSSVGKSCLLLRFADD+Y+DSYISTIGVDF
Sbjct: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDAYIDSYISTIGVDF 45

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).
Arabidopsis thaliana (taxid: 3702)

>sp|P16976|YPTM1_MAIZE GTP-binding protein YPTM1 OS=Zea mays GN=YPTM1 PE=2 SV=2

 Score = 90.5 bits (223), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 43/45 (95%), Positives = 44/45 (97%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MSNE+DYLFKLLLIGDSSVGKSC LLRFADDSYVDSYISTIGVDF
Sbjct: 1  MSNEFDYLFKLLLIGDSSVGKSCFLLRFADDSYVDSYISTIGVDF 45

Protein transport. Probably involved in vesicular traffic.

Zea mays (taxid: 4577)

>sp|Q9FPJ4|RAD2B_ARATH Ras-related protein RABD2b OS=Arabidopsis thaliana GN=RABD2B PE=2 SV=1

 Score = 88.2 bits (217), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 41/45 (91%), Positives = 43/45 (95%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADDSY+DSYISTIGVDF
Sbjct: 1  MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF 45

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

>sp|Q05737|YPTM2_MAIZE GTP-binding protein YPTM2 OS=Zea mays GN=YPTM2 PE=2 SV=1

 Score = 87.4 bits (215), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 41/45 (91%), Positives = 43/45 (95%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADDSY+DSYISTIGVDF
Sbjct: 1  MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF 45

Protein transport. Probably involved in vesicular traffic.

Zea mays (taxid: 4577)

>sp|Q9SEH3|RAD2C_ARATH Ras-related protein RABD2c OS=Arabidopsis thaliana GN=RABD2C PE=1 SV=1

 Score = 87.4 bits (215), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 41/45 (91%), Positives = 43/45 (95%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADDSY+DSYISTIGVDF
Sbjct: 1  MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF 45

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

>sp|P28188|RAD2A_ARATH Ras-related protein RABD2a OS=Arabidopsis thaliana GN=RABD2A PE=1 SV=3

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 40/45 (88%), Positives = 43/45 (95%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRF+DDSYV+SYISTIGVDF
Sbjct: 1  MNPEYDYLFKLLLIGDSGVGKSCLLLRFSDDSYVESYISTIGVDF 45

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

>sp|P40392|RIC1_ORYSJ Ras-related protein RIC1 OS=Oryza sativa subsp. japonica GN=RIC1 PE=2 SV=2

 Score = 85.9 bits (211), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 40/45 (88%), Positives = 43/45 (95%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADDSY++SYISTIGVDF
Sbjct: 1  MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDSYLESYISTIGVDF 45

Possesses GTPase activity.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q01890|YPT1_PHYIN Ras-like GTP-binding protein YPT1 OS=Phytophthora infestans GN=YPT1 PE=3 SV=1

 Score = 85.1 bits (209), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 39/45 (86%), Positives = 42/45 (93%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 1  MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 45

Protein transport. Probably involved in vesicular traffic from ER to Golgi.

Phytophthora infestans (taxid: 4787)

>sp|Q06AU7|RAB1B_PIG Ras-related protein Rab-1B OS=Sus scrofa GN=RAB1B PE=2 SV=1

 Score = 85.1 bits (209), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 39/45 (86%), Positives = 42/45 (93%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 1  MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 45

Protein transport. Regulates vesicular transport between the endoplasmic reticulum and successive Golgi compartments.

Sus scrofa (taxid: 9823)

>sp|Q5RE13|RAB1B_PONAB Ras-related protein Rab-1B OS=Pongo abelii GN=RAB1B PE=2 SV=1

 Score = 84.7 bits (208), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 39/45 (86%), Positives = 42/45 (93%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 1  MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 45

Protein transport. Regulates vesicular transport between the endoplasmic reticulum and successive Golgi compartments.

Pongo abelii (taxid: 9601)

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	57
218194924	628	hypothetical protein OsI_16033 [Oryza sa	0.789	0.071	0.933	2e-17
1370162	201	RAB1A [Lotus japonicus] gi|388504068|gb|	0.789	0.223	1.0	2e-17
351725923	201	uncharacterized protein LOC100499898 [Gl	0.789	0.223	1.0	3e-17
222635255	615	hypothetical protein OsJ_20709 [Oryza sa	0.789	0.073	0.933	3e-17
224119896	201	predicted protein [Populus trichocarpa]	0.789	0.223	1.0	3e-17
297833958	205	hypothetical protein ARALYDRAFT_478519 [	0.789	0.219	0.955	3e-17
358248394	201	uncharacterized protein LOC100796206 [Gl	0.789	0.223	1.0	3e-17
4096662	202	Rab1-like small GTP-binding protein [Pet	0.789	0.222	1.0	3e-17
350538375	202	small GTP-binding protein [Solanum lycop	0.789	0.222	1.0	3e-17
224129738	201	predicted protein [Populus trichocarpa]	0.789	0.223	1.0	3e-17

>gi|218194924|gb|EEC77351.1| hypothetical protein OsI_16033 [Oryza sativa Indica Group]

 Score = 93.2 bits (230), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 42/45 (93%), Positives = 44/45 (97%)

Query: 1   MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           M+NE+DYLFKLLLIGDSSVGKSC LLRFADDSYVDSYISTIGVDF
Sbjct: 356 MNNEFDYLFKLLLIGDSSVGKSCFLLRFADDSYVDSYISTIGVDF 400

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|1370162|emb|CAA66447.1| RAB1A [Lotus japonicus] gi|388504068|gb|AFK40100.1| unknown [Lotus japonicus]

 Score = 92.8 bits (229), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 45/45 (100%), Positives = 45/45 (100%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF
Sbjct: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351725923|ref|NP_001237621.1| uncharacterized protein LOC100499898 [Glycine max] gi|255627505|gb|ACU14097.1| unknown [Glycine max]

 Score = 92.8 bits (229), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 45/45 (100%), Positives = 45/45 (100%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF
Sbjct: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222635255|gb|EEE65387.1| hypothetical protein OsJ_20709 [Oryza sativa Japonica Group]

 Score = 92.8 bits (229), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 42/45 (93%), Positives = 44/45 (97%)

Query: 1   MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           M+NE+DYLFKLLLIGDSSVGKSC LLRFADDSYVDSYISTIGVDF
Sbjct: 367 MNNEFDYLFKLLLIGDSSVGKSCFLLRFADDSYVDSYISTIGVDF 411

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224119896|ref|XP_002331089.1| predicted protein [Populus trichocarpa] gi|118486589|gb|ABK95133.1| unknown [Populus trichocarpa] gi|222872817|gb|EEF09948.1| predicted protein [Populus trichocarpa]

 Score = 92.8 bits (229), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 45/45 (100%), Positives = 45/45 (100%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF
Sbjct: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297833958|ref|XP_002884861.1| hypothetical protein ARALYDRAFT_478519 [Arabidopsis lyrata subsp. lyrata] gi|297330701|gb|EFH61120.1| hypothetical protein ARALYDRAFT_478519 [Arabidopsis lyrata subsp. lyrata]

 Score = 92.8 bits (229), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 43/45 (95%), Positives = 45/45 (100%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MSNEYDYLFKLLLIGDSSVGKSCLLLRFADD+Y+DSYISTIGVDF
Sbjct: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDAYIDSYISTIGVDF 45

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358248394|ref|NP_001239874.1| uncharacterized protein LOC100796206 [Glycine max] gi|414832|gb|AAA34003.1| Rab7p [Glycine max]

 Score = 92.4 bits (228), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 45/45 (100%), Positives = 45/45 (100%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF
Sbjct: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|4096662|gb|AAD10389.1| Rab1-like small GTP-binding protein [Petunia x hybrida]

 Score = 92.4 bits (228), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 45/45 (100%), Positives = 45/45 (100%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF
Sbjct: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45

Source: Petunia x hybrida

Species: Petunia x hybrida

Genus: Petunia

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350538375|ref|NP_001233828.1| small GTP-binding protein [Solanum lycopersicum] gi|1053065|gb|AAA80679.1| small GTP-binding protein [Solanum lycopersicum]

 Score = 92.4 bits (228), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 45/45 (100%), Positives = 45/45 (100%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF
Sbjct: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224129738|ref|XP_002328790.1| predicted protein [Populus trichocarpa] gi|222839088|gb|EEE77439.1| predicted protein [Populus trichocarpa]

 Score = 92.4 bits (228), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 45/45 (100%), Positives = 45/45 (100%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF
Sbjct: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	57
TAIR|locus:2081486	205	ATFP8 [Arabidopsis thaliana (t	0.789	0.219	0.955	1.1e-18
TAIR|locus:2129161	202	RAB1C "RAB GTPase homolog 1C"	0.789	0.222	0.911	3.2e-17
TAIR|locus:2171484	202	RAB1A "RAB GTPase homolog 1A"	0.789	0.222	0.911	3.2e-17
TAIR|locus:2205603	203	RA-5 "RAS 5" [Arabidopsis thal	0.789	0.221	0.888	8.6e-17
CGD|CAL0001430	207	YPT1 [Candida albicans (taxid:	0.789	0.217	0.866	1.8e-16
UNIPROTKB|Q5AI00	207	YPT1 "Likely RAB family GTP bi	0.789	0.217	0.866	1.8e-16
ASPGD|ASPL0000016908	201	srgB [Emericella nidulans (tax	0.789	0.223	0.866	2.3e-16
DICTYBASE|DDB_G0277867	206	rab1B "Rab GTPase" [Dictyostel	0.789	0.218	0.866	2.3e-16
UNIPROTKB|F1NNL7	205	RAB1A "Uncharacterized protein	0.789	0.219	0.866	2.3e-16
UNIPROTKB|A1L528	205	RAB1A "RAB1A, member RAS oncog	0.789	0.219	0.866	2.3e-16

TAIR|locus:2081486 ATFP8 [Arabidopsis thaliana (taxid:3702)]

 Score = 225 (84.3 bits), Expect = 1.1e-18, P = 1.1e-18
 Identities = 43/45 (95%), Positives = 45/45 (100%)

Query:     1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
             MSNEYDYLFKLLLIGDSSVGKSCLLLRFADD+Y+DSYISTIGVDF
Sbjct:     1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDAYIDSYISTIGVDF 45

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:0005515 "protein binding" evidence=IPI

GO:0030742 "GTP-dependent protein binding" evidence=IPI

GO:0080115 "myosin XI tail binding" evidence=IPI

GO:0000139 "Golgi membrane" evidence=IDA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IMP

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

TAIR|locus:2129161 RAB1C "RAB GTPase homolog 1C" [Arabidopsis thaliana (taxid:3702)]

 Score = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 41/45 (91%), Positives = 43/45 (95%)

Query:     1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
             M+ EYDYLFKLLLIGDS VGKSCLLLRFADDSY+DSYISTIGVDF
Sbjct:     1 MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF 45

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:0005773 "vacuole" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0009555 "pollen development" evidence=IMP

GO:0009860 "pollen tube growth" evidence=IGI

GO:0009506 "plasmodesma" evidence=IDA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2171484 RAB1A "RAB GTPase homolog 1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 41/45 (91%), Positives = 43/45 (95%)

Query:     1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
             M+ EYDYLFKLLLIGDS VGKSCLLLRFADDSY+DSYISTIGVDF
Sbjct:     1 MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF 45

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:0005829 "cytosol" evidence=RCA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0009860 "pollen tube growth" evidence=IGI

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

TAIR|locus:2205603 RA-5 "RAS 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 207 (77.9 bits), Expect = 8.6e-17, P = 8.6e-17
 Identities = 40/45 (88%), Positives = 43/45 (95%)

Query:     1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
             M+ EYDYLFKLLLIGDS VGKSCLLLRF+DDSYV+SYISTIGVDF
Sbjct:     1 MNPEYDYLFKLLLIGDSGVGKSCLLLRFSDDSYVESYISTIGVDF 45

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:0006888 "ER to Golgi vesicle-mediated transport" evidence=IMP;IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0046686 "response to cadmium ion" evidence=IEP

GO:0000139 "Golgi membrane" evidence=IDA

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

CGD|CAL0001430 YPT1 [Candida albicans (taxid:5476)]

 Score = 204 (76.9 bits), Expect = 1.8e-16, P = 1.8e-16
 Identities = 39/45 (86%), Positives = 41/45 (91%)

Query:     1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
             M+NEYDYLFKLLLIGDS VGKSCLLLRFADD+Y   YISTIGVDF
Sbjct:     1 MNNEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTPDYISTIGVDF 45

GO:0009306 "protein secretion" evidence=IGI;IMP

GO:0000390 "spliceosomal complex disassembly" evidence=ISS

GO:0035690 "cellular response to drug" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IMP

GO:0005795 "Golgi stack" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0000407 "pre-autophagosomal structure" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005789 "endoplasmic reticulum membrane" evidence=IEA

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

GO:0000139 "Golgi membrane" evidence=IEA

GO:0034498 "early endosome to Golgi transport" evidence=IEA

GO:0048211 "Golgi vesicle docking" evidence=IEA

GO:0032258 "CVT pathway" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0035494 "SNARE complex disassembly" evidence=IEA

GO:0090114 "COPII-coated vesicle budding" evidence=IEA

GO:0006890 "retrograde vesicle-mediated transport, Golgi to ER" evidence=IEA

GO:0048194 "Golgi vesicle budding" evidence=IEA

GO:0070317 "negative regulation of G0 to G1 transition" evidence=IEA

GO:0032456 "endocytic recycling" evidence=IEA

GO:0006461 "protein complex assembly" evidence=IEA

GO:0016236 "macroautophagy" evidence=IEA

GO:0000149 "SNARE binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

UNIPROTKB|Q5AI00 YPT1 "Likely RAB family GTP binding protein involved in secretion" [Candida albicans SC5314 (taxid:237561)]

 Score = 204 (76.9 bits), Expect = 1.8e-16, P = 1.8e-16
 Identities = 39/45 (86%), Positives = 41/45 (91%)

Query:     1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
             M+NEYDYLFKLLLIGDS VGKSCLLLRFADD+Y   YISTIGVDF
Sbjct:     1 MNNEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTPDYISTIGVDF 45

GO:0000390 "spliceosomal complex disassembly" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IMP

GO:0009306 "protein secretion" evidence=IGI;IMP

GO:0035690 "cellular response to drug" evidence=IMP

ASPGD|ASPL0000016908 srgB [Emericella nidulans (taxid:162425)]

 Score = 203 (76.5 bits), Expect = 2.3e-16, P = 2.3e-16
 Identities = 39/45 (86%), Positives = 42/45 (93%)

Query:     1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
             M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct:     1 MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 45

GO:0006995 "cellular response to nitrogen starvation" evidence=IEA

GO:0070317 "negative regulation of G0 to G1 transition" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

DICTYBASE|DDB_G0277867 rab1B "Rab GTPase" [Dictyostelium discoideum (taxid:44689)]

 Score = 203 (76.5 bits), Expect = 2.3e-16, P = 2.3e-16
 Identities = 39/45 (86%), Positives = 42/45 (93%)

Query:     1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
             M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct:     1 MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 45

GO:0015031 "protein transport" evidence=IEA

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

GO:0005525 "GTP binding" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

UNIPROTKB|F1NNL7 RAB1A "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 203 (76.5 bits), Expect = 2.3e-16, P = 2.3e-16
 Identities = 39/45 (86%), Positives = 42/45 (93%)

Query:     1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
             M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct:     4 MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 48

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

UNIPROTKB|A1L528 RAB1A "RAB1A, member RAS oncogene family" [Bos taurus (taxid:9913)]

 Score = 203 (76.5 bits), Expect = 2.3e-16, P = 2.3e-16
 Identities = 39/45 (86%), Positives = 42/45 (93%)

Query:     1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
             M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct:     4 MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 48

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" 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)
P34140	RAB1B_DICDI	No assigned EC number	0.8666	0.7894	0.2184	yes	no
Q06AU7	RAB1B_PIG	No assigned EC number	0.8666	0.7894	0.2238	yes	no
P10536	RAB1B_RAT	No assigned EC number	0.8666	0.7894	0.2238	yes	no
Q9D1G1	RAB1B_MOUSE	No assigned EC number	0.8666	0.7894	0.2238	yes	no
Q05737	YPTM2_MAIZE	No assigned EC number	0.9111	0.7894	0.2216	N/A	no
Q9ZRE2	RABD1_ARATH	No assigned EC number	0.9555	0.7894	0.2195	yes	no
Q92928	RAB1C_HUMAN	No assigned EC number	0.8222	0.7894	0.2238	yes	no
Q9H0U4	RAB1B_HUMAN	No assigned EC number	0.8666	0.7894	0.2238	yes	no
P11620	YPT1_SCHPO	No assigned EC number	0.8666	0.7894	0.2216	yes	no
P01123	YPT1_YEAST	No assigned EC number	0.8	0.7894	0.2184	yes	no
Q4UB16	RAB1_THEAN	No assigned EC number	0.7380	0.7368	0.1909	yes	no
Q2HJH2	RAB1B_BOVIN	No assigned EC number	0.8666	0.7894	0.2238	yes	no
P16976	YPTM1_MAIZE	No assigned EC number	0.9555	0.7894	0.2163	N/A	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

Your Input: OsI_16033 Putative uncharacterized protein (532 aa) (Oryza sativa Indica)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	57
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	1e-24
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	3e-23
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	2e-20
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	4e-18
pfam00071	162	pfam00071, Ras, Ras family	2e-17
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	5e-16
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	1e-14
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	2e-14
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	7e-14
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	5e-13
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	2e-12
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	2e-12
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	3e-12
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	6e-12
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	1e-11
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	3e-11
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	5e-11
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	6e-11
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	1e-10
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	1e-09
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	1e-09
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	5e-09
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	7e-09
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	8e-09
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	1e-08
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	2e-08
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	2e-08
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	6e-08
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	1e-07
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	2e-07
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	6e-07
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	1e-06
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	2e-06
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	5e-06
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	7e-06
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	8e-06
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	1e-05
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	2e-05
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	3e-05
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	3e-05
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	3e-05
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	3e-05
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	3e-05
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	4e-05
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	5e-05
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	1e-04
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	1e-04
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	1e-04
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	2e-04
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	2e-04
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	3e-04
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	4e-04
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	4e-04
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	0.001
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	0.001
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	0.001
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	0.001
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	0.001
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	0.001
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	0.002
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	0.002

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

 Score = 88.9 bits (221), Expect = 1e-24
 Identities = 35/39 (89%), Positives = 37/39 (94%)

Query: 7  YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          YLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 1  YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 39

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

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

 Score = 85.0 bits (211), Expect = 3e-23
 Identities = 32/40 (80%), Positives = 37/40 (92%)

Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          DYLFKLLLIGDS VGKSCLLLRF++DS+  S+ISTIG+DF
Sbjct: 1  DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDF 40

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

 Score = 79.1 bits (195), Expect = 2e-20
 Identities = 31/42 (73%), Positives = 38/42 (90%)

Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +YD+LFKLL+IGDS VGKS LLLRFAD+++  SYI+TIGVDF
Sbjct: 2  DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDF 43

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 71.8 bits (177), Expect = 4e-18
 Identities = 24/37 (64%), Positives = 28/37 (75%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          FK++LIGDS VGKS LL RF D  + + Y STIGVDF
Sbjct: 1  FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDF 37

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 69.8 bits (172), Expect = 2e-17
 Identities = 21/36 (58%), Positives = 27/36 (75%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          KL+L+GD  VGKS LL+RF  + + + YI TIGVDF
Sbjct: 1  KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDF 36

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

 Score = 66.3 bits (163), Expect = 5e-16
 Identities = 25/39 (64%), Positives = 32/39 (82%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          FK++LIGDS VGK+ LLLRF D+ + ++Y STIGVDF S
Sbjct: 1  FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKS 39

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

 Score = 62.7 bits (153), Expect = 1e-14
 Identities = 25/37 (67%), Positives = 29/37 (78%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           K+LLIGDS VGKS LLLRF DD++ +   STIGVDF
Sbjct: 1  LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDF 37

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|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score = 62.3 bits (151), Expect = 2e-14
 Identities = 26/37 (70%), Positives = 31/37 (83%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          F+LLLIGDS VGK+CLL RF D+ +  S+ISTIGVDF
Sbjct: 1  FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDF 37

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

 Score = 61.0 bits (149), Expect = 7e-14
 Identities = 24/40 (60%), Positives = 29/40 (72%)

Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          DYLFK++LIGDS VGKS LL RF  + +     STIGV+F
Sbjct: 1  DYLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEF 40

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

 Score = 58.6 bits (142), Expect = 5e-13
 Identities = 21/40 (52%), Positives = 32/40 (80%)

Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          D+LFK++LIGDS+VGK+C++ RF   ++ +   +TIGVDF
Sbjct: 1  DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDF 40

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 58.4 bits (141), Expect = 2e-12
 Identities = 25/45 (55%), Positives = 33/45 (73%)

Query: 3  NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          +EYDYLFK++LIGDS VGKS +L RF  + +     STIGV+F +
Sbjct: 7  HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFAT 51

Length = 216

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

 Score = 57.2 bits (138), Expect = 2e-12
 Identities = 22/38 (57%), Positives = 33/38 (86%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +FKLL+IG+SSVGK+  L R+ADDS+  +++ST+G+DF
Sbjct: 1  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDF 38

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

 Score = 57.1 bits (138), Expect = 3e-12
 Identities = 21/41 (51%), Positives = 30/41 (73%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          YDYL KLL +GDS VGK+  L R+ D+ +   +I+T+G+DF
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|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score = 55.9 bits (135), Expect = 6e-12
 Identities = 23/41 (56%), Positives = 30/41 (73%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          Y YLFK ++IGD+ VGKSCLLL+F D  +   +  TIGV+F
Sbjct: 1  YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEF 41

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 56.1 bits (135), Expect = 1e-11
 Identities = 23/41 (56%), Positives = 30/41 (73%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          Y YLFK ++IGD+ VGKSCLLL+F D  +   +  TIGV+F
Sbjct: 3  YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEF 43

Length = 210

>gnl|CDD|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score = 54.8 bits (132), Expect = 3e-11
 Identities = 21/41 (51%), Positives = 29/41 (70%)

Query: 7  YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          Y F+L++IGDS+VGKS LL RF +  + +    T+GVDF S
Sbjct: 1  YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFS 41

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

 Score = 53.4 bits (129), Expect = 5e-11
 Identities = 18/39 (46%), Positives = 29/39 (74%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
           KL+ +GD SVGK+ ++ RF  D++ + Y +TIG+DF+S
Sbjct: 1  HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLS 39

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

 Score = 53.3 bits (129), Expect = 6e-11
 Identities = 20/39 (51%), Positives = 30/39 (76%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          FKL+L+GDSSVGKS ++LRF  + + ++  STIG  F++
Sbjct: 2  FKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLT 40

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

 Score = 53.1 bits (128), Expect = 1e-10
 Identities = 17/37 (45%), Positives = 25/37 (67%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          FK+L+IGD  VGK+ ++ R+    +   Y +TIGVDF
Sbjct: 1  FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDF 37

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

 Score = 50.1 bits (120), Expect = 1e-09
 Identities = 19/37 (51%), Positives = 27/37 (72%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          FK+++IGDS+VGK+CL  RF    + +   +TIGVDF
Sbjct: 3  FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDF 39

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

 Score = 50.3 bits (120), Expect = 1e-09
 Identities = 21/43 (48%), Positives = 32/43 (74%)

Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV 46
          +YD+LFK++LIG++ VGK+CL+ RF    +     +TIGVDF+
Sbjct: 3  DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFM 45

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

 Score = 48.4 bits (116), Expect = 5e-09
 Identities = 14/37 (37%), Positives = 26/37 (70%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           K++++GDS VGK+ L+ ++ +  + + Y +TIG DF
Sbjct: 1  LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADF 37

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 48.5 bits (115), Expect = 7e-09
 Identities = 26/44 (59%), Positives = 30/44 (68%), Gaps = 1/44 (2%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          S+ YD  FK+LLIGDS VGKS LL+ F   S V+    TIGVDF
Sbjct: 8  SSGYDLSFKILLIGDSGVGKSSLLVSFISSS-VEDLAPTIGVDF 50

Length = 211

>gnl|CDD|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score = 47.9 bits (114), Expect = 8e-09
 Identities = 19/39 (48%), Positives = 27/39 (69%)

Query: 7  YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          Y+FK ++IGD  VGKSCLL +F +  ++     TIGV+F
Sbjct: 1  YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEF 39

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

 Score = 48.0 bits (114), Expect = 1e-08
 Identities = 15/43 (34%), Positives = 24/43 (55%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          +   FK++++GD  VGK+ LL R   D + + Y  TIG    +
Sbjct: 2  FMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPA 44

Length = 219

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

 Score = 47.5 bits (113), Expect = 2e-08
 Identities = 17/39 (43%), Positives = 27/39 (69%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
           K++++GD + GK+ L+ RFA + +  SY  TIG+DF S
Sbjct: 1  IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFS 39

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|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score = 46.7 bits (111), Expect = 2e-08
 Identities = 18/39 (46%), Positives = 25/39 (64%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          FK L+IG +  GKSCLL +F ++ +      TIGV+F S
Sbjct: 1  FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGS 39

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

 Score = 45.4 bits (108), Expect = 6e-08
 Identities = 15/36 (41%), Positives = 27/36 (75%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          K++ +G+S VGKSC++ R+ +  +V  Y+ TIG+D+
Sbjct: 2  KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDY 37

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

 Score = 45.2 bits (107), Expect = 1e-07
 Identities = 20/38 (52%), Positives = 32/38 (84%), Gaps = 1/38 (2%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDF 45
          FK++L+GDS VGK+CLL+RF D +++  S+I+T+G+ F
Sbjct: 1  FKVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQF 38

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

 Score = 44.0 bits (104), Expect = 2e-07
 Identities = 15/37 (40%), Positives = 25/37 (67%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV 46
          K++++G+ +VGKS ++ RF    +   Y  TIGVDF+
Sbjct: 2  KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFL 38

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

 Score = 42.9 bits (101), Expect = 6e-07
 Identities = 19/36 (52%), Positives = 28/36 (77%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          K++++GD SVGK+CL+ RF  D +  +Y +TIGVDF
Sbjct: 2  KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDF 37

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

 Score = 42.1 bits (100), Expect = 1e-06
 Identities = 11/32 (34%), Positives = 23/32 (71%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          K++++GD +VGK+CLL+ +  + +   Y+ T+
Sbjct: 2  KIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV 33

Members of the Rho (Ras homology) family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy. Length = 171

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

 Score = 41.8 bits (98), Expect = 2e-06
 Identities = 16/40 (40%), Positives = 26/40 (65%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          L K++L+GD  VGKS L+ R+  + +      TIGV+F++
Sbjct: 5  LLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLN 44

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|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score = 40.2 bits (95), Expect = 5e-06
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          +KL+++G   VGKS L ++F    +VD Y  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|133321 cd04121, Rab40, Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c

 Score = 40.3 bits (94), Expect = 7e-06
 Identities = 19/41 (46%), Positives = 24/41 (58%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          YDYL K LL+GDS VGK  +L    D S    Y   +G+D+
Sbjct: 3  YDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDY 43

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

 Score = 39.9 bits (94), Expect = 8e-06
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          +KL+++G   VGKS L ++F    +VD Y  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|240284 PTZ00132, PTZ00132, GTP-binding nuclear protein Ran; Provisional

 Score = 39.3 bits (92), Expect = 1e-05
 Identities = 15/36 (41%), Positives = 22/36 (61%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVD 44
          FKL+L+GD  VGK+  + R     +   YI T+GV+
Sbjct: 10 FKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVE 45

Length = 215

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

 Score = 38.7 bits (91), Expect = 2e-05
 Identities = 13/39 (33%), Positives = 25/39 (64%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          FK++L+G+  VGK+ L+LR+ ++ + + + ST    F  
Sbjct: 1  FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQ 39

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|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 38.5 bits (89), Expect = 3e-05
 Identities = 13/33 (39%), Positives = 26/33 (78%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
           K +++GD +VGK+CLL+ +A+D++ + Y+ T+
Sbjct: 1  LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV 33

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interactions with CFTR-associated ligand (CAL). The GTP-bound form of TC10 directs the trafficking of CFTR from the juxtanuclear region to the secretory pathway toward the plasma membrane, away from CAL-mediated DFTR degradation in the lysosome. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 38.1 bits (89), Expect = 3e-05
 Identities = 12/42 (28%), Positives = 22/42 (52%), Gaps = 1/42 (2%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDS-YVDSYISTIGVDFVSLS 49
           K++++GD +VGKS LL R   +   +  Y      ++V+  
Sbjct: 2  IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTV 43

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

 Score = 38.5 bits (90), Expect = 3e-05
 Identities = 13/36 (36%), Positives = 24/36 (66%)

Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          D   K++++GD   GK+CLL+ +A  S+ + Y+ T+
Sbjct: 1  DLKVKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTV 36

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

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

 Score = 38.4 bits (90), Expect = 3e-05
 Identities = 14/32 (43%), Positives = 22/32 (68%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          K+ ++G  SVGKS L ++F +  +V+SY  TI
Sbjct: 3  KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTI 34

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

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

 Score = 37.9 bits (89), Expect = 3e-05
 Identities = 14/32 (43%), Positives = 20/32 (62%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          KL+++G   VGKS L +RF    +V+ Y  TI
Sbjct: 1  KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTI 32

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

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

 Score = 38.2 bits (89), Expect = 4e-05
 Identities = 14/38 (36%), Positives = 28/38 (73%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++V+
Sbjct: 3  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA 40

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranylgeranylated forms; however, RhoB can be present in palmitoylated, farnesylated, and geranylgeranylated forms. RhoA and RhoC are highly relevant for tumor progression and invasiveness; however, RhoB has recently been suggested to be a tumor suppressor. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

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

 Score = 37.7 bits (87), Expect = 5e-05
 Identities = 12/32 (37%), Positives = 23/32 (71%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          K +++GD +VGK+CLL+ +  +++   YI T+
Sbjct: 5  KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTV 36

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 191

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

 Score = 36.9 bits (86), Expect = 1e-04
 Identities = 13/36 (36%), Positives = 22/36 (61%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVD 44
          FKL+L+GD   GK+  + R     +   Y++T+GV+
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 = 36.6 bits (85), Expect = 1e-04
 Identities = 13/36 (36%), Positives = 27/36 (75%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          K+ L+GD+ +GK+ L++++ +  + + YI T+GV+F
Sbjct: 2  KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNF 37

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

 Score = 36.4 bits (85), Expect = 1e-04
 Identities = 11/31 (35%), Positives = 24/31 (77%)

Query: 11 LLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          L+++GD +VGK+CLL+ +  +++ + Y+ T+
Sbjct: 1  LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTV 31

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

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

 Score = 36.3 bits (84), Expect = 2e-04
 Identities = 15/32 (46%), Positives = 24/32 (75%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          K++L+GDS  GK+ LL  FA DS+ ++Y+ T+
Sbjct: 3  KIVLVGDSQCGKTALLQVFAKDSFPENYVPTV 34

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 176

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

 Score = 36.3 bits (84), Expect = 2e-04
 Identities = 13/36 (36%), Positives = 20/36 (55%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVD 44
          FKL+++GD   GK+  + R     +   Y  TIGV+
Sbjct: 14 FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVE 49

Length = 219

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

 Score = 35.8 bits (82), Expect = 3e-04
 Identities = 14/32 (43%), Positives = 24/32 (75%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          K++++GD+  GK+ LL  FA D+Y +SY+ T+
Sbjct: 3  KIVVVGDTQCGKTALLHVFAKDNYPESYVPTV 34

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in spermatocytes and early spermatids, with male-germ-cell Rac GTPase-activating protein (MgcRacGAP), where it localizes to the Golgi-derived pro-acrosomal vesicle. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 221

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

 Score = 35.2 bits (81), Expect = 4e-04
 Identities = 14/33 (42%), Positives = 23/33 (69%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          +++++ G   VGKS L+LRF   ++ +SYI TI
Sbjct: 2  YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTI 34

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score = 35.2 bits (81), Expect = 4e-04
 Identities = 12/33 (36%), Positives = 23/33 (69%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          +K++++G   VGKS L ++F  + +++SY  TI
Sbjct: 2  YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTI 34

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 feature of most Ras proteins. Length = 168

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

 Score = 33.8 bits (78), Expect = 0.001
 Identities = 11/38 (28%), Positives = 19/38 (50%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+L+G   VGK+ L  +   + +     ST G++   
Sbjct: 3  KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQD 40

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

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

 Score = 34.1 bits (78), Expect = 0.001
 Identities = 14/39 (35%), Positives = 25/39 (64%), Gaps = 1/39 (2%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDS-YISTIGVDFVS 47
          K++++G  SVGK+ L+ R+    ++   Y +TIG  FV+
Sbjct: 2  KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVA 40

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

 Score = 34.1 bits (78), Expect = 0.001
 Identities = 16/31 (51%), Positives = 22/31 (70%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYIST 40
          K++L+GDS+VGKS L+ RF  D Y    +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 = 33.9 bits (78), Expect = 0.001
 Identities = 13/33 (39%), Positives = 21/33 (63%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          +KL+++G   VGKS L ++   + +VD Y  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|206708 cd04136, Rap_like, Rap-like family consists of Rap1, Rap2 and RSR1

 Score = 33.7 bits (77), Expect = 0.001
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          +KL+++G   VGKS L ++F    +VD Y  TI
Sbjct: 2  YKLVVLGSGGVGKSALTVQFVQGIFVDKYDPTI 34

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. Rap2 is involved in multiple functions, including activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton and activation of the Wnt/beta-catenin signaling pathway in embryonic Xenopus. A number of effector proteins for Rap2 have been identified, including isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK), and the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. RSR1 is the fungal homolog of Rap1 and Rap2. In budding yeasts, it is involved in selecting a site for bud growth, which directs the establishment of cell polarization. The Rho family GTPase Cdc42 and its GEF, Cdc24, then establish an axis of polarized growth. It is believed that Cdc42 interacts directly with RSR1 in vivo. In filamentous fungi such as Ashbya gossypii, RSR1 is a key regulator of polar growth in the hypha. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

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

 Score = 33.8 bits (77), Expect = 0.001
 Identities = 16/36 (44%), Positives = 27/36 (75%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          ++++IG   VGK+ L+ RF DD++ ++  ST+GVDF
Sbjct: 2  QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDF 37

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

 Score = 33.6 bits (77), Expect = 0.002
 Identities = 12/32 (37%), Positives = 23/32 (71%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          K +++GD +VGK+CLL+ +  +++   YI T+
Sbjct: 3  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV 34

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleotide association and is more efficiently activated by the RacGEF Tiam1. Both Rac1 and Rac3 have been implicated in the regulation of cell migration and invasion in human metastatic breast cancer. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 33.5 bits (76), Expect = 0.002
 Identities = 13/32 (40%), Positives = 23/32 (71%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          K++++GDS  GK+ LL  FA D + ++Y+ T+
Sbjct: 7  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV 38

Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight junction formation. Rnd3/RhoE is underexpressed in prostate cancer cells both in vitro and in vivo; re-expression of Rnd3/RhoE suppresses cell cycle progression and increases apoptosis, suggesting it may play a role in tumor suppression. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 182

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	57
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	99.69
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	99.5
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	99.47
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	99.46
KOG0394	210	consensus Ras-related GTPase [General function pre	99.43
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.35
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.31
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.31
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	99.31
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	99.31
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.3
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.3
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.27
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.27
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.26
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.26
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.26
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.26
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.25
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.25
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.24
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	99.24
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.24
PLN03110	216	Rab GTPase; Provisional	99.23
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.23
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.23
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.23
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.23
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.23
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.22
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.22
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.22
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.22
PLN00023	334	GTP-binding protein; Provisional	99.21
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	99.21
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.2
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.2
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.2
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.19
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.19
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.18
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.18
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.16
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.16
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.16
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.16
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.15
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.14
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.14
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.14
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.14
PLN03108	210	Rab family protein; Provisional	99.13
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.13
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.12
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.1
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.09
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.09
PTZ00369	189	Ras-like protein; Provisional	99.09
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.08
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.08
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.08
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.07
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.07
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.06
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.06
COG1100	219	GTPase SAR1 and related small G proteins [General	99.06
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.06
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.06
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.05
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.03
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.03
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.03
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.02
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.02
PLN03118	211	Rab family protein; Provisional	99.01
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.01
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.0
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	98.99
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	98.96
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	98.96
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	98.96
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	98.95
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	98.95
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	98.95
KOG0395	196	consensus Ras-related GTPase [General function pre	98.95
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	98.95
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	98.93
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	98.93
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	98.93
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	98.91
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	98.91
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	98.91
PTZ00133	182	ADP-ribosylation factor; Provisional	98.9
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	98.9
PLN00223	181	ADP-ribosylation factor; Provisional	98.9
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	98.88
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	98.87
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	98.87
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	98.87
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	98.85
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	98.84
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	98.83
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	98.83
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	98.83
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	98.83
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	98.81
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	98.81
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	98.79
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	98.78
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	98.75
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	98.75
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	98.74
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	98.73
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	98.7
KOG4252	246	consensus GTP-binding protein [Signal transduction	98.7
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	98.69
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.69
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	98.68
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	98.67
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	98.66
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	98.66
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	98.61
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	98.6
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	98.59
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	98.58
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	98.58
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	98.57
smart00178	184	SAR Sar1p-like members of the Ras-family of small	98.56
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	98.55
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	98.54
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	98.5
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	98.5
PRK04213	201	GTP-binding protein; Provisional	98.47
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	98.45
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	98.41
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	98.41
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.3
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	98.29
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	98.28
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	98.27
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	98.24
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	98.2
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	98.16
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.16
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.12
KOG1673	205	consensus Ras GTPases [General function prediction	98.12
cd04105	203	SR_beta Signal recognition particle receptor, beta	98.11
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	98.11
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	98.08
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.06
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	98.01
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	97.97
PRK15494	339	era GTPase Era; Provisional	97.95
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	97.94
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	97.92
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	97.91
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	97.91
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	97.86
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	97.85
PRK03003	472	GTP-binding protein Der; Reviewed	97.85
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	97.84
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	97.8
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	97.77
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	97.75
PRK15467	158	ethanolamine utilization protein EutP; Provisional	97.75
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	97.75
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	97.72
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	97.71
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	97.7
cd00881	189	GTP_translation_factor GTP translation factor fami	97.69
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.68
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	97.68
PRK03003	472	GTP-binding protein Der; Reviewed	97.67
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	97.67
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	97.67
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	97.65
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	97.6
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.59
PRK00093	435	GTP-binding protein Der; Reviewed	97.59
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	97.58
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	97.58
PRK08118	167	topology modulation protein; Reviewed	97.57
PF09439	181	SRPRB: Signal recognition particle receptor beta s	97.55
PRK07261	171	topology modulation protein; Provisional	97.55
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	97.54
PRK09602	396	translation-associated GTPase; Reviewed	97.52
PRK11058	426	GTPase HflX; Provisional	97.52
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	97.5
COG0218	200	Predicted GTPase [General function prediction only	97.48
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	97.45
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.45
cd01881	176	Obg_like The Obg-like subfamily consists of five w	97.45
cd01896	233	DRG The developmentally regulated GTP-binding prot	97.44
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	97.43
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	97.42
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	97.4
PRK00089	292	era GTPase Era; Reviewed	97.39
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	97.33
smart00382	148	AAA ATPases associated with a variety of cellular	97.32
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.32
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	97.31
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.3
PRK00093	435	GTP-binding protein Der; Reviewed	97.28
PRK06217	183	hypothetical protein; Validated	97.28
PF00004	132	AAA: ATPase family associated with various cellula	97.28
PF05729	166	NACHT: NACHT domain	97.27
PRK12288	347	GTPase RsgA; Reviewed	97.26
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	97.26
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.23
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.23
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	97.23
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.22
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.22
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	97.21
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.21
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.21
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	97.2
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	97.19
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.18
PRK14738	206	gmk guanylate kinase; Provisional	97.16
PF13173	128	AAA_14: AAA domain	97.15
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.14
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.14
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.12
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	97.12
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.11
PRK03839	180	putative kinase; Provisional	97.11
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	97.11
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.11
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	97.1
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.1
PRK14532	188	adenylate kinase; Provisional	97.09
PRK14737	186	gmk guanylate kinase; Provisional	97.09
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.09
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.09
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	97.08
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	97.08
PRK12289	352	GTPase RsgA; Reviewed	97.07
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	97.07
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.07
PRK00300	205	gmk guanylate kinase; Provisional	97.04
PRK13695	174	putative NTPase; Provisional	97.03
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.03
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.03
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.02
COG1162	301	Predicted GTPases [General function prediction onl	97.02
KOG3883	198	consensus Ras family small GTPase [Signal transduc	97.02
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.01
PRK14530	215	adenylate kinase; Provisional	97.0
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	96.99
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.98
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.98
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.98
TIGR00101	199	ureG urease accessory protein UreG. This model rep	96.97
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	96.96
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	96.96
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	96.95
PRK14531	183	adenylate kinase; Provisional	96.94
COG0486	454	ThdF Predicted GTPase [General function prediction	96.94
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	96.93
PRK02496	184	adk adenylate kinase; Provisional	96.91
PRK00098	298	GTPase RsgA; Reviewed	96.91
PRK09563	287	rbgA GTPase YlqF; Reviewed	96.9
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.9
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.9
PRK08233	182	hypothetical protein; Provisional	96.89
PTZ00088	229	adenylate kinase 1; Provisional	96.88
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.88
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.87
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.86
PHA00729	226	NTP-binding motif containing protein	96.85
COG5019	373	CDC3 Septin family protein [Cell division and chro	96.83
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.83
PRK05480	209	uridine/cytidine kinase; Provisional	96.83
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.82
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.82
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	96.82
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.82
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	96.81
PRK13949	169	shikimate kinase; Provisional	96.81
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.8
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.8
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.79
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.79
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	96.79
PRK07429	327	phosphoribulokinase; Provisional	96.79
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.78
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.78
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	96.77
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.77
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	96.77
PRK00279	215	adk adenylate kinase; Reviewed	96.75
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	96.75
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.75
COG3638	258	ABC-type phosphate/phosphonate transport system, A	96.74
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	96.74
PF13479	213	AAA_24: AAA domain	96.74
PRK05057	172	aroK shikimate kinase I; Reviewed	96.74
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.73
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.73
cd03269	210	ABC_putative_ATPase This subfamily is involved in	96.72
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	96.72
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	96.72
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	96.72
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.72
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.71
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.71
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	96.7
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.7
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.7
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.7
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	96.7
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	96.69
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	96.69
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.68
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	96.67
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	96.67
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	96.67
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	96.67
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	96.66
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	96.66
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.66
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	96.66
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.65
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.65
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.64
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	96.64
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.64
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	96.64
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	96.63
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	96.63
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	96.63
PRK10908	222	cell division protein FtsE; Provisional	96.63
PRK14528	186	adenylate kinase; Provisional	96.63
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	96.62
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	96.62
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.62
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	96.62
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.62
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	96.62
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	96.61
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.61
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	96.6
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	96.6
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	96.6
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.59
PRK06547	172	hypothetical protein; Provisional	96.59
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	96.59
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	96.59
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.59
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	96.58
cd01128	249	rho_factor Transcription termination factor rho is	96.58
PRK06762	166	hypothetical protein; Provisional	96.57
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	96.57
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	96.57
cd01918	149	HprK_C HprK/P, the bifunctional histidine-containi	96.57
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.57
PRK00131	175	aroK shikimate kinase; Reviewed	96.57
COG4525	259	TauB ABC-type taurine transport system, ATPase com	96.57
PRK00625	173	shikimate kinase; Provisional	96.57
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	96.56
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.56
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	96.56
COG1159	298	Era GTPase [General function prediction only]	96.56
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.56
PTZ00258	390	GTP-binding protein; Provisional	96.56
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.56
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	96.55
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	96.55
PRK14526	211	adenylate kinase; Provisional	96.55
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	96.55
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	96.54
PRK13851	344	type IV secretion system protein VirB11; Provision	96.54
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.54
CHL00189	742	infB translation initiation factor 2; Provisional	96.53
COG1160	444	Predicted GTPases [General function prediction onl	96.53
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.53
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.53
cd03215	182	ABC_Carb_Monos_II This family represents domain II	96.53
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	96.51
PRK13947	171	shikimate kinase; Provisional	96.51
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	96.51
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.51
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.51
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.51
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.5
PRK13796	365	GTPase YqeH; Provisional	96.5
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	96.5
PRK14529	223	adenylate kinase; Provisional	96.49
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	96.49
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	96.49
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	96.48
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	96.48
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	96.48
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	96.47
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	96.47
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	96.47
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	96.47
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	96.47
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.46
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	96.46
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	96.46
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	96.45
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	96.45
PRK12297	424	obgE GTPase CgtA; Reviewed	96.45
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.45
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	96.44
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.44
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	96.43
PHA02530	300	pseT polynucleotide kinase; Provisional	96.43
cd03246	173	ABCC_Protease_Secretion This family represents the	96.43
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	96.43
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	96.43
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	96.43
PRK05541	176	adenylylsulfate kinase; Provisional	96.43
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	96.42
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	96.42
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	96.42
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.42
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	96.42
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	96.41
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	96.41
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.41
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.41
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	96.41
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	96.4
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	96.4
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	96.4
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	96.39
PLN02200	234	adenylate kinase family protein	96.39
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	96.39
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.39
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.39
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	96.38
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	96.38
PRK09601	364	GTP-binding protein YchF; Reviewed	96.38
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.38
PRK14527	191	adenylate kinase; Provisional	96.38
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	96.37
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	96.37
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	96.37
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	96.37
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	96.37
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	96.36
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	96.36
COG1161	322	Predicted GTPases [General function prediction onl	96.36
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	96.36
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	96.36
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.36
COG1118	345	CysA ABC-type sulfate/molybdate transport systems,	96.36
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	96.36
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.36
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	96.36
PRK12299	335	obgE GTPase CgtA; Reviewed	96.35
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.35
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	96.35
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	96.35
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	96.35
PRK04182	180	cytidylate kinase; Provisional	96.35
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	96.34
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	96.34
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	96.34
PRK13768	253	GTPase; Provisional	96.34
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	96.34
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	96.34
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	96.33
PRK04040	188	adenylate kinase; Provisional	96.33
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	96.33
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.33
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	96.33
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	96.33
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.33
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	96.33
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	96.33
PRK09825	176	idnK D-gluconate kinase; Provisional	96.33
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	96.32
cd03234	226	ABCG_White The White subfamily represents ABC tran	96.32
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	96.32
COG1160	444	Predicted GTPases [General function prediction onl	96.32
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.32
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	96.31
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	96.31
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	96.31
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	96.31
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	96.31
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	96.31
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.31
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	96.31
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.31
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.31
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	96.31
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	96.31
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	96.3
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	96.3
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	96.3
PRK05306	787	infB translation initiation factor IF-2; Validated	96.29
PTZ00301	210	uridine kinase; Provisional	96.29
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	96.29
COG3596	296	Predicted GTPase [General function prediction only	96.29
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	96.28

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

Probab=99.69  E-value=9e-17  Score=91.30  Aligned_cols=53  Identities=64%  Similarity=1.078  Sum_probs=49.4

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYM   53 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~~   53 (57)
                      |+...+|.||++++|++|||||+|+.||..+.|.+++.+|||+||..+.+...
T Consensus         2 ~~~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~   54 (205)
T KOG0084|consen    2 MNPEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELD   54 (205)
T ss_pred             CCcccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeec
Confidence            56778999999999999999999999999999999999999999999988653

>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=99.50  E-value=7.3e-14  Score=79.92  Aligned_cols=51  Identities=65%  Similarity=1.034  Sum_probs=47.4

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMY   54 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~~~   54 (57)
                      ++++.+|++++|+++||||+++.||..+.|...+..|+|+||+.+.+....
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g   58 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDG   58 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCC
Confidence            678899999999999999999999999999999999999999999876543

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

Probab=99.47  E-value=2.5e-13  Score=76.13  Aligned_cols=48  Identities=52%  Similarity=0.760  Sum_probs=43.7

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .+...+|++++|++|||||+|+.||..+.|.+..+.|||.||+.+...
T Consensus         7 ~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~   54 (209)
T KOG0080|consen    7 GYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQ   54 (209)
T ss_pred             CcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEE
Confidence            356789999999999999999999999999999888899999988653

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

Probab=99.46  E-value=2.4e-13  Score=77.72  Aligned_cols=48  Identities=40%  Similarity=0.679  Sum_probs=44.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYM   53 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~~   53 (57)
                      ...+|++++|+.+||||+|+.||+.+.|...|.+|||+||..+...+.
T Consensus        20 ~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~   67 (221)
T KOG0094|consen   20 LKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLE   67 (221)
T ss_pred             ceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEc
Confidence            346999999999999999999999999999999999999999987554

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

Probab=99.43  E-value=1.2e-13  Score=78.35  Aligned_cols=51  Identities=33%  Similarity=0.656  Sum_probs=45.4

Q ss_pred             CCC-ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            1 MSN-EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         1 m~~-~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      |+. .....+|++++|++|||||+|+.+|...+|...|..|||.||.++...
T Consensus         1 M~~~~K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~   52 (210)
T KOG0394|consen    1 MSSLRKRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQ   52 (210)
T ss_pred             CCCcCcccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEE
Confidence            555 335679999999999999999999999999999999999999988763

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

Probab=99.35  E-value=3.7e-13  Score=74.67  Aligned_cols=51  Identities=65%  Similarity=0.999  Sum_probs=46.3

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      |..+....+|.+++|++|||||+|+.+|..+.|..+|..|+|.||+.+.+-
T Consensus         1 mar~~dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~   51 (198)
T KOG0079|consen    1 MARDYDHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVD   51 (198)
T ss_pred             CcccHHHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEee
Confidence            556667788999999999999999999999999999999999999998763

>cd04128 Spg1 Spg1p

Probab=99.31  E-value=6.9e-12  Score=70.03  Aligned_cols=43  Identities=30%  Similarity=0.748  Sum_probs=38.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +|++++|+++||||+|+.||..++|.+++.||+|.++..+.+.
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~   43 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTIS   43 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEE
Confidence            5899999999999999999999999999999999998765443

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=99.31  E-value=1e-11  Score=69.55  Aligned_cols=42  Identities=31%  Similarity=0.615  Sum_probs=38.6

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ....+|++++|+++||||+|+.+|..+.|++++.||++.+|.
T Consensus         2 ~~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~   43 (182)
T cd04172           2 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT   43 (182)
T ss_pred             CcceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeE
Confidence            356799999999999999999999999999999999998775

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

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

Probab=99.31  E-value=7.2e-12  Score=72.10  Aligned_cols=49  Identities=55%  Similarity=0.863  Sum_probs=45.4

Q ss_pred             CCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            2 SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         2 ~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +.+.+|.||++++|+++||||.|+.||..++|..+-.+|||++|.++..
T Consensus         8 ~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~   56 (222)
T KOG0087|consen    8 SEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTV   56 (222)
T ss_pred             ccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeece
Confidence            3567899999999999999999999999999999999999999998765

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

Probab=99.31  E-value=5.3e-12  Score=71.77  Aligned_cols=46  Identities=41%  Similarity=0.696  Sum_probs=42.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      ..+|++++|+++||||||+.||..+.|.+...||||..|.++.+..
T Consensus         4 ~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~   49 (200)
T KOG0092|consen    4 REFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTV   49 (200)
T ss_pred             ceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEe
Confidence            4799999999999999999999999999988999999999988744

>cd04121 Rab40 Rab40 subfamily

Probab=99.30  E-value=1.5e-11  Score=69.29  Aligned_cols=48  Identities=40%  Similarity=0.718  Sum_probs=42.3

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +.++.+|++++|+++||||+|+.+|..+.|.+.+.||++.+|......
T Consensus         2 ~~~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~   49 (189)
T cd04121           2 AYDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTIL   49 (189)
T ss_pred             CCCceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEE
Confidence            356789999999999999999999999999999999999998766543

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.30  E-value=1.5e-11  Score=67.54  Aligned_cols=47  Identities=40%  Similarity=0.871  Sum_probs=42.2

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      ++.+|++++|++++|||+|+.++..+.|.+.+.||++.++......+
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~   48 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVY   48 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEE
Confidence            46799999999999999999999999999999999999987766543

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

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

Probab=99.27  E-value=8.8e-12  Score=69.14  Aligned_cols=48  Identities=50%  Similarity=1.017  Sum_probs=44.4

Q ss_pred             CccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            3 NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         3 ~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ++.++.+|++++|++.+|||+++.||.+..|...+..|+|++|+.+.+
T Consensus        16 qnFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTv   63 (193)
T KOG0093|consen   16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV   63 (193)
T ss_pred             ccccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEe
Confidence            456789999999999999999999999999999999999999998864

>cd04120 Rab12 Rab12 subfamily

Probab=99.27  E-value=1.8e-11  Score=69.70  Aligned_cols=44  Identities=34%  Similarity=0.676  Sum_probs=39.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      +.++++|++|||||||+.||..+.|.+.+.+|+|.+|..+.+..
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~   44 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVEL   44 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEE
Confidence            36899999999999999999999999999999999998766543

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

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

Probab=99.26  E-value=1.4e-13  Score=77.18  Aligned_cols=51  Identities=41%  Similarity=0.841  Sum_probs=47.6

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMY   54 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~~~   54 (57)
                      +++|.+|.+.+|++|||||+++.+|.++.|..+.+.|+|+||..++++|..
T Consensus         5 dydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s   55 (219)
T KOG0081|consen    5 DYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNS   55 (219)
T ss_pred             cHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEec
Confidence            457788999999999999999999999999999999999999999999874

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.26  E-value=3.1e-11  Score=66.55  Aligned_cols=41  Identities=46%  Similarity=0.813  Sum_probs=37.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      |++++|++++|||+|++++..+.|.++|.||++.+|..+..
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~   42 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERF   42 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEE
Confidence            79999999999999999999999999999999999876544

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

>cd01875 RhoG RhoG subfamily

Probab=99.26  E-value=2.9e-11  Score=67.76  Aligned_cols=40  Identities=30%  Similarity=0.708  Sum_probs=37.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      .+|++++|+++||||+|+.+|..+.|++.+.||+|.+|..
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~   42 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSA   42 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeEE
Confidence            4899999999999999999999999999999999977753

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.26  E-value=2.4e-11  Score=66.83  Aligned_cols=44  Identities=27%  Similarity=0.459  Sum_probs=39.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC-CcccCCeeeeEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDFVSLSS   50 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~-~~~~~tig~~~~~~~~   50 (57)
                      ..+|++++|++|||||+|+.+|..+.|. ..+.||++.+|..+..
T Consensus         3 ~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~   47 (169)
T cd01892           3 NVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTV   47 (169)
T ss_pred             eEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEE
Confidence            4689999999999999999999999998 8899999988865543

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.

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.25  E-value=3.4e-11  Score=67.68  Aligned_cols=43  Identities=37%  Similarity=0.648  Sum_probs=38.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +|++++|++++|||+|+.++..+.|...+.||+|.+|..+.+.
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~   43 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIE   43 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEE
Confidence            5899999999999999999999999999999999998765543

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.25  E-value=3.3e-11  Score=65.76  Aligned_cols=44  Identities=70%  Similarity=1.141  Sum_probs=40.2

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +.+|++++|++++|||+|+.++..+.|...+.||++.++..+.+
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~   45 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTI   45 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEE
Confidence            56999999999999999999999999999999999998876554

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

>cd04131 Rnd Rnd subfamily

Probab=99.24  E-value=3.6e-11  Score=67.01  Aligned_cols=39  Identities=33%  Similarity=0.670  Sum_probs=36.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      .+|++++|+++||||+|+.+|..+.|++.+.||++.+|.
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~   39 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYT   39 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEE
Confidence            379999999999999999999999999999999998875

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.

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

Probab=99.24  E-value=2.5e-11  Score=69.18  Aligned_cols=46  Identities=52%  Similarity=0.881  Sum_probs=42.5

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +.+.+|++++|+.|||||+|+.||.+..|...+..|+|+||..+.+
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~   48 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMV   48 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEE
Confidence            4578999999999999999999999999999999999999987765

>cd04110 Rab35 Rab35 subfamily

Probab=99.24  E-value=4.7e-11  Score=67.18  Aligned_cols=46  Identities=67%  Similarity=1.056  Sum_probs=40.8

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      .++.+|++++|++++|||+|+.++..+.|...+.||++.++.....
T Consensus         3 ~~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~   48 (199)
T cd04110           3 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTV   48 (199)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEE
Confidence            4567999999999999999999999999998999999988865543

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

>PLN03110 Rab GTPase; Provisional

Probab=99.23  E-value=6.8e-11  Score=67.47  Aligned_cols=47  Identities=51%  Similarity=0.824  Sum_probs=42.0

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .++.+|++++|++++|||+|+.++..+.|..++.||+|.+|..+.+.
T Consensus         9 ~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~   55 (216)
T PLN03110          9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQ   55 (216)
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEE
Confidence            45779999999999999999999999999888999999998776554

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.23  E-value=4.6e-11  Score=64.34  Aligned_cols=42  Identities=36%  Similarity=0.815  Sum_probs=38.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +|++++|++++|||||+.++..++|...+.||++.++..+..
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~   42 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKV   42 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEE
Confidence            589999999999999999999999999999999998866544

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.

>cd04133 Rop_like Rop subfamily

Probab=99.23  E-value=4.2e-11  Score=66.82  Aligned_cols=39  Identities=31%  Similarity=0.718  Sum_probs=36.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      +|++++|+++||||+|+.+|..+.|.+++.||++.+|..
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~   40 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA   40 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeeeEE
Confidence            689999999999999999999999999999999987753

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,

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.23  E-value=4.5e-11  Score=68.16  Aligned_cols=44  Identities=27%  Similarity=0.418  Sum_probs=39.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      +|++++|+++||||+|+.++..+.|.+.+.||+|.++..+...+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~   44 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTY   44 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEE
Confidence            48999999999999999999999999999999998887665543

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.

>cd04122 Rab14 Rab14 subfamily

Probab=99.23  E-value=5.4e-11  Score=64.79  Aligned_cols=43  Identities=42%  Similarity=0.779  Sum_probs=38.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      .+|++++|++++|||+|+.++..+.|...+.+|++.++..+..
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~   44 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRII   44 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEE
Confidence            5899999999999999999999999999999999998876543

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.23  E-value=5.9e-11  Score=67.95  Aligned_cols=45  Identities=31%  Similarity=0.526  Sum_probs=40.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ...+|++++|++|||||+|+.++..+.|...+.||+|.++....+
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~   55 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDF   55 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEE
Confidence            567999999999999999999999999999999999998876654

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.22  E-value=6e-11  Score=68.93  Aligned_cols=42  Identities=31%  Similarity=0.585  Sum_probs=38.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ...+|++++|+++||||+|+.+|..+.|.+.|.||++.+|..
T Consensus        11 ~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~~   52 (232)
T cd04174          11 VMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA   52 (232)
T ss_pred             eeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeEE
Confidence            467899999999999999999999999999999999988854

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.

>cd04117 Rab15 Rab15 subfamily

Probab=99.22  E-value=6e-11  Score=64.62  Aligned_cols=43  Identities=60%  Similarity=0.941  Sum_probs=38.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +|++++|++++|||+|+.++..++|.+.+.||+|.++..+...
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~   43 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIE   43 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEE
Confidence            5899999999999999999999999999999999988765543

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

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

Probab=99.22  E-value=4.8e-11  Score=64.41  Aligned_cols=43  Identities=37%  Similarity=0.671  Sum_probs=39.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      |++++|+.++|||+|+.++..+.|++.+.||+|.++....+..
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~   43 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSI   43 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhccccccccccccccccccccc
Confidence            7999999999999999999999999999999998887776644

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 ....

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.22  E-value=5.8e-11  Score=65.78  Aligned_cols=39  Identities=28%  Similarity=0.737  Sum_probs=36.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      +|++++|++++|||+|+.++..+.|++.+.||++.+|..
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~~   40 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV   40 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeEE
Confidence            799999999999999999999999999999999987753

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.21  E-value=5.7e-11  Score=72.15  Aligned_cols=48  Identities=29%  Similarity=0.306  Sum_probs=42.2

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      ....+||+++|+.+||||+|+.++..+.|...+.||+|.++..+.+.+
T Consensus        18 ~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~   65 (334)
T PLN00023         18 PCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITY   65 (334)
T ss_pred             CccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEE
Confidence            345799999999999999999999999999999999999987665543

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

Probab=99.21  E-value=1.6e-11  Score=68.63  Aligned_cols=50  Identities=50%  Similarity=0.862  Sum_probs=47.0

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      |+..+++.+|++++|++|.|||+|+++|..++|.++...|+|+||..+.+
T Consensus         2 msEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIi   51 (214)
T KOG0086|consen    2 MSETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIV   51 (214)
T ss_pred             cchhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceee
Confidence            67788999999999999999999999999999999999999999998865

>cd04111 Rab39 Rab39 subfamily

Probab=99.20  E-value=7.2e-11  Score=67.23  Aligned_cols=45  Identities=47%  Similarity=0.757  Sum_probs=40.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +.+|++++|+++||||+|++++..+.|...+.||+|.++..+.+.
T Consensus         1 ~~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~   45 (211)
T cd04111           1 YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIE   45 (211)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEE
Confidence            468999999999999999999999999988899999998766553

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.

>cd04109 Rab28 Rab28 subfamily

Probab=99.20  E-value=7.5e-11  Score=67.08  Aligned_cols=43  Identities=44%  Similarity=0.778  Sum_probs=39.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +|++++|++++|||+|++++..+.|...+.||++.|+..+.+.
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~   43 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVT   43 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEE
Confidence            5899999999999999999999999999999999998766553

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=99.20  E-value=9e-11  Score=63.74  Aligned_cols=43  Identities=79%  Similarity=1.215  Sum_probs=39.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      .+|++++|++++|||+|+.++.++.|...+.||++.++..+..
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~   44 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTI   44 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEE
Confidence            5899999999999999999999999998999999988876654

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

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

Probab=99.19  E-value=5.9e-11  Score=66.18  Aligned_cols=49  Identities=39%  Similarity=0.774  Sum_probs=44.9

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      ++++.||++++|+.|||||+|++||.++-|+...-+|||+||-.+.+.-
T Consensus         3 dykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev   51 (213)
T KOG0095|consen    3 DYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEV   51 (213)
T ss_pred             ccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEE
Confidence            4778899999999999999999999999999999999999998887643

>cd01865 Rab3 Rab3 subfamily

Probab=99.19  E-value=1.2e-10  Score=63.38  Aligned_cols=42  Identities=52%  Similarity=0.988  Sum_probs=38.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +|++++|++++|||+|++++..++|...+.||+|.++.....
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~   43 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV   43 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEE
Confidence            799999999999999999999999998899999988866544

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.18  E-value=7.7e-11  Score=68.04  Aligned_cols=38  Identities=37%  Similarity=0.718  Sum_probs=36.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +|++++|+++||||+|+.+|..+.|+++|.||++.+|.
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~   39 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT   39 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE
Confidence            79999999999999999999999999999999998875

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.18  E-value=1.5e-10  Score=62.89  Aligned_cols=45  Identities=44%  Similarity=0.826  Sum_probs=40.1

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +.+|++++|++++|||+|+.++..+.|...+.+|++.++..+...
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~   46 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLE   46 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEE
Confidence            579999999999999999999999999998999999888766543

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.

>cd04116 Rab9 Rab9 subfamily

Probab=99.16  E-value=2.7e-10  Score=62.05  Aligned_cols=45  Identities=36%  Similarity=0.676  Sum_probs=39.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ...+|++++|++++|||+|+.++..+.|...+.+++|.++..+..
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~   47 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDL   47 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEE
Confidence            457999999999999999999999999998889999988765543

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.16  E-value=2.1e-10  Score=61.85  Aligned_cols=43  Identities=35%  Similarity=0.723  Sum_probs=38.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +|++++|++++|||+|+.++..+.|.+.+.||++.++......
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~   43 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIF   43 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEE
Confidence            4899999999999999999999999999999999998665543

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

>cd01868 Rab11_like Rab11-like

Probab=99.16  E-value=2.1e-10  Score=62.11  Aligned_cols=45  Identities=53%  Similarity=0.771  Sum_probs=40.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +.+|++++|++++|||+|++++..+++...+.||++.++......
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~   46 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQ   46 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEE
Confidence            468999999999999999999999999988899999888766553

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.16  E-value=1.4e-10  Score=63.96  Aligned_cols=40  Identities=28%  Similarity=0.496  Sum_probs=36.5

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      .+|++++|+++||||+|+.++..++|++.+.||++.++..
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~~~   41 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKQ   41 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceEEE
Confidence            3799999999999999999999999999999999977753

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

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

Probab=99.15  E-value=1.5e-10  Score=62.07  Aligned_cols=40  Identities=33%  Similarity=0.622  Sum_probs=35.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ++|++++|++++|||+|++++..+.|...+.||.+..+..
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~~   40 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRK   40 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheEEE
Confidence            3799999999999999999999999999999999876643

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.

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

Probab=99.14  E-value=2.2e-10  Score=62.79  Aligned_cols=42  Identities=33%  Similarity=0.678  Sum_probs=37.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +|++++|++++|||+|+.++..+.+...+.||++.++....+
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~   42 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDF   42 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEE
Confidence            589999999999999999999999999999999988876544

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.14  E-value=2.8e-10  Score=62.22  Aligned_cols=45  Identities=49%  Similarity=0.814  Sum_probs=40.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ++.+|++++|++++|||+|+.++..+++...+.+|+|.++....+
T Consensus         2 ~~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~   46 (168)
T cd01866           2 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMI   46 (168)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEE
Confidence            467999999999999999999999999998889999988865544

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.14  E-value=2.6e-10  Score=63.35  Aligned_cols=42  Identities=52%  Similarity=0.809  Sum_probs=37.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +|++++|+++||||+|+.++..+.|...+.||+|.++..+..
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~   42 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTV   42 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEE
Confidence            589999999999999999999999988899999988875544

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.14  E-value=2.6e-10  Score=64.65  Aligned_cols=46  Identities=35%  Similarity=0.567  Sum_probs=40.9

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ....+|++++|++|+|||||+.++..+.+...+.||++.++.....
T Consensus         6 ~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~   51 (215)
T PTZ00132          6 EVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKF   51 (215)
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEE
Confidence            4467999999999999999999999999999999999998876544

>PLN03108 Rab family protein; Provisional

Probab=99.13  E-value=2.7e-10  Score=64.71  Aligned_cols=45  Identities=49%  Similarity=0.814  Sum_probs=40.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ++.+|++++|++++|||+|+.++..+.|...+.||++.+|....+
T Consensus         4 ~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i   48 (210)
T PLN03108          4 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMI   48 (210)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEE
Confidence            467999999999999999999999999988889999988866544

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.13  E-value=3.5e-10  Score=61.92  Aligned_cols=43  Identities=44%  Similarity=0.825  Sum_probs=38.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      .+|++++|++++|||+|+.++..+.|+..+.+|++.++..+..
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~   44 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTV   44 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEE
Confidence            4799999999999999999999999999999999988876654

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

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

Probab=99.12  E-value=7.6e-11  Score=66.38  Aligned_cols=46  Identities=41%  Similarity=0.741  Sum_probs=42.2

Q ss_pred             CccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            3 NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         3 ~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      .-+.|+|+++++||+.||||+|+..|..++|.+-..||+|+||..+
T Consensus         3 pif~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffar   48 (213)
T KOG0091|consen    3 PIFHYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFAR   48 (213)
T ss_pred             cceEEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHH
Confidence            4467899999999999999999999999999999999999999754

>cd04113 Rab4 Rab4 subfamily

Probab=99.10  E-value=4.9e-10  Score=60.49  Aligned_cols=43  Identities=44%  Similarity=0.756  Sum_probs=38.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +|++++|++++|||+|++++..+.+...+.++++.++....+.
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~   43 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIR   43 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEE
Confidence            5899999999999999999999999999999999888766543

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.09  E-value=2.4e-10  Score=64.71  Aligned_cols=40  Identities=20%  Similarity=0.448  Sum_probs=35.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      +|++++|+++||||+|+.++..++|+..+.||++.++...
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~   40 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRP   40 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCcccccccee
Confidence            5899999999999999999999999999999998776443

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.09  E-value=6e-10  Score=60.20  Aligned_cols=42  Identities=29%  Similarity=0.611  Sum_probs=36.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC--cCCCcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD--SYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~--~~~~~~~~tig~~~~~~~~   50 (57)
                      +|++++|++++|||+|+.++..+  .|+.++.||+|.++..+..
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~   44 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEV   44 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEE
Confidence            48999999999999999999865  7888999999998865544

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.

>PTZ00369 Ras-like protein; Provisional

Probab=99.09  E-value=3.9e-10  Score=62.90  Aligned_cols=40  Identities=33%  Similarity=0.648  Sum_probs=36.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ..+|++++|++++|||+|+.++..+.|...+.||++.+|.
T Consensus         4 ~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~~   43 (189)
T PTZ00369          4 TEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYR   43 (189)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEEE
Confidence            4699999999999999999999999999999999987774

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.08  E-value=5.8e-10  Score=61.72  Aligned_cols=38  Identities=32%  Similarity=0.768  Sum_probs=34.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +|++++|+++||||+|+.++..+.|.+++.||++..+.
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~~   39 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS   39 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeeeE
Confidence            68999999999999999999999999999999986553

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.08  E-value=3.9e-10  Score=60.72  Aligned_cols=38  Identities=32%  Similarity=0.649  Sum_probs=34.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ++|++++|++++|||+|+.++..+.|.+.+.||++..+
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~   38 (163)
T cd04136           1 EYKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY   38 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhhhE
Confidence            37999999999999999999999999999999998444

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.

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

Probab=99.08  E-value=2.2e-10  Score=63.52  Aligned_cols=51  Identities=39%  Similarity=0.737  Sum_probs=46.7

Q ss_pred             CCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            2 SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         2 ~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      +.++.+.||++++|+-||||++|+.+|...+|..+.+.|+|++|.++.+.-
T Consensus         5 pynysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriiev   55 (215)
T KOG0097|consen    5 PYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV   55 (215)
T ss_pred             ccchhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEe
Confidence            456788999999999999999999999999999999999999999887643

>cd04175 Rap1 Rap1 subgroup

Probab=99.07  E-value=4.9e-10  Score=60.72  Aligned_cols=39  Identities=33%  Similarity=0.634  Sum_probs=35.5

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ++|++++|++++|||+|+.++..+.|...+.||++..+.
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~   39 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR   39 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEE
Confidence            479999999999999999999999999889999987664

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.07  E-value=6.9e-10  Score=61.71  Aligned_cols=42  Identities=33%  Similarity=0.653  Sum_probs=36.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCC-cccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVD-SYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~-~~~~tig~~~~~~~~   50 (57)
                      +|++++|++++|||+|+.++..+.|.. .+.+|+|.+|..+..
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~   43 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRM   43 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEE
Confidence            489999999999999999999999974 689999988865543

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.06  E-value=6.6e-10  Score=61.46  Aligned_cols=40  Identities=28%  Similarity=0.713  Sum_probs=36.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      +|++++|++++|||+|++++..+.|++.+.||++.+|...
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~   40 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVTN   40 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEEE
Confidence            4899999999999999999999999999999999887544

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.06  E-value=9.8e-10  Score=59.77  Aligned_cols=40  Identities=40%  Similarity=0.587  Sum_probs=35.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      +|++++|++++|||+|+.++..+.|.+.+.++.+.++..+
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~   40 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKH   40 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEE
Confidence            5899999999999999999999999988888888776544

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

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

Probab=99.06  E-value=7.1e-10  Score=62.51  Aligned_cols=45  Identities=33%  Similarity=0.484  Sum_probs=40.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      .+|++++|++|+|||||+.++..+.|...+.||++.++.......
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~   49 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEP   49 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEe
Confidence            489999999999999999999999999999999998887776543

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.06  E-value=9.5e-10  Score=59.29  Aligned_cols=43  Identities=49%  Similarity=0.810  Sum_probs=38.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ++|++++|++++|||+|++++..+++...+.+|.+.++....+
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v   43 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTV   43 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEE
Confidence            4799999999999999999999999988889999987766554

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>cd04134 Rho3 Rho3 subfamily

Probab=99.06  E-value=7.1e-10  Score=61.92  Aligned_cols=39  Identities=28%  Similarity=0.502  Sum_probs=35.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      .|++++|++++|||+|+.++..+.|++.+.||++.+|..
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~   39 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYVH   39 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeEE
Confidence            379999999999999999999999999999999987753

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.

>cd01862 Rab7 Rab7 subfamily

Probab=99.05  E-value=9.9e-10  Score=59.58  Aligned_cols=42  Identities=33%  Similarity=0.762  Sum_probs=37.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +|++++|++++|||||++++.+..+...+.+|++.++..+..
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~   42 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEV   42 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEE
Confidence            589999999999999999999999988889999988876554

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-

>cd04114 Rab30 Rab30 subfamily

Probab=99.03  E-value=2.3e-09  Score=58.13  Aligned_cols=47  Identities=45%  Similarity=0.832  Sum_probs=40.1

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ..+.+|++++|++++|||+|+.++..+.+...+.+|++.++....+.
T Consensus         4 ~~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~   50 (169)
T cd04114           4 YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVE   50 (169)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEE
Confidence            45679999999999999999999999998888889999887655443

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.

>cd01861 Rab6 Rab6 subfamily

Probab=99.03  E-value=1.5e-09  Score=58.46  Aligned_cols=43  Identities=42%  Similarity=0.788  Sum_probs=38.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +|++++|++++|||+|+.++...++...+.|+.+.++......
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~   43 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMY   43 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEE
Confidence            4899999999999999999999999988999999988776654

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.03  E-value=1e-09  Score=59.94  Aligned_cols=39  Identities=36%  Similarity=0.821  Sum_probs=35.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      .|++++|++++|||+|+.++..+.|++.+.||++.++..
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~   40 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA   40 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceEE
Confidence            689999999999999999999999999999999877653

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.02  E-value=1e-09  Score=59.31  Aligned_cols=35  Identities=31%  Similarity=0.703  Sum_probs=32.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCee
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIG   42 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig   42 (57)
                      ++|++++|++++|||+|+.++..+.|.+.+.||++
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~   35 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE   35 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh
Confidence            47999999999999999999999999998999987

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.02  E-value=1.2e-09  Score=59.50  Aligned_cols=38  Identities=37%  Similarity=0.760  Sum_probs=34.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +|++++|++++|||+|++++..+.|...+.||++..+.
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~   39 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYR   39 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheEE
Confidence            78999999999999999999999999889999986664

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

>PLN03118 Rab family protein; Provisional

Probab=99.01  E-value=2.1e-09  Score=60.85  Aligned_cols=47  Identities=51%  Similarity=0.721  Sum_probs=39.7

Q ss_pred             CccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            3 NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         3 ~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ++....+|++++|++++|||+|+.++..+.+. .+.||.|.++....+
T Consensus         9 ~~~~~~~kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~   55 (211)
T PLN03118          9 SGYDLSFKILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQL   55 (211)
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEE
Confidence            45567899999999999999999999998874 578999988865544

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.01  E-value=2e-09  Score=57.86  Aligned_cols=43  Identities=56%  Similarity=0.884  Sum_probs=37.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +|++++|++++|||+|++++....+...+.++++.++......
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~   43 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIE   43 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEE
Confidence            5899999999999999999999999888889999887765443

Rab GTPases are implicated in vesicle trafficking.

>cd04126 Rab20 Rab20 subfamily

Probab=99.00  E-value=2e-09  Score=62.05  Aligned_cols=41  Identities=37%  Similarity=0.629  Sum_probs=36.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +|++++|++++|||+|+.++..++|.+ +.||+|.++....+
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~   41 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW   41 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe
Confidence            589999999999999999999999975 68999988766554

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=98.99  E-value=1.1e-09  Score=63.95  Aligned_cols=40  Identities=30%  Similarity=0.654  Sum_probs=35.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS   49 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~   49 (57)
                      +|++++|++++|||+|+.++..+.|...+.||++ ++..+.
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~   40 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKL   40 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEE
Confidence            5899999999999999999999999999999997 554433

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=98.96  E-value=2e-09  Score=58.15  Aligned_cols=38  Identities=37%  Similarity=0.719  Sum_probs=34.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +|++++|++++|||+|+.++..+.+...+.||++..+.
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~   38 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIEDSYR   38 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhhhEE
Confidence            58999999999999999999999999888898885553

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=98.96  E-value=3.3e-09  Score=57.16  Aligned_cols=42  Identities=57%  Similarity=0.870  Sum_probs=37.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +|++++|++++|||+|+.++....+...+.|+++.++.....
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~   42 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTL   42 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEE
Confidence            589999999999999999999999988889999988765543

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

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

Probab=98.96  E-value=3.2e-09  Score=57.18  Aligned_cols=40  Identities=33%  Similarity=0.631  Sum_probs=35.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      .+|++++|++++|||+|+.++..+.+...+.||.+..+..
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~   41 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTK   41 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceEEE
Confidence            4899999999999999999999999988889998866543

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

>cd04144 Ras2 Ras2 subfamily

Probab=98.95  E-value=1.6e-09  Score=60.41  Aligned_cols=38  Identities=32%  Similarity=0.632  Sum_probs=34.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      |++++|++++|||||+.++..+.|...+.||++.++..
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~~~   38 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRK   38 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhEEE
Confidence            58999999999999999999999998899999876643

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.

>cd04112 Rab26 Rab26 subfamily

Probab=98.95  E-value=3.2e-09  Score=59.28  Aligned_cols=42  Identities=48%  Similarity=1.020  Sum_probs=36.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCC-CcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~-~~~~~tig~~~~~~~~   50 (57)
                      +|++++|++++|||+|+.++..++|. +.+.+|++.++..+..
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~   43 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVV   43 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEE
Confidence            58999999999999999999999986 4688999988866443

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.

>cd04148 RGK RGK subfamily

Probab=98.95  E-value=2.5e-09  Score=61.34  Aligned_cols=42  Identities=24%  Similarity=0.450  Sum_probs=35.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCC-CcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~-~~~~~tig~~~~~~~~   50 (57)
                      +|++++|++|||||+|+.++..+.|. ..+.|+++.++..+.+
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i   43 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTV   43 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEE
Confidence            58999999999999999999999887 7788888766655544

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

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

Probab=98.95  E-value=7e-10  Score=63.15  Aligned_cols=45  Identities=27%  Similarity=0.511  Sum_probs=39.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      .+|++++|.+|||||++..+|..+.|.+.|.||++..|.....+.
T Consensus         3 ~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptied~y~k~~~v~   47 (196)
T KOG0395|consen    3 EYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIEDSYRKELTVD   47 (196)
T ss_pred             ceEEEEECCCCCCcchheeeecccccccccCCCccccceEEEEEC
Confidence            589999999999999999999999999999999996666555443

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=98.95  E-value=3.7e-09  Score=57.97  Aligned_cols=37  Identities=32%  Similarity=0.696  Sum_probs=33.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      +|++++|++|+|||+|+.++..+.|..++.||....+
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~   37 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNF   37 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeee
Confidence            5899999999999999999999999999999986444

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,

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

Probab=98.93  E-value=3.1e-09  Score=58.70  Aligned_cols=40  Identities=25%  Similarity=0.461  Sum_probs=34.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ..+|++++|++++|||+|+.++..++|. .+.||+|.++..
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~~   51 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVET   51 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceEE
Confidence            4699999999999999999999988885 478999977653

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).

>cd04135 Tc10 TC10 subfamily

Probab=98.93  E-value=4.9e-09  Score=57.16  Aligned_cols=38  Identities=34%  Similarity=0.843  Sum_probs=33.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +|++++|++++|||+|+.++..+.|...+.||++..+.
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~   38 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYA   38 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeE
Confidence            58999999999999999999999999888999875543

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=98.93  E-value=2.4e-09  Score=58.62  Aligned_cols=37  Identities=27%  Similarity=0.528  Sum_probs=33.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      .++++|++++|||+|+.++..+.+.+.+.||+|.++.
T Consensus         1 ~i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~~   37 (164)
T cd04162           1 QILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNSV   37 (164)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCcccccccCCcceE
Confidence            3789999999999999999999999999999997653

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=98.91  E-value=4.8e-09  Score=57.39  Aligned_cols=36  Identities=33%  Similarity=0.451  Sum_probs=30.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      +|++++|++|+|||+|+.++..+.|.+.+.|+. .+|
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~~-~~~   36 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPEG-GRF   36 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCCc-cce
Confidence            489999999999999999999999988776664 344

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.

>cd00154 Rab Rab family

Probab=98.91  E-value=7.8e-09  Score=54.71  Aligned_cols=43  Identities=58%  Similarity=0.910  Sum_probs=38.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +|++++|++++|||+|+.++..+.+...+.+|.+.++......
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~   43 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIE   43 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEE
Confidence            5899999999999999999999999988889999888766554

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

>cd04177 RSR1 RSR1 subgroup

Probab=98.91  E-value=5.4e-09  Score=57.04  Aligned_cols=39  Identities=31%  Similarity=0.646  Sum_probs=35.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      .+|++++|++++|||+|+.++..+.|...+.||++..+.
T Consensus         1 ~~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~   39 (168)
T cd04177           1 DYKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYR   39 (168)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEE
Confidence            378999999999999999999999999889999986653

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=98.90  E-value=4.4e-09  Score=58.59  Aligned_cols=40  Identities=25%  Similarity=0.443  Sum_probs=34.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ..+|++++|++++|||+|+.++..++|.. +.||+|.++..
T Consensus        16 ~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~~   55 (182)
T PTZ00133         16 KEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVET   55 (182)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceEE
Confidence            36899999999999999999999888875 67999977653

>cd04123 Rab21 Rab21 subfamily

Probab=98.90  E-value=8.8e-09  Score=55.10  Aligned_cols=42  Identities=31%  Similarity=0.634  Sum_probs=36.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +|++++|++++|||+|+.++..+.+...+.++.+.++.....
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~   42 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTV   42 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEE
Confidence            589999999999999999999999988888888777655544

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=98.90  E-value=5.5e-09  Score=58.23  Aligned_cols=39  Identities=26%  Similarity=0.470  Sum_probs=34.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ..+|++++|++++|||+|+.++..++|. .+.||+|.++.
T Consensus        16 ~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~   54 (181)
T PLN00223         16 KEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE   54 (181)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE
Confidence            4689999999999999999999988887 47899997764

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=98.88  E-value=1.3e-08  Score=53.43  Aligned_cols=44  Identities=27%  Similarity=0.511  Sum_probs=38.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .+|++++|.+|+|||+|+.++..+.++..+.++++.++....+.
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~   44 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIE   44 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEE
Confidence            37999999999999999999999998888888999888775543

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.

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

Probab=98.87  E-value=7.7e-09  Score=56.38  Aligned_cols=37  Identities=30%  Similarity=0.837  Sum_probs=33.3

Q ss_pred             EEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ++++|++++|||+|+.++..+.|...+.|+++..+..
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~   37 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENYSA   37 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeeeeE
Confidence            5789999999999999999999999999999877654

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

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=98.87  E-value=6.5e-09  Score=56.62  Aligned_cols=37  Identities=27%  Similarity=0.539  Sum_probs=32.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +|++++|++++|||+|+.++..++|. .+.||+|.++.
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~   37 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE   37 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE
Confidence            48999999999999999999999897 47899997653

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=98.87  E-value=5.2e-09  Score=55.60  Aligned_cols=38  Identities=21%  Similarity=0.415  Sum_probs=32.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS   49 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~   49 (57)
                      |++++|++++|||+|++++....+  .+.+|++.+|..+.
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~--~~~~t~~~~~~~~~   39 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEI--LYKKTQAVEYNDGA   39 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCcc--ccccceeEEEcCee
Confidence            899999999999999999998876  46788988886543

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.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=98.85  E-value=8.6e-09  Score=57.30  Aligned_cols=41  Identities=22%  Similarity=0.495  Sum_probs=34.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS   49 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~   49 (57)
                      .+|++++|++++|||+|+.++..++|... .||+|.++....
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~   43 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIK   43 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEE
Confidence            58999999999999999999999988754 788887765443

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=98.84  E-value=5.6e-09  Score=56.68  Aligned_cols=37  Identities=30%  Similarity=0.605  Sum_probs=32.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      |++++|++++|||+|+.++..+.|.+.+.||.+..+.
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~~   37 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLYS   37 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhce
Confidence            6899999999999999999999998888888865553

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

>cd04149 Arf6 Arf6 subfamily

Probab=98.83  E-value=1e-08  Score=56.39  Aligned_cols=39  Identities=23%  Similarity=0.437  Sum_probs=34.2

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ..+|++++|++++|||+|+.++..+++.. +.||+|.++.
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~~-~~~t~g~~~~   46 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNVE   46 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCcc-ccCCcccceE
Confidence            46899999999999999999999888864 6899997764

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=98.83  E-value=1.2e-08  Score=54.83  Aligned_cols=38  Identities=34%  Similarity=0.669  Sum_probs=34.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +|++++|++++|||||+.++..+.|...+.++.+..+.
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~~   38 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSYR   38 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhEE
Confidence            58999999999999999999999999888898876554

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

>cd04158 ARD1 ARD1 subfamily

Probab=98.83  E-value=1.2e-08  Score=55.87  Aligned_cols=37  Identities=24%  Similarity=0.587  Sum_probs=32.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      |++++|++++|||+|+.++..+.+.. +.||+|.++..
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~~   37 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVET   37 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEEE
Confidence            68999999999999999999998865 78999977653

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

>cd00157 Rho Rho (Ras homology) family

Probab=98.83  E-value=2e-08  Score=54.36  Aligned_cols=38  Identities=29%  Similarity=0.770  Sum_probs=33.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +|++++|++++|||+|++++..+.+...+.|++...+.
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~   38 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDNYS   38 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeE
Confidence            58999999999999999999999998888888875554

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

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

Probab=98.81  E-value=1.2e-08  Score=58.03  Aligned_cols=37  Identities=27%  Similarity=0.576  Sum_probs=33.6

Q ss_pred             ECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406           14 IGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus        14 iG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +|+++||||+|+.++..+.|.+.+.||+|.++....+
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~   37 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVF   37 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEE
Confidence            5999999999999999999999999999999876654

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

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

Probab=98.81  E-value=1.5e-08  Score=55.62  Aligned_cols=38  Identities=39%  Similarity=0.675  Sum_probs=34.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      .|++++|++|+|||||+.++....+...+.||.+..+.
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~~   39 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFS   39 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhEE
Confidence            68999999999999999999999998888898876653

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=98.79  E-value=1.8e-08  Score=53.35  Aligned_cols=37  Identities=24%  Similarity=0.458  Sum_probs=33.9

Q ss_pred             EEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      +.++|++++|||+|++++...+|...+.||++.++..
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~   38 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK   38 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE
Confidence            6899999999999999999999999999999987754

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.

>cd04129 Rho2 Rho2 subfamily

Probab=98.78  E-value=2.8e-08  Score=55.34  Aligned_cols=39  Identities=31%  Similarity=0.570  Sum_probs=34.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      .|++++|++|+|||+|+.++..+.|++.+.+|++.++..
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~~~   40 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENYVT   40 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEE
Confidence            689999999999999999999999988888988776654

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).

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

Probab=98.75  E-value=5.5e-09  Score=59.05  Aligned_cols=48  Identities=25%  Similarity=0.444  Sum_probs=42.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEEEEee
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC   56 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~~~~~   56 (57)
                      ..+++|+++|..++|||+++.++..+++... .||+|  |..+.+.|++++
T Consensus        15 ~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiG--fnVE~v~ykn~~   62 (181)
T KOG0070|consen   15 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIG--FNVETVEYKNIS   62 (181)
T ss_pred             cceEEEEEEeccCCCceeeeEeeccCCcccC-CCccc--cceeEEEEcceE
Confidence            4589999999999999999999999999876 89999  888888888764

>cd04157 Arl6 Arl6 subfamily

Probab=98.75  E-value=2.3e-08  Score=53.72  Aligned_cols=36  Identities=17%  Similarity=0.452  Sum_probs=30.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc-CCCcccCCeeeeE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS-YVDSYISTIGVDF   45 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~-~~~~~~~tig~~~   45 (57)
                      +++++|++++|||+|+.++.... +...+.||+|..+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~   37 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNV   37 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccce
Confidence            57899999999999999999876 4667889998654

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

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

Probab=98.74  E-value=2.9e-09  Score=59.92  Aligned_cols=47  Identities=28%  Similarity=0.585  Sum_probs=42.2

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +..++||++++|+.+||||+|+.||+.++|...+..|+-..|..+.+
T Consensus         9 g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~   55 (218)
T KOG0088|consen    9 GKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKV   55 (218)
T ss_pred             CCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhccc
Confidence            45679999999999999999999999999999999999888877654

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=98.73  E-value=3.6e-08  Score=54.05  Aligned_cols=35  Identities=23%  Similarity=0.359  Sum_probs=30.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      +++++|++++|||+|++++... +...+.||+|...
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~~   35 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFTP   35 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccceE
Confidence            4789999999999999999876 7788899999653

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.

>cd01873 RhoBTB RhoBTB subfamily

Probab=98.70  E-value=3.5e-08  Score=55.83  Aligned_cols=35  Identities=26%  Similarity=0.486  Sum_probs=28.9

Q ss_pred             eeeEEEECCCCCchHHHHH-HhhcC-----cCCCcccCCee
Q 035406            8 LFKLLLIGDSSVGKSCLLL-RFADD-----SYVDSYISTIG   42 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~-~~~~~-----~~~~~~~~tig   42 (57)
                      .+|++++|+++||||+|+. ++..+     .|...+.||+|
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~   42 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVW   42 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCcee
Confidence            4899999999999999995 66543     45677899997

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.

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

Probab=98.70  E-value=1.8e-08  Score=57.74  Aligned_cols=43  Identities=35%  Similarity=0.706  Sum_probs=39.6

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS   49 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~   49 (57)
                      --+|++++|..+|||+++++||+.+.|...|.-|||.||..+.
T Consensus        19 ~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerq   61 (246)
T KOG4252|consen   19 RAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQ   61 (246)
T ss_pred             hhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHH
Confidence            4689999999999999999999999999999999999997654

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=98.69  E-value=5.8e-08  Score=53.47  Aligned_cols=40  Identities=25%  Similarity=0.429  Sum_probs=34.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ..+|++++|++++|||+|+.++..+++.. +.||+|.++..
T Consensus        14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~~   53 (174)
T cd04153          14 KEYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVEE   53 (174)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceEE
Confidence            36899999999999999999999998875 57899876643

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.

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

Probab=98.69  E-value=2.1e-08  Score=51.86  Aligned_cols=34  Identities=41%  Similarity=0.449  Sum_probs=29.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCccc-CCee
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYI-STIG   42 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~-~tig   42 (57)
                      +|++++|+.|+|||+++.|+....|...+. +|++
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~   35 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG   35 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh
Confidence            589999999999999999999888876555 6655

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.

>cd04147 Ras_dva Ras-dva subfamily

Probab=98.68  E-value=4.6e-08  Score=54.93  Aligned_cols=33  Identities=33%  Similarity=0.684  Sum_probs=30.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCee
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIG   42 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig   42 (57)
                      |++++|++++|||+|+.++..+.+...+.+|++
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~   33 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE   33 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh
Confidence            689999999999999999999999988888886

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=98.67  E-value=6.2e-08  Score=52.10  Aligned_cols=36  Identities=36%  Similarity=0.576  Sum_probs=30.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +++++|++++|||+|+.++..+++.. +.||++.++.
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~~   36 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNVE   36 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcceE
Confidence            58899999999999999999998875 4788886654

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>cd04154 Arl2 Arl2 subfamily

Probab=98.66  E-value=8.3e-08  Score=52.60  Aligned_cols=39  Identities=21%  Similarity=0.501  Sum_probs=32.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...++++++|++++|||+|+.++....+ ..+.||+|...
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~~~   50 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGFQI   50 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccccce
Confidence            3468999999999999999999998755 46779988544

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.

>cd00876 Ras Ras family

Probab=98.66  E-value=8.3e-08  Score=51.21  Aligned_cols=34  Identities=32%  Similarity=0.667  Sum_probs=31.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeee
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGV   43 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~   43 (57)
                      |++++|++++|||+|+.++....+...+.|+.+.
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~~   34 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIED   34 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChhH
Confidence            6899999999999999999998898888888873

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

>cd01893 Miro1 Miro1 subfamily

Probab=98.61  E-value=6.8e-08  Score=52.65  Aligned_cols=31  Identities=29%  Similarity=0.653  Sum_probs=27.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYIS   39 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~   39 (57)
                      .|++++|++++|||+|+.++..+.|++.+.+
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~   31 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPR   31 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCC
Confidence            3899999999999999999999999876544

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.

>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=98.60  E-value=1.3e-07  Score=48.90  Aligned_cols=25  Identities=36%  Similarity=0.755  Sum_probs=22.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ||+++|+.|+|||+|++++....+.
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~   25 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFP   25 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCc
Confidence            7899999999999999999998886

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.

>cd00879 Sar1 Sar1 subfamily

Probab=98.59  E-value=1.6e-07  Score=51.98  Aligned_cols=38  Identities=26%  Similarity=0.384  Sum_probs=32.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeee
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVD   44 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~   44 (57)
                      ....|++++|++++|||+|+.++..+.+. .+.||.+..
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~   54 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPT   54 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcc
Confidence            34689999999999999999999988874 577887754

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.

>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=98.58  E-value=6.6e-08  Score=53.68  Aligned_cols=39  Identities=31%  Similarity=0.507  Sum_probs=33.5

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ....+++++|..++|||++++++..+++.. +.||.|.+.
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~~-~~pT~g~~~   50 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEISE-TIPTIGFNI   50 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEEE-EEEESSEEE
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhccccc-cCccccccc
Confidence            568999999999999999999999877654 789999544

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 ....

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

Probab=98.58  E-value=1.7e-07  Score=50.39  Aligned_cols=37  Identities=24%  Similarity=0.469  Sum_probs=31.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      |++++|.+++|||+|+.++..+.+ ..+.+|++.....
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~~~   37 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNVET   37 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcceEE
Confidence            689999999999999999999884 4578888866544

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

>cd04151 Arl1 Arl1 subfamily

Probab=98.57  E-value=1.6e-07  Score=50.68  Aligned_cols=36  Identities=31%  Similarity=0.538  Sum_probs=30.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      |++++|++++|||+|+.++..+.+.. +.||++.++.
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~   36 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVT-TIPTIGFNVE   36 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcC-cCCccCcCeE
Confidence            68999999999999999998888864 5789886654

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.

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

Probab=98.56  E-value=2.2e-07  Score=51.75  Aligned_cols=39  Identities=23%  Similarity=0.313  Sum_probs=31.7

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeee
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVD   44 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~   44 (57)
                      +...++++++|++++||||++.++..+.+. .+.||.+..
T Consensus        14 ~~~~~~i~ivG~~~~GKTsli~~l~~~~~~-~~~~t~~~~   52 (184)
T smart00178       14 WNKHAKILFLGLDNAGKTTLLHMLKNDRLA-QHQPTQHPT   52 (184)
T ss_pred             ccccCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccccc
Confidence            455799999999999999999999988775 356676643

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

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

Probab=98.55  E-value=1.7e-07  Score=53.75  Aligned_cols=42  Identities=33%  Similarity=0.652  Sum_probs=38.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ..+|++++|+.|.|||++..|++.++|...+.+|+|.+....
T Consensus         9 ~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl   50 (216)
T KOG0096|consen    9 LTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPL   50 (216)
T ss_pred             ceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeee
Confidence            489999999999999999999999999999999999886543

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

Probab=98.54  E-value=3.8e-08  Score=56.43  Aligned_cols=45  Identities=24%  Similarity=0.645  Sum_probs=39.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ...|++++|+.++|||+++..|..+.|++.|.||+-..|.....+
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVFdnys~~v~V   47 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVFDNYSANVTV   47 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCcCcccccCeEEccceEEEEe
Confidence            468999999999999999999999999999999998666655443

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=98.50  E-value=3.2e-07  Score=49.62  Aligned_cols=38  Identities=18%  Similarity=0.324  Sum_probs=29.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC------cCCCcccCCeeeeEEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD------SYVDSYISTIGVDFVS   47 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~------~~~~~~~~tig~~~~~   47 (57)
                      +++++|++++|||+|+.++...      .+...+.||++.++..
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~   44 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGT   44 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEE
Confidence            5789999999999999998753      2345667888877753

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.

>cd04155 Arl3 Arl3 subfamily

Probab=98.50  E-value=4.6e-07  Score=49.30  Aligned_cols=39  Identities=21%  Similarity=0.371  Sum_probs=32.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...++++++|++|+|||+|+.++....+. .+.||.|.++
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~   50 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNI   50 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcce
Confidence            34789999999999999999999987764 4678887543

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.

>PRK04213 GTP-binding protein; Provisional

Probab=98.47  E-value=6.9e-07  Score=49.97  Aligned_cols=36  Identities=19%  Similarity=0.242  Sum_probs=30.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCee
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIG   42 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig   42 (57)
                      ..++++++|++++|||||++++.+..+...+.|+..
T Consensus         8 ~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t   43 (201)
T PRK04213          8 RKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVT   43 (201)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCcee
Confidence            568999999999999999999999888766666444

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=98.45  E-value=7.2e-07  Score=49.46  Aligned_cols=37  Identities=24%  Similarity=0.240  Sum_probs=31.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeee
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGV   43 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~   43 (57)
                      ...+++++|++++|||||++++...++...+.++.|.
T Consensus        23 ~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~   59 (196)
T PRK00454         23 DGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGR   59 (196)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCc
Confidence            4578999999999999999999998776666777663

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

Probab=98.41  E-value=1.2e-06  Score=48.50  Aligned_cols=38  Identities=26%  Similarity=0.269  Sum_probs=30.7

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeee
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGV   43 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~   43 (57)
                      ....+++++|++++|||||++++....+...+.++.|.
T Consensus        16 ~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~   53 (179)
T TIGR03598        16 DDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGR   53 (179)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCc
Confidence            45689999999999999999999988765555555553

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.

>cd01850 CDC_Septin CDC/Septin

Probab=98.41  E-value=1.7e-06  Score=51.41  Aligned_cols=43  Identities=19%  Similarity=0.424  Sum_probs=33.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCc----------ccCCeeeeEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDS----------YISTIGVDFVSLS   49 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~----------~~~tig~~~~~~~   49 (57)
                      ..++++++|++|+|||||++++....+...          ..+|++++.....
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~   55 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAE   55 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEE
Confidence            468999999999999999999998876543          4567666554443

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.30  E-value=1.7e-06  Score=46.04  Aligned_cols=35  Identities=26%  Similarity=0.355  Sum_probs=28.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeee
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVD   44 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~   44 (57)
                      +++++|++|+|||||++.+.++.+.....++.+.+
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t   35 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKT   35 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcc
Confidence            47899999999999999999777766666666543

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.

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

Probab=98.29  E-value=2.4e-06  Score=48.15  Aligned_cols=45  Identities=20%  Similarity=0.424  Sum_probs=36.2

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYM   53 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~~   53 (57)
                      +.+++++++|..++|||+++.++.... .+...||.|  |..+...++
T Consensus        14 erE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~g--f~Iktl~~~   58 (185)
T KOG0073|consen   14 EREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLG--FQIKTLEYK   58 (185)
T ss_pred             hheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccc--eeeEEEEec
Confidence            348999999999999999999998766 567889999  555554444

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

Probab=98.28  E-value=1.9e-06  Score=47.84  Aligned_cols=48  Identities=23%  Similarity=0.421  Sum_probs=39.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEEEEee
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC   56 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~~~~~   56 (57)
                      .++++++.+|..++|||+++..+.-+.-. ...||+|  |..+.+.|+++.
T Consensus        15 ~KE~~ilmlGLd~aGKTtiLyKLkl~~~~-~~ipTvG--FnvetVtykN~k   62 (180)
T KOG0071|consen   15 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTYKNVK   62 (180)
T ss_pred             cccceEEEEecccCCceehhhHHhcCCCc-ccccccc--eeEEEEEeeeeE
Confidence            35799999999999999999999877664 4679999  777888787653

>cd01878 HflX HflX subfamily

Probab=98.27  E-value=2.9e-06  Score=47.59  Aligned_cols=29  Identities=21%  Similarity=0.280  Sum_probs=25.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      .+.++++++|++|+|||||++++....+.
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~   67 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVY   67 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhc
Confidence            34589999999999999999999987653

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.

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

Probab=98.24  E-value=3.9e-08  Score=56.41  Aligned_cols=43  Identities=42%  Similarity=0.722  Sum_probs=38.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      +..+|++++|+.++|||++++|++...|...|.+|||.||..+
T Consensus        23 ~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalk   65 (229)
T KOG4423|consen   23 EHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALK   65 (229)
T ss_pred             hhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            3468999999999999999999999999999999999998643

>cd04171 SelB SelB subfamily

Probab=98.20  E-value=5.4e-06  Score=44.35  Aligned_cols=36  Identities=22%  Similarity=0.300  Sum_probs=25.7

Q ss_pred             eEEEECCCCCchHHHHHHhhc---CcCCCcccC--CeeeeE
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD---DSYVDSYIS--TIGVDF   45 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~---~~~~~~~~~--tig~~~   45 (57)
                      -+.++|++++|||+|++++..   +.++.++.+  |+...+
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~   42 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGF   42 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeee
Confidence            478999999999999999985   345444333  444444

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

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

Probab=98.16  E-value=1.3e-07  Score=52.09  Aligned_cols=38  Identities=47%  Similarity=0.963  Sum_probs=33.4

Q ss_pred             EECCCCCchHHHHHHhhcCcCCC-cccCCeeeeEEEEEE
Q 035406           13 LIGDSSVGKSCLLLRFADDSYVD-SYISTIGVDFVSLSS   50 (57)
Q Consensus        13 viG~~~vGKtsl~~~~~~~~~~~-~~~~tig~~~~~~~~   50 (57)
                      ++|++++|||+++.||.++.|.. .+.+|+|+||..+.+
T Consensus         2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli   40 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLI   40 (192)
T ss_pred             ccccCccCceEEEEEeccCceecCceeeeeeecccccee
Confidence            68999999999999999999864 578999999987654

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.16  E-value=3.6e-06  Score=47.48  Aligned_cols=29  Identities=17%  Similarity=0.285  Sum_probs=24.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSY   37 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~   37 (57)
                      +|++++|++|+||||+++.+.+..+....
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~   30 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEG   30 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCC
Confidence            68999999999999999999986665433

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

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

Probab=98.12  E-value=9.7e-06  Score=43.81  Aligned_cols=25  Identities=28%  Similarity=0.416  Sum_probs=23.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      +++++|++++|||+|++++....+.
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~   26 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPE   26 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCc
Confidence            6899999999999999999998774

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.

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=98.12  E-value=8.3e-07  Score=49.96  Aligned_cols=44  Identities=30%  Similarity=0.707  Sum_probs=40.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      -.+|+-++||+.+|||+|+..|+++++.+++..+.|+.|-.+.+
T Consensus        19 Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~   62 (205)
T KOG1673|consen   19 VSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTV   62 (205)
T ss_pred             eEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEE
Confidence            47899999999999999999999999999999999999987765

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

Probab=98.11  E-value=4.4e-06  Score=47.46  Aligned_cols=31  Identities=29%  Similarity=0.538  Sum_probs=26.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYIST   40 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~t   40 (57)
                      +++++|++++|||+|+.++..+++...+.++
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~   32 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI   32 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE
Confidence            5889999999999999999999887766443

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

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

Probab=98.11  E-value=1.1e-05  Score=43.47  Aligned_cols=32  Identities=19%  Similarity=0.270  Sum_probs=26.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCe
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTI   41 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~ti   41 (57)
                      .++++|++++|||++++++..+++.....++.
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~   33 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGI   33 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCe
Confidence            47899999999999999999988876544333

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.

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

Probab=98.08  E-value=7.9e-06  Score=45.68  Aligned_cols=28  Identities=14%  Similarity=0.311  Sum_probs=23.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc--CcCCCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD--DSYVDS   36 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~--~~~~~~   36 (57)
                      .+++++|++++|||+|+.++..  +.|...
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~   32 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFREN   32 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCcc
Confidence            4789999999999999999997  666544

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

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

Probab=98.06  E-value=2e-05  Score=41.76  Aligned_cols=25  Identities=36%  Similarity=0.599  Sum_probs=22.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ++++++|++++|||+++.++....+
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~   26 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDR   26 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCce
Confidence            5899999999999999999998764

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.

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

Probab=98.01  E-value=8.5e-06  Score=43.43  Aligned_cols=34  Identities=21%  Similarity=0.289  Sum_probs=24.8

Q ss_pred             EECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406           13 LIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus        13 viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ++|++++|||||+.++.+..+.....|....++.
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~   34 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKK   34 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccc
Confidence            4799999999999999988655444454444443

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.

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

Probab=97.97  E-value=2.2e-05  Score=43.12  Aligned_cols=37  Identities=24%  Similarity=0.480  Sum_probs=28.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      |++++|+.|+|||+|++++.+.+.  .+.-|-.++|...
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~~~~   39 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEYYDN   39 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEeccc
Confidence            789999999999999999998766  3444444445443

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

>PRK15494 era GTPase Era; Provisional

Probab=97.95  E-value=3.1e-05  Score=47.20  Aligned_cols=28  Identities=29%  Similarity=0.404  Sum_probs=25.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ...+++++|++++|||||++++.+..+.
T Consensus        51 k~~kV~ivG~~nvGKSTLin~l~~~k~~   78 (339)
T PRK15494         51 KTVSVCIIGRPNSGKSTLLNRIIGEKLS   78 (339)
T ss_pred             ceeEEEEEcCCCCCHHHHHHHHhCCcee
Confidence            4579999999999999999999988774

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=97.94  E-value=4.4e-05  Score=48.10  Aligned_cols=43  Identities=30%  Similarity=0.324  Sum_probs=30.9

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC--CCcccCCeeeeEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY--VDSYISTIGVDFVSLSS   50 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~--~~~~~~tig~~~~~~~~   50 (57)
                      ..++++++|++++|||||++++...+.  ...+ |....|+....+
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~-pgtTrd~~~~~i  246 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDI-KGTTRDVVEGDF  246 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCcccCCC-CCcEEEEEEEEE
Confidence            458999999999999999999998653  3444 333455554443

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.

>cd01895 EngA2 EngA2 subfamily

Probab=97.92  E-value=3.6e-05  Score=41.23  Aligned_cols=26  Identities=27%  Similarity=0.477  Sum_probs=23.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .++++++|++++|||+|++++....+
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~   27 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEER   27 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccc
Confidence            47899999999999999999987653

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=97.91  E-value=2.7e-05  Score=40.07  Aligned_cols=37  Identities=41%  Similarity=0.697  Sum_probs=28.3

Q ss_pred             EECCCCCchHHHHHHhhcCcC-CCcccCCeeeeEEEEEE
Q 035406           13 LIGDSSVGKSCLLLRFADDSY-VDSYISTIGVDFVSLSS   50 (57)
Q Consensus        13 viG~~~vGKtsl~~~~~~~~~-~~~~~~tig~~~~~~~~   50 (57)
                      ++|++++|||+|++++..... .....+|. .++.....
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~   38 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTI   38 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEE
Confidence            479999999999999998777 56666666 55555444

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

>cd04163 Era Era subfamily

Probab=97.91  E-value=1.9e-05  Score=41.88  Aligned_cols=26  Identities=27%  Similarity=0.326  Sum_probs=23.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..++.++|+.|+||||+++++.....
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~   28 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKI   28 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCce
Confidence            57899999999999999999987654

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.

>cd01856 YlqF YlqF

Probab=97.86  E-value=8.1e-05  Score=41.11  Aligned_cols=28  Identities=25%  Similarity=0.389  Sum_probs=24.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ..++++++|.+++|||++++++....+.
T Consensus       114 ~~~~~~~~G~~~vGKstlin~l~~~~~~  141 (171)
T cd01856         114 RGIRAMVVGIPNVGKSTLINRLRGKKVA  141 (171)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCce
Confidence            3478999999999999999999987764

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.

>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=97.85  E-value=2.1e-05  Score=40.72  Aligned_cols=22  Identities=32%  Similarity=0.591  Sum_probs=20.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++++|.+++|||||++.+...
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999999975

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 ....

>PRK03003 GTP-binding protein Der; Reviewed

Probab=97.85  E-value=4.9e-05  Score=47.97  Aligned_cols=42  Identities=29%  Similarity=0.314  Sum_probs=30.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC-CcccCCeeeeEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDFVSL   48 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~-~~~~~tig~~~~~~   48 (57)
                      ...+++++|.+++|||||++++...++. .+..|....|+...
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~  252 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDS  252 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceE
Confidence            3589999999999999999999987652 23334444454433

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=97.84  E-value=2.5e-06  Score=47.61  Aligned_cols=46  Identities=26%  Similarity=0.348  Sum_probs=38.7

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYM   53 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~~   53 (57)
                      ..++.+.++|...+|||+|+.....+.|.+...||+|  |..++....
T Consensus        18 k~emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvG--fnmrk~tkg   63 (186)
T KOG0075|consen   18 KEEMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVG--FNMRKVTKG   63 (186)
T ss_pred             HheeeEEEEeeccCCcceEEEEEeeccchhhhccccc--ceeEEeccC
Confidence            4578899999999999999999999999999999999  555554433

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

Probab=97.80  E-value=3.5e-05  Score=50.18  Aligned_cols=33  Identities=30%  Similarity=0.590  Sum_probs=29.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCccc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYI   38 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~   38 (57)
                      ....+|+++|+.|+|||||+-.....+|++..+
T Consensus         7 ~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP   39 (625)
T KOG1707|consen    7 LKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVP   39 (625)
T ss_pred             ccceEEEEECCCCccHHHHHHHHHhhhcccccc
Confidence            357899999999999999999999999987643

>cd01889 SelB_euk SelB subfamily

Probab=97.77  E-value=5.4e-05  Score=42.24  Aligned_cols=22  Identities=18%  Similarity=0.391  Sum_probs=20.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.++|+.++|||+|+.++..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~   22 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSE   22 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHh
Confidence            4789999999999999999986

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

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

Probab=97.75  E-value=3.9e-05  Score=45.89  Aligned_cols=28  Identities=18%  Similarity=0.617  Sum_probs=23.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ..|+++|+|++|+|||||++.+......
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~   30 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDII   30 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS--
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccc
Confidence            3689999999999999999998876443

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=97.75  E-value=8.4e-05  Score=40.66  Aligned_cols=35  Identities=23%  Similarity=0.406  Sum_probs=25.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +++++|.+++|||+|++++.+ .+.. ..+|.+.+|.
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~-~~~~-~~~~~~v~~~   37 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQG-NYTL-ARKTQAVEFN   37 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcC-CCcc-CccceEEEEC
Confidence            689999999999999999664 4422 2355555553

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

Probab=97.75  E-value=0.00014  Score=42.91  Aligned_cols=29  Identities=24%  Similarity=0.497  Sum_probs=25.3

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ....++++++|.+|+||||+++.+.+...
T Consensus        28 ~~~~~~IllvG~tGvGKSSliNaLlg~~~   56 (249)
T cd01853          28 LDFSLTILVLGKTGVGKSSTINSIFGERK   56 (249)
T ss_pred             ccCCeEEEEECCCCCcHHHHHHHHhCCCC
Confidence            45679999999999999999999998654

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.

>cd01890 LepA LepA subfamily

Probab=97.72  E-value=2.7e-05  Score=42.53  Aligned_cols=22  Identities=27%  Similarity=0.298  Sum_probs=19.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ++.++|+.++|||+|+.++...
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~   23 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLEL   23 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHH
Confidence            5789999999999999999863

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.

>cd01859 MJ1464 MJ1464

Probab=97.71  E-value=0.00018  Score=38.91  Aligned_cols=38  Identities=21%  Similarity=0.159  Sum_probs=29.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...+++++|.+++|||++++++.... ...+.++.|...
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~-~~~~~~~~~~t~  137 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRH-SASTSPSPGYTK  137 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC-ccccCCCCCeee
Confidence            35688999999999999999998654 445667777543

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=97.70  E-value=0.00011  Score=45.08  Aligned_cols=28  Identities=21%  Similarity=0.286  Sum_probs=24.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ..++++++|.+++|||||++++.+.++.
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~  215 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVY  215 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCcee
Confidence            3489999999999999999999987653

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).

>cd00881 GTP_translation_factor GTP translation factor family

Probab=97.69  E-value=5.4e-05  Score=41.28  Aligned_cols=28  Identities=18%  Similarity=0.055  Sum_probs=23.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSY   37 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~   37 (57)
                      +++++|+.++|||+|++.+.........
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~   28 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIER   28 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCc
Confidence            4789999999999999999987776544

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.68  E-value=4.1e-05  Score=43.18  Aligned_cols=23  Identities=30%  Similarity=0.635  Sum_probs=20.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ++++++|++|+||||++.++...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999998876

>cd01898 Obg Obg subfamily

Probab=97.68  E-value=4.9e-05  Score=41.02  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=20.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++++|||||++++...+
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~   24 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAK   24 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998654

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=97.67  E-value=0.00019  Score=45.41  Aligned_cols=26  Identities=31%  Similarity=0.395  Sum_probs=23.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..+++++|.++||||||++++....+
T Consensus        38 ~~~V~IvG~~nvGKSSL~nrl~~~~~   63 (472)
T PRK03003         38 LPVVAVVGRPNVGKSTLVNRILGRRE   63 (472)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCcCc
Confidence            46899999999999999999998764

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=97.67  E-value=0.00016  Score=38.82  Aligned_cols=25  Identities=32%  Similarity=0.448  Sum_probs=22.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      +++++|.+++|||++++++...+..
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~  109 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKV  109 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCce
Confidence            7899999999999999999987764

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.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=97.67  E-value=6e-05  Score=42.13  Aligned_cols=23  Identities=35%  Similarity=0.570  Sum_probs=20.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      -++++|.+|||||||++.+....
T Consensus        37 ~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   37 TSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            46789999999999999998763

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.

>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=97.65  E-value=0.00015  Score=40.26  Aligned_cols=38  Identities=21%  Similarity=0.281  Sum_probs=26.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +++.++|.+++|||+|++++.+.+..-...|-.-.+..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~   38 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKK   38 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeee
Confidence            47899999999999999999987654333333333433

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 ....

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=97.60  E-value=0.00021  Score=45.11  Aligned_cols=26  Identities=31%  Similarity=0.461  Sum_probs=23.5

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .++++++|.+++|||||++++...+.
T Consensus       215 ~~kV~ivG~~nvGKSSLln~L~~~~~  240 (449)
T PRK05291        215 GLKVVIAGRPNVGKSSLLNALLGEER  240 (449)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            57999999999999999999998654

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.59  E-value=7.9e-05  Score=38.61  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .|++.|.+|+|||++++.+...
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            4789999999999999988763

...

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.59  E-value=0.00018  Score=44.66  Aligned_cols=25  Identities=28%  Similarity=0.420  Sum_probs=22.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ++++++|.++||||||++++.....
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~   26 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRD   26 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc
Confidence            5799999999999999999997653

>TIGR00436 era GTP-binding protein Era

Probab=97.58  E-value=8.5e-05  Score=43.76  Aligned_cols=24  Identities=29%  Similarity=0.466  Sum_probs=21.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ++.++|.+++|||||++++.+..+
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~   25 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKI   25 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcE
Confidence            578999999999999999998765

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

>cd01899 Ygr210 Ygr210 subfamily

Probab=97.58  E-value=0.00012  Score=44.59  Aligned_cols=36  Identities=22%  Similarity=0.344  Sum_probs=28.6

Q ss_pred             EEEECCCCCchHHHHHHhhcCcCC------CcccCCeeeeEE
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSYV------DSYISTIGVDFV   46 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~~------~~~~~tig~~~~   46 (57)
                      +.++|.+++|||||++++....+.      ..+.|++|..+.
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~   42 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYV   42 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEE
Confidence            468999999999999999987642      345788887664

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.

>PRK08118 topology modulation protein; Reviewed

Probab=97.57  E-value=8.9e-05  Score=41.19  Aligned_cols=22  Identities=36%  Similarity=0.594  Sum_probs=19.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+|+++|.+|+|||+++..+..
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~   23 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGE   23 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998775

>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=97.55  E-value=9.6e-05  Score=41.98  Aligned_cols=29  Identities=28%  Similarity=0.456  Sum_probs=21.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSY   37 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~   37 (57)
                      -.++++|++++|||+|+.++..+.+.+.+
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T~   32 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTVPTV   32 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS---B-
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcCCee
Confidence            35889999999999999999999776544

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.

>PRK07261 topology modulation protein; Provisional

Probab=97.55  E-value=9.9e-05  Score=41.05  Aligned_cols=22  Identities=36%  Similarity=0.567  Sum_probs=19.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++++|.+|+|||+++..+..
T Consensus         1 ~ri~i~G~~GsGKSTla~~l~~   22 (171)
T PRK07261          1 MKIAIIGYSGSGKSTLARKLSQ   22 (171)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3789999999999999998764

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

Probab=97.54  E-value=0.00013  Score=44.48  Aligned_cols=28  Identities=21%  Similarity=0.323  Sum_probs=24.6

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ....++++++|.+|+||||+++++.+.+
T Consensus        35 ~~~~~rIllvGktGVGKSSliNsIlG~~   62 (313)
T TIGR00991        35 DVSSLTILVMGKGGVGKSSTVNSIIGER   62 (313)
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhCCC
Confidence            3457899999999999999999999764

>PRK09602 translation-associated GTPase; Reviewed

Probab=97.52  E-value=0.00018  Score=44.95  Aligned_cols=37  Identities=24%  Similarity=0.377  Sum_probs=29.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCC-cc-----cCCeeeeE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVD-SY-----ISTIGVDF   45 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~-~~-----~~tig~~~   45 (57)
                      +++.++|.+++|||||++++...++.. .|     .|++|..+
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~   44 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAY   44 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeee
Confidence            689999999999999999999876642 22     47777654

>PRK11058 GTPase HflX; Provisional

Probab=97.52  E-value=0.00022  Score=44.85  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=22.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+++++|.+++|||||++++...++
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~  222 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARV  222 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCce
Confidence            5899999999999999999998654

>cd04165 GTPBP1_like GTPBP1-like

Probab=97.50  E-value=0.00014  Score=42.20  Aligned_cols=26  Identities=23%  Similarity=0.422  Sum_probs=23.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVD   35 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~   35 (57)
                      |++++|+.++|||+|+.++..+.|..
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~   26 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDN   26 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCC
Confidence            57899999999999999999877754

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

>COG0218 Predicted GTPase [General function prediction only]

Probab=97.48  E-value=0.00031  Score=40.56  Aligned_cols=36  Identities=28%  Similarity=0.354  Sum_probs=27.9

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCee
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIG   42 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig   42 (57)
                      ...-|+++|.++|||||+++.+.+.+-......|.|
T Consensus        23 ~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPG   58 (200)
T COG0218          23 DLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPG   58 (200)
T ss_pred             CCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCC
Confidence            356799999999999999999998664344445555

>cd01858 NGP_1 NGP-1

Probab=97.45  E-value=0.00018  Score=39.13  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=22.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ...+.++|.++|||||+++.+.....
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~~~  127 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKKV  127 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcCCc
Confidence            46788999999999999999987544

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.

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.45  E-value=0.00014  Score=38.57  Aligned_cols=19  Identities=42%  Similarity=0.623  Sum_probs=17.5

Q ss_pred             EEEECCCCCchHHHHHHhh
Q 035406           11 LLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~   29 (57)
                      ++++|.+|+|||+++.++.
T Consensus         2 ii~~G~pgsGKSt~a~~l~   20 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLA   20 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6789999999999999877

...

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

Probab=97.45  E-value=0.00016  Score=39.03  Aligned_cols=21  Identities=38%  Similarity=0.506  Sum_probs=18.6

Q ss_pred             EECCCCCchHHHHHHhhcCcC
Q 035406           13 LIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        13 viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ++|++++|||||++++.+..+
T Consensus         1 iiG~~~~GKStll~~l~~~~~   21 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKP   21 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCc
Confidence            479999999999999998764

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

>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=97.44  E-value=0.00053  Score=39.86  Aligned_cols=23  Identities=39%  Similarity=0.631  Sum_probs=20.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ++.++|.+++|||+|++++.+..
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~   24 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTK   24 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            68899999999999999999764

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.

>cd01894 EngA1 EngA1 subfamily

Probab=97.43  E-value=0.00012  Score=38.83  Aligned_cols=21  Identities=33%  Similarity=0.589  Sum_probs=18.4

Q ss_pred             EEECCCCCchHHHHHHhhcCc
Q 035406           12 LLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        12 ~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +++|++|+|||||++++....
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~   21 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRR   21 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCc
Confidence            368999999999999998764

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.

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

Probab=97.42  E-value=0.00028  Score=40.36  Aligned_cols=26  Identities=27%  Similarity=0.442  Sum_probs=22.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ++|+++|..|+|||++.+.+++....
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f   26 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVF   26 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-S
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccce
Confidence            58999999999999999999876543

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=97.40  E-value=0.00056  Score=38.40  Aligned_cols=25  Identities=24%  Similarity=0.388  Sum_probs=21.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ++++++|.+|+|||++++.+++.+.
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~   25 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREV   25 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCc
Confidence            4689999999999999999997643

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).

>PRK00089 era GTPase Era; Reviewed

Probab=97.39  E-value=0.00022  Score=42.25  Aligned_cols=26  Identities=27%  Similarity=0.326  Sum_probs=22.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .-.+.++|++++|||||++++.+...
T Consensus         5 ~g~V~iiG~pn~GKSTLin~L~g~~~   30 (292)
T PRK00089          5 SGFVAIVGRPNVGKSTLLNALVGQKI   30 (292)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhCCce
Confidence            45689999999999999999987755

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=97.33  E-value=0.00061  Score=45.08  Aligned_cols=26  Identities=35%  Similarity=0.576  Sum_probs=23.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..+++++|.+++|||||++++...+.
T Consensus       450 ~~kI~ivG~~nvGKSSLin~l~~~~~  475 (712)
T PRK09518        450 LRRVALVGRPNVGKSSLLNQLTHEER  475 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCccc
Confidence            57999999999999999999998764

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.32  E-value=0.00033  Score=35.75  Aligned_cols=27  Identities=22%  Similarity=0.271  Sum_probs=22.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVD   35 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~   35 (57)
                      -.+++.|++|+|||+++..+...-...
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~   29 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPP   29 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCC
Confidence            357899999999999999888665543

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.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.32  E-value=0.00021  Score=39.10  Aligned_cols=23  Identities=43%  Similarity=0.576  Sum_probs=16.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .--+++.|++|+|||+++.++..
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            35678999999999999998664

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=97.31  E-value=0.0007  Score=41.89  Aligned_cols=24  Identities=29%  Similarity=0.490  Sum_probs=21.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      +++++|.++||||||++++.....
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~   24 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRD   24 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCc
Confidence            578999999999999999998653

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.

>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=97.30  E-value=0.00045  Score=37.46  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.3

Q ss_pred             EEEECCCCCchHHHHHHhhcCcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      |.++|..++|||+|++.+++...
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            57899999999999999998763

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 ....

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.28  E-value=0.0015  Score=40.55  Aligned_cols=26  Identities=31%  Similarity=0.484  Sum_probs=23.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..+++.++|.+++|||||+++++..+
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~  197 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEE  197 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999999998654

>PRK06217 hypothetical protein; Validated

Probab=97.28  E-value=0.00037  Score=38.92  Aligned_cols=23  Identities=22%  Similarity=0.401  Sum_probs=20.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+|+++|.+|+|||++..++...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999988753

>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=97.28  E-value=0.00033  Score=36.34  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=18.2

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.|++|+|||++++.+...
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            578999999999999987753

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 ....

>PF05729 NACHT: NACHT domain

Probab=97.27  E-value=0.00033  Score=37.51  Aligned_cols=21  Identities=38%  Similarity=0.629  Sum_probs=18.3

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.|++|+|||+++.++...
T Consensus         3 l~I~G~~G~GKStll~~~~~~   23 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQ   23 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            678999999999999987753

>PRK12288 GTPase RsgA; Reviewed

Probab=97.26  E-value=0.0003  Score=43.30  Aligned_cols=22  Identities=32%  Similarity=0.584  Sum_probs=19.6

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+++|.+|||||||++.+....
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~  229 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEA  229 (347)
T ss_pred             EEEECCCCCCHHHHHHHhcccc
Confidence            6789999999999999999753

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

Probab=97.26  E-value=0.00039  Score=43.36  Aligned_cols=25  Identities=20%  Similarity=0.305  Sum_probs=20.9

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..++|.|.|++|+|||||++.+.+-
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl   58 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGL   58 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT-
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999999999763

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.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.23  E-value=0.00033  Score=36.54  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=18.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      -+++.|++|+|||+++.++....
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            46789999999999999988653

>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=97.23  E-value=0.00033  Score=37.19  Aligned_cols=20  Identities=35%  Similarity=0.592  Sum_probs=17.7

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|++|+|||+++..+..
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            78999999999999997664

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=97.23  E-value=0.001  Score=43.32  Aligned_cols=38  Identities=18%  Similarity=0.229  Sum_probs=29.0

Q ss_pred             eEEEECCCCCchHHHHHHhhc---CcCCCcccCCeeeeEEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD---DSYVDSYISTIGVDFVS   47 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~---~~~~~~~~~tig~~~~~   47 (57)
                      .+.++|..++|||||++++.+   +.+++++.+++.+++..
T Consensus         2 ~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~   42 (581)
T TIGR00475         2 IIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGF   42 (581)
T ss_pred             EEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEE
Confidence            578999999999999999985   45666666666655543

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.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=97.22  E-value=0.00043  Score=38.66  Aligned_cols=21  Identities=29%  Similarity=0.621  Sum_probs=17.9

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++.|++|+|||+++.++..
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~   21 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIE   21 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHH
Confidence            688999999999999998774

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.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.22  E-value=0.0004  Score=38.85  Aligned_cols=22  Identities=32%  Similarity=0.495  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .++++|++|+||||+++.+...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5789999999999999998654

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=97.21  E-value=0.0014  Score=42.81  Aligned_cols=34  Identities=18%  Similarity=0.186  Sum_probs=27.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCe
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI   41 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~ti   41 (57)
                      ..++.++|..++|||||+.++....+.....+.+
T Consensus        87 ~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GI  120 (587)
T TIGR00487        87 PPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGI  120 (587)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhCCcccccCCce
Confidence            4689999999999999999999887766554433

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.

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

Probab=97.21  E-value=0.00055  Score=40.36  Aligned_cols=26  Identities=35%  Similarity=0.379  Sum_probs=21.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVD   35 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~   35 (57)
                      .++++|++|+|||+|++.+..-+-++
T Consensus        30 vv~iiGpSGSGKSTlLRclN~LE~~~   55 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNGLEEPD   55 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCcCCC
Confidence            46789999999999999887655544

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.21  E-value=0.00041  Score=35.81  Aligned_cols=24  Identities=33%  Similarity=0.452  Sum_probs=20.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      -.+++.|++|+|||+++..+...-
T Consensus        20 ~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          20 KNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999887653

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=97.20  E-value=0.002  Score=39.93  Aligned_cols=27  Identities=30%  Similarity=0.409  Sum_probs=23.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..+++.++|.+++|||+|++++...+.
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~~~~~  197 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALLGEER  197 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCe
Confidence            458999999999999999999997653

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.

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

Probab=97.19  E-value=0.0011  Score=37.09  Aligned_cols=46  Identities=22%  Similarity=0.288  Sum_probs=35.7

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYM   53 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~~   53 (57)
                      ...++++.++|-.++|||+|+.++.. +.+.+..||-|  |.++.+.|.
T Consensus        14 t~rEirilllGldnAGKTT~LKqL~s-ED~~hltpT~G--Fn~k~v~~~   59 (185)
T KOG0074|consen   14 TRREIRILLLGLDNAGKTTFLKQLKS-EDPRHLTPTNG--FNTKKVEYD   59 (185)
T ss_pred             CcceEEEEEEecCCCcchhHHHHHcc-CChhhccccCC--cceEEEeec
Confidence            34579999999999999999988765 44556779999  666666553

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.18  E-value=0.00047  Score=38.08  Aligned_cols=22  Identities=27%  Similarity=0.345  Sum_probs=18.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -++++|++|+|||++++.+...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3689999999999999987553

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.

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.16  E-value=0.00076  Score=38.48  Aligned_cols=25  Identities=28%  Similarity=0.474  Sum_probs=20.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ...-++++|++|+|||+++..+...
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            3456778999999999999988753

>PF13173 AAA_14: AAA domain

Probab=97.15  E-value=0.00055  Score=36.19  Aligned_cols=23  Identities=39%  Similarity=0.641  Sum_probs=19.6

Q ss_pred             EEEECCCCCchHHHHHHhhcCcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      +++.|++++|||+++.++.....
T Consensus         5 ~~l~G~R~vGKTtll~~~~~~~~   27 (128)
T PF13173_consen    5 IILTGPRGVGKTTLLKQLAKDLL   27 (128)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            57889999999999999886544

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.14  E-value=0.00056  Score=36.83  Aligned_cols=21  Identities=48%  Similarity=0.746  Sum_probs=18.3

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      ++++|++|+|||+++..+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            578999999999999988753

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.14  E-value=0.00037  Score=38.04  Aligned_cols=22  Identities=27%  Similarity=0.558  Sum_probs=17.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ||++.|..++|||+|+..+...
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            6899999999999999988754

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.12  E-value=0.00058  Score=37.63  Aligned_cols=22  Identities=32%  Similarity=0.549  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .++++|++|+|||+++..+...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4689999999999999988763

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=97.12  E-value=0.0024  Score=42.96  Aligned_cols=26  Identities=23%  Similarity=0.402  Sum_probs=23.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+++.++|.+++|||+|++++.+.+.
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~   28 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQ   28 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCC
Confidence            47899999999999999999987654

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

Probab=97.11  E-value=0.00076  Score=40.08  Aligned_cols=23  Identities=35%  Similarity=0.398  Sum_probs=19.2

Q ss_pred             EEEECCCCCchHHHHHHhhcCcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      +.++|++|+|||||++-..+-.-
T Consensus        32 vsilGpSGcGKSTLLriiAGL~~   54 (248)
T COG1116          32 VAILGPSGCGKSTLLRLIAGLEK   54 (248)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            57899999999999998776443

>PRK03839 putative kinase; Provisional

Probab=97.11  E-value=0.00064  Score=37.66  Aligned_cols=22  Identities=23%  Similarity=0.400  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++++|.+|+|||++..++...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999877653

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=97.11  E-value=0.0013  Score=42.90  Aligned_cols=37  Identities=19%  Similarity=0.137  Sum_probs=28.0

Q ss_pred             CCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406           15 GDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus        15 G~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      |++++||||+++++.+..+...+.|....+.......
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~   37 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLG   37 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEE
Confidence            7899999999999998877555566666666554443

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.11  E-value=0.00052  Score=40.23  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=19.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..+++|.+|||||||++.+...
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~  143 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPS  143 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhh
Confidence            5679999999999999999865

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

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

Probab=97.10  E-value=0.00075  Score=41.61  Aligned_cols=24  Identities=38%  Similarity=0.414  Sum_probs=20.3

Q ss_pred             EEEECCCCCchHHHHHHhhcCcCC
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ++++|++|+|||++++-+.+-+-+
T Consensus        32 ~vllGPSGcGKSTlLr~IAGLe~~   55 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGLEEP   55 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCC
Confidence            678899999999999988875543

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.10  E-value=0.00071  Score=37.87  Aligned_cols=26  Identities=23%  Similarity=0.299  Sum_probs=22.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+++.++|.+++||||+++++....-
T Consensus       117 ~~~~~~vG~pnvGKSslin~l~~~~~  142 (172)
T cd04178         117 SITVGVVGFPNVGKSSLINSLKRSRA  142 (172)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccc
Confidence            37899999999999999999997543

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

>PRK14532 adenylate kinase; Provisional

Probab=97.09  E-value=0.00067  Score=37.76  Aligned_cols=22  Identities=27%  Similarity=0.546  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++++|.+|+|||++..++..
T Consensus         1 ~~i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          1 MNLILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998864

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.09  E-value=0.00063  Score=38.48  Aligned_cols=23  Identities=13%  Similarity=0.251  Sum_probs=19.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .=++++|++|+||++++.++...
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            34789999999999999999764

>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=97.09  E-value=0.00065  Score=40.17  Aligned_cols=24  Identities=29%  Similarity=0.528  Sum_probs=20.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..++++++|.+|+|||+++..++.
T Consensus        12 ~~fr~viIG~sGSGKT~li~~lL~   35 (241)
T PF04665_consen   12 DPFRMVIIGKSGSGKTTLIKSLLY   35 (241)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            358999999999999998887664

This is thought to be an ATPase involved in viral DNA packaging [].

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.09  E-value=0.00061  Score=35.18  Aligned_cols=21  Identities=19%  Similarity=0.311  Sum_probs=17.7

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      |++.|.+|+|||+++..+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            578899999999999876643

...

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=97.08  E-value=0.0025  Score=37.87  Aligned_cols=27  Identities=30%  Similarity=0.477  Sum_probs=23.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..++++++|.++|||||+++++.....
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~~~  143 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGKKV  143 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCc
Confidence            357899999999999999999987653

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.

>cd00880 Era_like Era (E

Probab=97.08  E-value=0.0015  Score=33.98  Aligned_cols=22  Identities=32%  Similarity=0.475  Sum_probs=18.5

Q ss_pred             EECCCCCchHHHHHHhhcCcCC
Q 035406           13 LIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus        13 viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ++|..|+|||++++++......
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~   22 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVA   22 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCcccc
Confidence            4799999999999999876443

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

>PRK12289 GTPase RsgA; Reviewed

Probab=97.07  E-value=0.00056  Score=42.21  Aligned_cols=22  Identities=41%  Similarity=0.579  Sum_probs=19.6

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+++|.+|||||||++.+....
T Consensus       175 ~v~iG~SgVGKSSLIN~L~~~~  196 (352)
T PRK12289        175 TVVAGPSGVGKSSLINRLIPDV  196 (352)
T ss_pred             EEEEeCCCCCHHHHHHHHcCcc
Confidence            6899999999999999998653

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=97.07  E-value=0.0029  Score=41.95  Aligned_cols=27  Identities=26%  Similarity=0.321  Sum_probs=23.6

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ...++.++|.++||||||++++.+...
T Consensus       274 ~~~~V~IvG~~nvGKSSL~n~l~~~~~  300 (712)
T PRK09518        274 AVGVVAIVGRPNVGKSTLVNRILGRRE  300 (712)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCc
Confidence            357899999999999999999997654

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=97.07  E-value=0.00055  Score=38.36  Aligned_cols=24  Identities=33%  Similarity=0.555  Sum_probs=20.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      --+++.|++|+|||+++..+....
T Consensus        21 ~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen   21 QHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             cEEEEEcCCcCCHHHHHHHHHHHh
Confidence            457788999999999999888644

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PRK00300 gmk guanylate kinase; Provisional

Probab=97.04  E-value=0.00074  Score=37.96  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=19.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      --++++|++|+|||+++..+...
T Consensus         6 ~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          6 LLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            35789999999999999887753

>PRK13695 putative NTPase; Provisional

Probab=97.03  E-value=0.0008  Score=37.18  Aligned_cols=21  Identities=38%  Similarity=0.670  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      +++++.|++|+|||+++..+.
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~   21 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIA   21 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            588999999999999999854

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.03  E-value=0.00077  Score=35.53  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+..
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEEccCCCccccceeeecccc
Confidence            56899999999999998776543

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 ....

>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=97.03  E-value=0.00092  Score=32.10  Aligned_cols=21  Identities=29%  Similarity=0.521  Sum_probs=18.0

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.+.|.+|+|||++++.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            578899999999999987754

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.

>cd04167 Snu114p Snu114p subfamily

Probab=97.02  E-value=0.00082  Score=38.23  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=20.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      +++++|..++|||+|+.+++....
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~   25 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTH   25 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcC
Confidence            578999999999999999986543

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.02  E-value=0.00052  Score=41.74  Aligned_cols=22  Identities=36%  Similarity=0.549  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -.+++|.+|||||||++++...
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~  187 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPE  187 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCch
Confidence            3578899999999999998863

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=97.02  E-value=0.0012  Score=37.38  Aligned_cols=40  Identities=25%  Similarity=0.272  Sum_probs=31.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC--CCcccCCeeeeEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY--VDSYISTIGVDFV   46 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~--~~~~~~tig~~~~   46 (57)
                      ...|++++|--+||||+++.+..-++.  ..++.||+.+-|-
T Consensus         8 k~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~   49 (198)
T KOG3883|consen    8 KVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYV   49 (198)
T ss_pred             cceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhhee
Confidence            467999999999999999999886544  3456799886654

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

Probab=97.01  E-value=0.0011  Score=38.89  Aligned_cols=24  Identities=29%  Similarity=0.307  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      -+.++|++|+|||+|++-+..-+-
T Consensus        33 ~vaI~GpSGSGKSTLLniig~ld~   56 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGLDK   56 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccC
Confidence            357899999999999998775443

>PRK14530 adenylate kinase; Provisional

Probab=97.00  E-value=0.00093  Score=38.13  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++++|.+|+|||++...+..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998753

>cd01855 YqeH YqeH

Probab=96.99  E-value=0.00081  Score=37.54  Aligned_cols=24  Identities=25%  Similarity=0.433  Sum_probs=21.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..+.++|.+++|||+|++.+....
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~~  151 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKKD  151 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhc
Confidence            578999999999999999998754

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.98  E-value=0.00092  Score=36.84  Aligned_cols=20  Identities=15%  Similarity=0.380  Sum_probs=17.9

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      .++++|.+|+|||+++..+.
T Consensus         5 ii~i~G~~GsGKsTl~~~l~   24 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIV   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            57789999999999998876

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.98  E-value=0.0009  Score=38.41  Aligned_cols=23  Identities=39%  Similarity=0.579  Sum_probs=19.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      -+++.|++|+||+|+++.+....
T Consensus         6 l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           6 LIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            46788999999999999988654

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=96.98  E-value=0.00084  Score=38.99  Aligned_cols=22  Identities=23%  Similarity=0.474  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+++.|++|+|||++++.+...
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~   66 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKR   66 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHh
Confidence            4789999999999999988754

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>TIGR00101 ureG urease accessory protein UreG

Probab=96.97  E-value=0.0011  Score=37.86  Aligned_cols=23  Identities=22%  Similarity=0.380  Sum_probs=20.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.++|+.|+|||+++.++...
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~   24 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRA   24 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            68899999999999999988753

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=96.96  E-value=0.0015  Score=39.90  Aligned_cols=35  Identities=23%  Similarity=0.366  Sum_probs=26.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcC------CCcccCCeee
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSY------VDSYISTIGV   43 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~------~~~~~~tig~   43 (57)
                      ..+.++|.+++|||||+.++.....      .....|++|.
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~  198 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGV  198 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEE
Confidence            4678999999999999999987542      1234566664

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.

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.96  E-value=0.00011  Score=40.99  Aligned_cols=47  Identities=26%  Similarity=0.426  Sum_probs=38.4

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEEEEe
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYI   55 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~~~~   55 (57)
                      +...+++++|..|+|||++..|..-++-. ...||+|  |....+.|+++
T Consensus        16 e~e~rililgldGaGkttIlyrlqvgevv-ttkPtig--fnve~v~yKNL   62 (182)
T KOG0072|consen   16 EREMRILILGLDGAGKTTILYRLQVGEVV-TTKPTIG--FNVETVPYKNL   62 (182)
T ss_pred             ccceEEEEeeccCCCeeEEEEEcccCccc-ccCCCCC--cCccccccccc
Confidence            35789999999999999999999888775 4679999  66666666654

>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=96.95  E-value=0.0023  Score=37.57  Aligned_cols=36  Identities=25%  Similarity=0.264  Sum_probs=21.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcc---cCCeeeeE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSY---ISTIGVDF   45 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~---~~tig~~~   45 (57)
                      |++++|.+++||||+....-.+--+.+.   .||+.++.
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~   39 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEK   39 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEE
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceE
Confidence            7899999999999977766555433332   36665553

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.

>PRK14531 adenylate kinase; Provisional

Probab=96.94  E-value=0.0011  Score=36.95  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=19.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+++++|.+|+|||++..++..
T Consensus         2 ~~~i~i~G~pGsGKsT~~~~la~   24 (183)
T PRK14531          2 KQRLLFLGPPGAGKGTQAARLCA   24 (183)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999887754

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=96.94  E-value=0.001  Score=42.36  Aligned_cols=24  Identities=38%  Similarity=0.546  Sum_probs=22.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+|++++|.++||||||++.+...
T Consensus       217 G~kvvIiG~PNvGKSSLLNaL~~~  240 (454)
T COG0486         217 GLKVVIIGRPNVGKSSLLNALLGR  240 (454)
T ss_pred             CceEEEECCCCCcHHHHHHHHhcC
Confidence            479999999999999999999975

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

Probab=96.93  E-value=0.0013  Score=40.77  Aligned_cols=25  Identities=32%  Similarity=0.360  Sum_probs=20.2

Q ss_pred             EEEECCCCCchHHHHHHhhcCcCCC
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSYVD   35 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~~~   35 (57)
                      +.++|++|+||||+++.+.+=+.++
T Consensus        34 ~~lLGPSGcGKTTlLR~IAGfe~p~   58 (352)
T COG3842          34 VTLLGPSGCGKTTLLRMIAGFEQPS   58 (352)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCCC
Confidence            4689999999999999888655443

>PRK02496 adk adenylate kinase; Provisional

Probab=96.91  E-value=0.0014  Score=36.41  Aligned_cols=22  Identities=23%  Similarity=0.496  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++++|.+|+|||+++..+..
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999887754

>PRK00098 GTPase RsgA; Reviewed

Probab=96.91  E-value=0.0011  Score=39.78  Aligned_cols=23  Identities=48%  Similarity=0.547  Sum_probs=19.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .++++|.+|+|||||++.+....
T Consensus       166 ~~~~~G~sgvGKStlin~l~~~~  188 (298)
T PRK00098        166 VTVLAGQSGVGKSTLLNALAPDL  188 (298)
T ss_pred             eEEEECCCCCCHHHHHHHHhCCc
Confidence            47899999999999999988643

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=96.90  E-value=0.0015  Score=39.07  Aligned_cols=27  Identities=33%  Similarity=0.507  Sum_probs=23.6

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..++++++|.++|||||+++.+.....
T Consensus       120 ~~~~~~~~G~pnvGKSsliN~l~~~~~  146 (287)
T PRK09563        120 RAIRAMIIGIPNVGKSTLINRLAGKKI  146 (287)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCc
Confidence            357899999999999999999987654

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.90  E-value=0.0015  Score=31.25  Aligned_cols=21  Identities=33%  Similarity=0.381  Sum_probs=17.8

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      .++.|+.|+|||+++..+..-
T Consensus        26 tli~G~nGsGKSTllDAi~~~   46 (62)
T PF13555_consen   26 TLITGPNGSGKSTLLDAIQTV   46 (62)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999876643

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=96.90  E-value=0.0011  Score=36.74  Aligned_cols=21  Identities=33%  Similarity=0.567  Sum_probs=18.6

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +|+++|.+|+|||+++..+..
T Consensus         1 ~I~i~G~pGsGKst~a~~La~   21 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAK   21 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999988765

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK08233 hypothetical protein; Provisional

Probab=96.89  E-value=0.0012  Score=36.17  Aligned_cols=22  Identities=23%  Similarity=0.205  Sum_probs=18.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +-+.+.|.+|+|||+++.++..
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~   25 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTH   25 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5567889999999999998875

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.88  E-value=0.0013  Score=38.39  Aligned_cols=23  Identities=26%  Similarity=0.463  Sum_probs=20.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .++++++|.+|+||+++..++..
T Consensus         6 ~mrIvl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          6 PLKIVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999998765

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.88  E-value=0.0012  Score=37.08  Aligned_cols=20  Identities=20%  Similarity=0.345  Sum_probs=17.4

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+.|++|+|||+++..+..
T Consensus         2 igi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56899999999999988765

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.87  E-value=0.002  Score=36.41  Aligned_cols=22  Identities=27%  Similarity=0.308  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+.++|.+|+|||+|+.++...
T Consensus         8 ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          8 LLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             EEEEECCCCChHHHHHHHHHHH
Confidence            4678899999999999987743

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.86  E-value=0.00097  Score=36.29  Aligned_cols=21  Identities=29%  Similarity=0.468  Sum_probs=17.4

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      ++++|++|+|||++...+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            468899999999999876643

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PHA00729 NTP-binding motif containing protein

Probab=96.85  E-value=0.0016  Score=38.16  Aligned_cols=22  Identities=23%  Similarity=0.453  Sum_probs=19.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .++++.|.+|+|||+++..+..
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~   39 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVAR   39 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998765

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

Probab=96.83  E-value=0.0036  Score=39.11  Aligned_cols=27  Identities=22%  Similarity=0.507  Sum_probs=23.6

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..|.++++|++|.|||+|++.+.....
T Consensus        22 i~f~im~~G~sG~GKttfiNtL~~~~l   48 (373)
T COG5019          22 IDFTIMVVGESGLGKTTFINTLFGTSL   48 (373)
T ss_pred             CceEEEEecCCCCchhHHHHhhhHhhc
Confidence            468999999999999999999887643

>TIGR00235 udk uridine kinase

Probab=96.83  E-value=0.0019  Score=36.64  Aligned_cols=23  Identities=17%  Similarity=0.189  Sum_probs=19.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..-+.+.|++|+|||++++.+..
T Consensus         6 g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         6 GIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHH
Confidence            35678999999999999998764

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.83  E-value=0.0017  Score=36.74  Aligned_cols=24  Identities=17%  Similarity=0.194  Sum_probs=20.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+.+.+.|++|+|||+|+..+..
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~   28 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYE   28 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            357888999999999999987765

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.82  E-value=0.0017  Score=36.88  Aligned_cols=24  Identities=33%  Similarity=0.699  Sum_probs=21.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+|+.+-|.+|+|||+++.+...
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e   27 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAE   27 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHH
Confidence            468999999999999999998774

>TIGR01351 adk adenylate kinases

Probab=96.82  E-value=0.0014  Score=37.31  Aligned_cols=21  Identities=33%  Similarity=0.582  Sum_probs=18.6

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +++++|.+|+|||++..++..
T Consensus         1 rI~i~G~pGsGKsT~a~~La~   21 (210)
T TIGR01351         1 RLVLLGPPGSGKGTQAKRIAE   21 (210)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998764

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=96.82  E-value=0.0018  Score=35.12  Aligned_cols=26  Identities=23%  Similarity=0.298  Sum_probs=22.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ....+.++|.+++|||++++.+....
T Consensus        99 ~~~~~~~~G~~~~GKstlin~l~~~~  124 (155)
T cd01849          99 KSITVGVIGYPNVGKSSVINALLNKL  124 (155)
T ss_pred             cCcEEEEEccCCCCHHHHHHHHHccc
Confidence            35678999999999999999988754

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.82  E-value=0.0016  Score=36.32  Aligned_cols=20  Identities=40%  Similarity=0.637  Sum_probs=18.0

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++|++|+||++++.++..
T Consensus         5 ivl~Gpsg~GK~~l~~~L~~   24 (183)
T PF00625_consen    5 IVLVGPSGSGKSTLAKRLIQ   24 (183)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            57899999999999998875

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

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

Probab=96.81  E-value=0.0027  Score=41.62  Aligned_cols=37  Identities=19%  Similarity=0.309  Sum_probs=28.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCc----ccCCeeeeEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDS----YISTIGVDFV   46 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~----~~~tig~~~~   46 (57)
                      -+.++|..++|||||+.++....+...    +..++|..+.
T Consensus         6 iV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v   46 (590)
T TIGR00491         6 IVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEI   46 (590)
T ss_pred             EEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEe
Confidence            478999999999999999998777533    3445665554

This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.

>PRK13949 shikimate kinase; Provisional

Probab=96.81  E-value=0.0018  Score=36.05  Aligned_cols=21  Identities=29%  Similarity=0.466  Sum_probs=18.3

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +++++|.+|+|||++......
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999886553

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.80  E-value=0.0019  Score=38.50  Aligned_cols=25  Identities=32%  Similarity=0.465  Sum_probs=21.3

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..-++++|++|+|||++++.++..-
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l   57 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSL   57 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCS
T ss_pred             CCcEEEECCCCCchhHHHHhhhccC
Confidence            3568999999999999999988653

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.80  E-value=0.0016  Score=35.96  Aligned_cols=20  Identities=15%  Similarity=0.448  Sum_probs=17.5

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++|.+|+|||+++.++..
T Consensus         2 i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999888764

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.79  E-value=0.0015  Score=36.76  Aligned_cols=20  Identities=30%  Similarity=0.273  Sum_probs=17.7

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      .+.++|++|+|||+|++...
T Consensus        23 ~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          23 LVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            57899999999999998775

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.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.79  E-value=0.0016  Score=34.22  Aligned_cols=20  Identities=40%  Similarity=0.677  Sum_probs=17.7

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      .+.++|++|+|||+++..+.
T Consensus        17 ~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          17 GVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEcCCCCCHHHHHHHhh
Confidence            46789999999999999866

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

>TIGR01393 lepA GTP-binding protein LepA

Probab=96.79  E-value=0.0044  Score=40.58  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=21.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..++.++|..++|||||+.+++..
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~   26 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEY   26 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHH
Confidence            468899999999999999999864

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.

>PRK07429 phosphoribulokinase; Provisional

Probab=96.79  E-value=0.0024  Score=39.13  Aligned_cols=30  Identities=37%  Similarity=0.417  Sum_probs=24.1

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhc
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      |-......+-+.+.|++|+|||++++.+..
T Consensus         1 ~~~~~~~~~IIgI~G~SGSGKSTla~~L~~   30 (327)
T PRK07429          1 MTSMPDRPVLLGVAGDSGCGKTTFLRGLAD   30 (327)
T ss_pred             CCCCCCCCEEEEEECCCCCCHHHHHHHHHh
Confidence            444455678899999999999999988774

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

Probab=96.78  E-value=0.0025  Score=36.17  Aligned_cols=22  Identities=32%  Similarity=0.356  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            4579999999999999988764

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=96.78  E-value=0.0026  Score=36.12  Aligned_cols=22  Identities=32%  Similarity=0.433  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl   52 (216)
T TIGR00960        31 MVFLVGHSGAGKSTFLKLILGI   52 (216)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999988764

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=96.77  E-value=0.0033  Score=40.27  Aligned_cols=41  Identities=20%  Similarity=0.339  Sum_probs=32.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ..-.++++|+.++|||+|+.++...+   ...++.|.+|.--.+
T Consensus        24 ~~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v   64 (472)
T PF05783_consen   24 SEKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDV   64 (472)
T ss_pred             CCceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEee
Confidence            34689999999999999999987543   456788888865443

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 [].

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

Probab=96.77  E-value=0.0026  Score=35.85  Aligned_cols=23  Identities=26%  Similarity=0.280  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999887643

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.

>smart00072 GuKc Guanylate kinase homologues

Probab=96.77  E-value=0.0018  Score=36.21  Aligned_cols=22  Identities=36%  Similarity=0.585  Sum_probs=19.6

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ++++|++|+||++++.++....
T Consensus         5 ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        5 IVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            6899999999999999998763

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.75  E-value=0.0019  Score=36.86  Aligned_cols=22  Identities=27%  Similarity=0.492  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++++|.+|+|||++...+..
T Consensus         1 ~~I~v~G~pGsGKsT~a~~la~   22 (215)
T PRK00279          1 MRLILLGPPGAGKGTQAKFIAE   22 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999887653

>cd01854 YjeQ_engC YjeQ/EngC

Probab=96.75  E-value=0.0019  Score=38.60  Aligned_cols=25  Identities=36%  Similarity=0.424  Sum_probs=21.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      -.+.++|.+|+|||||++.+.+...
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~  186 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLD  186 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhh
Confidence            4578999999999999999887543

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.75  E-value=0.0026  Score=35.96  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~   50 (211)
T cd03225          29 FVLIVGPNGSGKSTLLRLLNGL   50 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3678999999999999988764

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.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.74  E-value=0.0017  Score=38.67  Aligned_cols=20  Identities=40%  Similarity=0.582  Sum_probs=18.1

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +.++|++|+|||+|++.+..
T Consensus        33 VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          33 VAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEECCCCCcHHHHHHHHhc
Confidence            67899999999999998876

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=96.74  E-value=0.003  Score=35.53  Aligned_cols=23  Identities=35%  Similarity=0.333  Sum_probs=19.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999888653

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.

>PF13479 AAA_24: AAA domain

Probab=96.74  E-value=0.0018  Score=37.14  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=19.9

Q ss_pred             eeeeEEEECCCCCchHHHHHHh
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRF   28 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~   28 (57)
                      ..+++++-|++|+|||+++..+
T Consensus         2 ~~~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    2 KPIKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             CceEEEEECCCCCCHHHHHHhC
Confidence            3579999999999999999987

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.74  E-value=0.0021  Score=35.77  Aligned_cols=22  Identities=27%  Similarity=0.440  Sum_probs=19.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++++|.+|+|||++...+..
T Consensus         5 ~~I~liG~~GaGKStl~~~La~   26 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQ   26 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHH
Confidence            4689999999999999998764

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=96.73  E-value=0.0015  Score=33.68  Aligned_cols=20  Identities=30%  Similarity=0.526  Sum_probs=16.8

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      |.+-|++|+|||+++..+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~   20 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAK   20 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            46789999999999998553

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

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

Probab=96.73  E-value=0.0028  Score=35.68  Aligned_cols=24  Identities=17%  Similarity=0.270  Sum_probs=20.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+.++|++|+|||+|++-+.+-..
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~~   50 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQLI   50 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCCC
Confidence            467999999999999998876543

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.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=96.72  E-value=0.0031  Score=35.64  Aligned_cols=23  Identities=17%  Similarity=0.180  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          28 IFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            35799999999999999888653

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.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=96.72  E-value=0.0031  Score=35.64  Aligned_cols=22  Identities=36%  Similarity=0.507  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          29 FVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4678999999999999988764

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=96.72  E-value=0.0029  Score=36.43  Aligned_cols=22  Identities=36%  Similarity=0.368  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        30 FVAIIGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999987754

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.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.72  E-value=0.0032  Score=35.50  Aligned_cols=23  Identities=35%  Similarity=0.325  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        29 ~~~l~G~nGsGKSTLl~~i~G~~   51 (200)
T PRK13540         29 LLHLKGSNGAGKTTLLKLIAGLL   51 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            56799999999999999877654

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.72  E-value=0.0019  Score=35.51  Aligned_cols=21  Identities=33%  Similarity=0.512  Sum_probs=18.0

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.|++|+|||+|+.++...
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~   22 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYA   22 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            578999999999999987653

A related protein is found in archaea.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.71  E-value=0.0032  Score=35.66  Aligned_cols=22  Identities=36%  Similarity=0.437  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        30 ~~~l~G~nGsGKSTLl~~i~Gl   51 (214)
T TIGR02673        30 FLFLTGPSGAGKTTLLKLLYGA   51 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999987764

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.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.71  E-value=0.0026  Score=40.42  Aligned_cols=22  Identities=32%  Similarity=0.534  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ++.++|++|+||||+++-+..-
T Consensus       363 ~vaIvG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       363 RVAILGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6789999999999999888754

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.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=96.70  E-value=0.0034  Score=35.85  Aligned_cols=23  Identities=39%  Similarity=0.368  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          28 ITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            46799999999999999887654

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).

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.70  E-value=0.0021  Score=34.52  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=17.9

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.|.+|+|||++...+...
T Consensus         2 i~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhh
Confidence            578899999999999987653

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.70  E-value=0.0031  Score=36.22  Aligned_cols=23  Identities=39%  Similarity=0.367  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999888643

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.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.70  E-value=0.0021  Score=34.10  Aligned_cols=21  Identities=33%  Similarity=0.605  Sum_probs=17.8

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.|++|+|||+++..+...
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~   22 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALN   22 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHH
Confidence            578999999999999887643

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=96.70  E-value=0.0029  Score=36.02  Aligned_cols=23  Identities=39%  Similarity=0.400  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+..
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          32 FVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            35799999999999999887643

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.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=96.69  E-value=0.0028  Score=36.24  Aligned_cols=23  Identities=13%  Similarity=0.187  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        15 ~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177         15 HIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            46789999999999998887653

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=96.69  E-value=0.0032  Score=35.78  Aligned_cols=22  Identities=27%  Similarity=0.394  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          28 IVALLGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999977654

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.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.68  E-value=0.0031  Score=35.21  Aligned_cols=22  Identities=41%  Similarity=0.569  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~   41 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGL   41 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999887754

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.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=96.67  E-value=0.0036  Score=35.42  Aligned_cols=23  Identities=30%  Similarity=0.362  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-..+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          28 FVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            35799999999999998888653

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.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=96.67  E-value=0.0035  Score=35.90  Aligned_cols=23  Identities=17%  Similarity=0.225  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          28 IVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887643

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.

>smart00053 DYNc Dynamin, GTPase

Probab=96.67  E-value=0.0036  Score=36.94  Aligned_cols=26  Identities=31%  Similarity=0.581  Sum_probs=22.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ...++++|+.++||||++..+.+..|
T Consensus        26 ~p~i~vvG~~~~GKSt~l~~i~g~~~   51 (240)
T smart00053       26 LPQIAVVGGQSAGKSSVLENFVGRDF   51 (240)
T ss_pred             CCeEEEEcCCCccHHHHHHHHhCCCc
Confidence            34789999999999999999998653

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=96.67  E-value=0.0035  Score=35.38  Aligned_cols=23  Identities=35%  Similarity=0.352  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          28 VVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999888643

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

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=96.66  E-value=0.0035  Score=35.71  Aligned_cols=23  Identities=35%  Similarity=0.335  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          33 TLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999887643

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=96.66  E-value=0.0036  Score=35.59  Aligned_cols=22  Identities=32%  Similarity=0.412  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+.
T Consensus        33 ~~~i~G~nGsGKSTLl~~i~G~   54 (221)
T TIGR02211        33 IVAIVGSSGSGKSTLLHLLGGL   54 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999988765

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.

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.66  E-value=0.0023  Score=36.33  Aligned_cols=23  Identities=39%  Similarity=0.359  Sum_probs=19.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -.+++.|++|+|||+++..+...
T Consensus        39 ~~lll~G~~G~GKT~la~~~~~~   61 (226)
T TIGR03420        39 RFLYLWGESGSGKSHLLQAACAA   61 (226)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999887643

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=96.66  E-value=0.0027  Score=39.11  Aligned_cols=23  Identities=26%  Similarity=0.496  Sum_probs=20.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+++++|.++||||||++.+...
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~  177 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQ  177 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhh
Confidence            47899999999999999999874

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

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.65  E-value=0.004  Score=34.23  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=19.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+.++|++|+|||+|++-+.....
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~~   51 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLYK   51 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            467999999999999998876543

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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.65  E-value=0.0033  Score=35.56  Aligned_cols=22  Identities=27%  Similarity=0.330  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCC
Confidence            6789999999999999988764

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=96.64  E-value=0.0033  Score=35.70  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          30 IFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36799999999999999888653

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.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=96.64  E-value=0.0038  Score=35.37  Aligned_cols=22  Identities=41%  Similarity=0.436  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~   49 (213)
T cd03259          28 FLALLGPSGCGKTTLLRLIAGL   49 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999987764

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.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=96.64  E-value=0.0013  Score=38.60  Aligned_cols=18  Identities=22%  Similarity=0.486  Sum_probs=15.4

Q ss_pred             EECCCCCchHHHHHHhhc
Q 035406           13 LIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        13 viG~~~vGKtsl~~~~~~   30 (57)
                      |+|++|+|||+++..+..
T Consensus         1 ViGpaGSGKTT~~~~~~~   18 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSE   18 (238)
T ss_dssp             -EESTTSSHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHH
Confidence            589999999999998774

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

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

Probab=96.64  E-value=0.007  Score=39.88  Aligned_cols=44  Identities=27%  Similarity=0.392  Sum_probs=35.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS   49 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~   49 (57)
                      ..-++++++|+.++|||++++.|.++.+...+.++....|....
T Consensus       423 R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~  466 (625)
T KOG1707|consen  423 RKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNS  466 (625)
T ss_pred             ceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeee
Confidence            45789999999999999999999998888776666665554443

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

Probab=96.63  E-value=0.0021  Score=37.76  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=18.6

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++.++|.+++|||+|+.++..
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~   21 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLY   21 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998864

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=96.63  E-value=0.0037  Score=35.45  Aligned_cols=23  Identities=26%  Similarity=0.215  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          33 VTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            46799999999999999887643

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.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=96.63  E-value=0.0036  Score=35.44  Aligned_cols=22  Identities=32%  Similarity=0.386  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          27 FLAIVGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4679999999999999987764

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.

>PRK10908 cell division protein FtsE; Provisional

Probab=96.63  E-value=0.0039  Score=35.55  Aligned_cols=23  Identities=35%  Similarity=0.374  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+....
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~   52 (222)
T PRK10908         30 MAFLTGHSGAGKSTLLKLICGIE   52 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999887643

>PRK14528 adenylate kinase; Provisional

Probab=96.63  E-value=0.0028  Score=35.61  Aligned_cols=21  Identities=14%  Similarity=0.308  Sum_probs=18.6

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .+++++|++|+|||+++..+.
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la   22 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILC   22 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            368999999999999998875

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=96.62  E-value=0.0034  Score=36.06  Aligned_cols=23  Identities=39%  Similarity=0.375  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          29 FVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            46799999999999999887643

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.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=96.62  E-value=0.0039  Score=35.93  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        29 FVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            45789999999999999887643

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.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.62  E-value=0.0022  Score=34.86  Aligned_cols=22  Identities=18%  Similarity=0.508  Sum_probs=18.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|..++|||+|+..+...
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~   23 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINE   23 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3679999999999999987643

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=96.62  E-value=0.0039  Score=35.83  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        37 ~~~l~G~nGsGKSTLl~~l~Gl~   59 (233)
T PRK11629         37 MMAIVGSSGSGKSTLLHLLGGLD   59 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999888653

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.62  E-value=0.0027  Score=34.49  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+++.|+.|+|||+|++.+...
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4779999999999999988864

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=96.62  E-value=0.0039  Score=35.97  Aligned_cols=23  Identities=39%  Similarity=0.452  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+..
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~   52 (242)
T PRK11124         30 TLVLLGPSGAGKSSLLRVLNLLE   52 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887653

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=96.61  E-value=0.004  Score=35.46  Aligned_cols=22  Identities=18%  Similarity=0.255  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          28 IFGLLGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999988764

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.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.61  E-value=0.0026  Score=35.17  Aligned_cols=22  Identities=32%  Similarity=0.398  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+++.|.+|+|||++.+.+...
T Consensus         4 ~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           4 IIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4789999999999999987754

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=96.60  E-value=0.0037  Score=35.46  Aligned_cols=23  Identities=35%  Similarity=0.294  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        25 ~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          25 VTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             eEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887643

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.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=96.60  E-value=0.0043  Score=34.87  Aligned_cols=23  Identities=30%  Similarity=0.380  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        28 ALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999877653

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.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.60  E-value=0.0042  Score=34.85  Aligned_cols=23  Identities=30%  Similarity=0.283  Sum_probs=19.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         28 ITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            56799999999999999887653

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.59  E-value=0.003  Score=35.38  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=19.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -.++++|+.|+|||++++.+..-
T Consensus        26 ~~i~I~G~tGSGKTTll~aL~~~   48 (186)
T cd01130          26 KNILISGGTGSGKTTLLNALLAF   48 (186)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            46789999999999999877653

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.

>PRK06547 hypothetical protein; Provisional

Probab=96.59  E-value=0.0034  Score=35.17  Aligned_cols=25  Identities=28%  Similarity=0.335  Sum_probs=20.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ....+.+.|.+|+|||++...+...
T Consensus        14 ~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         14 GMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3567778899999999999988653

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=96.59  E-value=0.0038  Score=35.22  Aligned_cols=23  Identities=13%  Similarity=0.111  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          28 IYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            45789999999999999887643

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.

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=96.59  E-value=0.0039  Score=35.75  Aligned_cols=22  Identities=27%  Similarity=0.247  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl   49 (236)
T cd03219          28 IHGLIGPNGAGKTTLFNLISGF   49 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4679999999999999988764

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).

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=96.59  E-value=0.0045  Score=34.37  Aligned_cols=23  Identities=30%  Similarity=0.346  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+....
T Consensus        27 ~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          27 IVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887643

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.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=96.58  E-value=0.0042  Score=36.38  Aligned_cols=23  Identities=35%  Similarity=0.413  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         29 LLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999888643

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=96.58  E-value=0.0031  Score=37.32  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=20.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ++.++|++|+|||++++.+.+...
T Consensus        18 r~~I~G~~G~GKTTLlr~I~n~l~   41 (249)
T cd01128          18 RGLIVAPPKAGKTTLLQSIANAIT   41 (249)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccc
Confidence            678999999999999988776443

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PRK06762 hypothetical protein; Provisional

Probab=96.57  E-value=0.003  Score=34.47  Aligned_cols=21  Identities=19%  Similarity=0.487  Sum_probs=17.8

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|.+|+|||+++..+..
T Consensus         4 li~i~G~~GsGKST~A~~L~~   24 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQE   24 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999987754

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=96.57  E-value=0.003  Score=39.06  Aligned_cols=24  Identities=33%  Similarity=0.544  Sum_probs=21.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhh
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ...+|++++|.+++|||++++++.
T Consensus        56 ~~~~kiLLLG~geSGKSTi~KQ~r   79 (389)
T PF00503_consen   56 KREIKILLLGSGESGKSTILKQMR   79 (389)
T ss_dssp             HEEEEEEEEESTTSSHHHHHHHHH
T ss_pred             hccceEEEECCCCcchhhHHHHHH
Confidence            357899999999999999999764

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=96.57  E-value=0.0029  Score=39.49  Aligned_cols=27  Identities=26%  Similarity=0.455  Sum_probs=23.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      .|.++++|++|.|||+|++.+...++.
T Consensus        21 ~ftlmvvG~sGlGKsTfiNsLf~~~l~   47 (366)
T KOG2655|consen   21 DFTLMVVGESGLGKSTFINSLFLTDLS   47 (366)
T ss_pred             ceEEEEecCCCccHHHHHHHHHhhhcc
Confidence            589999999999999999997665444

>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria

Probab=96.57  E-value=0.0078  Score=33.31  Aligned_cols=24  Identities=33%  Similarity=0.522  Sum_probs=20.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .-+++.|++|+|||+++..+....
T Consensus        15 ~gvLi~G~sG~GKStlal~L~~~g   38 (149)
T cd01918          15 IGVLITGPSGIGKSELALELIKRG   38 (149)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcC
Confidence            457899999999999998877653

It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=96.57  E-value=0.0023  Score=36.49  Aligned_cols=20  Identities=30%  Similarity=0.607  Sum_probs=16.8

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      -++++|+.|||||+.+.++.
T Consensus         3 vi~lvGptGvGKTTt~aKLA   22 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLA   22 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCchHhHHHHHH
Confidence            46899999999998887655

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.57  E-value=0.0032  Score=34.11  Aligned_cols=22  Identities=32%  Similarity=0.323  Sum_probs=18.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||++...+..
T Consensus         5 ~~i~l~G~~GsGKstla~~La~   26 (175)
T PRK00131          5 PNIVLIGFMGAGKSTIGRLLAK   26 (175)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHH
Confidence            5789999999999999886654

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

Probab=96.57  E-value=0.0026  Score=37.45  Aligned_cols=21  Identities=33%  Similarity=0.504  Sum_probs=18.2

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -++++|++|+|||++++-..+
T Consensus        33 ~vv~lGpSGcGKTTLLnl~AG   53 (259)
T COG4525          33 LVVVLGPSGCGKTTLLNLIAG   53 (259)
T ss_pred             EEEEEcCCCccHHHHHHHHhc
Confidence            468999999999999997764

>PRK00625 shikimate kinase; Provisional

Probab=96.57  E-value=0.003  Score=35.45  Aligned_cols=21  Identities=29%  Similarity=0.450  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +|+++|-+|+|||++...+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999987754

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=96.56  E-value=0.0044  Score=35.77  Aligned_cols=23  Identities=35%  Similarity=0.391  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          30 LVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36799999999999999887653

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.

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=96.56  E-value=0.0048  Score=34.21  Aligned_cols=22  Identities=41%  Similarity=0.416  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~   49 (178)
T cd03229          28 IVALLGPSGSGKSTLLRCIAGL   49 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999988754

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.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=96.56  E-value=0.004  Score=35.69  Aligned_cols=23  Identities=30%  Similarity=0.323  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          33 IFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999887643

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.

>COG1159 Era GTPase [General function prediction only]

Probab=96.56  E-value=0.0032  Score=38.33  Aligned_cols=27  Identities=30%  Similarity=0.299  Sum_probs=22.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      +.-.+.++|.++||||+|++++++.+.
T Consensus         5 ksGfVaIiGrPNvGKSTLlN~l~G~Ki   31 (298)
T COG1159           5 KSGFVAIIGRPNVGKSTLLNALVGQKI   31 (298)
T ss_pred             eEEEEEEEcCCCCcHHHHHHHHhcCce
Confidence            345678999999999999999998644

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=96.56  E-value=0.0033  Score=36.66  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=18.9

Q ss_pred             EEEECCCCCchHHHHHHhhcCcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ++++|++|+|||+|++-+...+-
T Consensus        31 ~fl~GpSGAGKSTllkLi~~~e~   53 (223)
T COG2884          31 VFLTGPSGAGKSTLLKLIYGEER   53 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHhhhc
Confidence            46789999999999998775544

>PTZ00258 GTP-binding protein; Provisional

Probab=96.56  E-value=0.0042  Score=38.99  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=22.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..+++.++|.+++|||+|++.+....
T Consensus        20 ~~~kvgIVG~PNvGKSTLfnaLt~~~   45 (390)
T PTZ00258         20 NNLKMGIVGLPNVGKSTTFNALCKQQ   45 (390)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhcCc
Confidence            45789999999999999999997643

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.56  E-value=0.0028  Score=35.94  Aligned_cols=20  Identities=35%  Similarity=0.529  Sum_probs=17.2

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|++|+|||+++..+..
T Consensus         4 ilI~GptGSGKTTll~~ll~   23 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMID   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999987554

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=96.55  E-value=0.0045  Score=36.48  Aligned_cols=23  Identities=35%  Similarity=0.391  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        40 ~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         40 FVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999888643

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=96.55  E-value=0.0032  Score=36.21  Aligned_cols=22  Identities=27%  Similarity=0.324  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        28 IHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999988765

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.

>PRK14526 adenylate kinase; Provisional

Probab=96.55  E-value=0.0032  Score=36.34  Aligned_cols=22  Identities=23%  Similarity=0.504  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++++|.+|+|||+++..+..
T Consensus         1 m~i~l~G~pGsGKsT~a~~La~   22 (211)
T PRK14526          1 MKLVFLGPPGSGKGTIAKILSN   22 (211)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999987763

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.55  E-value=0.0048  Score=34.86  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         29 LVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887653

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=96.54  E-value=0.0047  Score=35.37  Aligned_cols=23  Identities=26%  Similarity=0.333  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (230)
T TIGR03410        28 VTCVLGRNGVGKTTLLKTLMGLL   50 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999877643

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.

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.54  E-value=0.0034  Score=38.75  Aligned_cols=25  Identities=20%  Similarity=0.337  Sum_probs=21.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ...+++.|+.|+|||++++.+...-
T Consensus       162 ~~nilI~G~tGSGKTTll~aLl~~i  186 (344)
T PRK13851        162 RLTMLLCGPTGSGKTTMSKTLISAI  186 (344)
T ss_pred             CCeEEEECCCCccHHHHHHHHHccc
Confidence            4679999999999999999887653

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.54  E-value=0.0026  Score=36.75  Aligned_cols=20  Identities=25%  Similarity=0.290  Sum_probs=16.9

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+.|.+|+|||+++..+..
T Consensus         2 igI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHH
Confidence            45789999999999987764

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=96.53  E-value=0.0086  Score=40.30  Aligned_cols=31  Identities=16%  Similarity=0.194  Sum_probs=26.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCccc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYI   38 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~   38 (57)
                      ...+.++|..++|||||+.++....+.....
T Consensus       244 ~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~  274 (742)
T CHL00189        244 PPIVTILGHVDHGKTTLLDKIRKTQIAQKEA  274 (742)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccCccccC
Confidence            4689999999999999999999887765433

>COG1160 Predicted GTPases [General function prediction only]

Probab=96.53  E-value=0.0036  Score=39.89  Aligned_cols=25  Identities=28%  Similarity=0.437  Sum_probs=21.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..+.++|.++||||||++|+.....
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~   28 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRI   28 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCee
Confidence            5689999999999999999998643

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.53  E-value=0.0051  Score=34.88  Aligned_cols=23  Identities=35%  Similarity=0.390  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|+.-+.+..
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         30 ALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            45789999999999999888754

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=96.53  E-value=0.0031  Score=33.69  Aligned_cols=21  Identities=29%  Similarity=0.395  Sum_probs=18.0

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .++++|.+|+|||++...+..
T Consensus         1 ~i~l~G~~GsGKstla~~la~   21 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAK   21 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            378999999999999988763

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.53  E-value=0.0051  Score=34.24  Aligned_cols=23  Identities=13%  Similarity=-0.016  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (182)
T cd03215          28 IVGIAGLVGNGQTELAEALFGLR   50 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887653

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.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=96.51  E-value=0.0044  Score=36.30  Aligned_cols=23  Identities=17%  Similarity=0.348  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        27 ~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          27 VIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887653

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.

>PRK13947 shikimate kinase; Provisional

Probab=96.51  E-value=0.0036  Score=34.18  Aligned_cols=21  Identities=33%  Similarity=0.442  Sum_probs=18.4

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +|+++|.+|+|||++...+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~   23 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVAT   23 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            689999999999999987654

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=96.51  E-value=0.0046  Score=35.36  Aligned_cols=23  Identities=43%  Similarity=0.544  Sum_probs=19.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        38 ~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         38 TIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            46789999999999999888653

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.51  E-value=0.0054  Score=33.98  Aligned_cols=23  Identities=43%  Similarity=0.588  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+..
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          30 KIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            46799999999999999887653

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.51  E-value=0.003  Score=36.11  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+++.|++|+|||+++..+...
T Consensus        44 ~~~l~G~~G~GKT~La~ai~~~   65 (227)
T PRK08903         44 FFYLWGEAGSGRSHLLQALVAD   65 (227)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999887653

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.51  E-value=0.0037  Score=36.71  Aligned_cols=23  Identities=13%  Similarity=0.426  Sum_probs=19.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.|++|+|||+++..+..
T Consensus        42 ~~~vll~GppGtGKTtlA~~ia~   64 (261)
T TIGR02881        42 VLHMIFKGNPGTGKTTVARILGK   64 (261)
T ss_pred             cceEEEEcCCCCCHHHHHHHHHH
Confidence            46789999999999999987753

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=96.50  E-value=0.0048  Score=33.36  Aligned_cols=23  Identities=35%  Similarity=0.511  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            45789999999999999887654

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.

>PRK13796 GTPase YqeH; Provisional

Probab=96.50  E-value=0.0035  Score=38.71  Aligned_cols=23  Identities=30%  Similarity=0.535  Sum_probs=20.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+++++|.++||||||++++...
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~  183 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKE  183 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhh
Confidence            46899999999999999999853

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=96.50  E-value=0.0052  Score=35.45  Aligned_cols=23  Identities=17%  Similarity=0.215  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        31 ~~~l~G~nGsGKSTLl~~l~G~~   53 (241)
T PRK10895         31 IVGLLGPNGAGKTTTFYMVVGIV   53 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999888653

>PRK14529 adenylate kinase; Provisional

Probab=96.49  E-value=0.0035  Score=36.60  Aligned_cols=22  Identities=18%  Similarity=0.300  Sum_probs=18.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++++|.+|+||++...++..
T Consensus         1 m~I~l~G~PGsGK~T~a~~La~   22 (223)
T PRK14529          1 MNILIFGPNGSGKGTQGALVKK   22 (223)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3789999999999999887654

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=96.49  E-value=0.0052  Score=35.68  Aligned_cols=23  Identities=39%  Similarity=0.432  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~   53 (253)
T TIGR02323        31 VLGIVGESGSGKSTLLGCLAGRL   53 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999877653

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=96.49  E-value=0.0032  Score=37.34  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||+++..+..
T Consensus        32 ~~ll~Gp~G~GKT~la~~ia~   52 (305)
T TIGR00635        32 HLLLYGPPGLGKTTLAHIIAN   52 (305)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998875

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.48  E-value=0.0057  Score=35.50  Aligned_cols=23  Identities=39%  Similarity=0.457  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+..
T Consensus        32 ~~~l~G~nGsGKSTLl~~l~G~~   54 (253)
T PRK14267         32 VFALMGPSGCGKSTLLRTFNRLL   54 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            35799999999999999887653

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=96.48  E-value=0.0056  Score=34.63  Aligned_cols=22  Identities=36%  Similarity=0.336  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        26 ~~~l~G~nGsGKSTLl~~l~gl   47 (211)
T cd03298          26 ITAIVGPSGSGKSTLLNLIAGF   47 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999887754

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.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=96.48  E-value=0.0054  Score=35.16  Aligned_cols=22  Identities=41%  Similarity=0.354  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+.
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~G~   56 (225)
T PRK10247         35 FKLITGPSGCGKSTLLKIVASL   56 (225)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4679999999999999988764

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.47  E-value=0.0063  Score=35.34  Aligned_cols=24  Identities=33%  Similarity=0.333  Sum_probs=20.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+.++|++|+|||+|++-+.+..-
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~Gl~~   55 (251)
T PRK14249         32 ITAIIGPSGCGKSTLLRALNRMND   55 (251)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccC
Confidence            467999999999999998876543

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=96.47  E-value=0.0055  Score=34.99  Aligned_cols=23  Identities=17%  Similarity=0.313  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          31 TVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCc
Confidence            36799999999999999887653

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.

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=96.47  E-value=0.0058  Score=34.49  Aligned_cols=23  Identities=35%  Similarity=0.382  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (201)
T cd03231          28 ALQVTGPNGSGKTTLLRILAGLS   50 (201)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            56799999999999999877643

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.

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=96.47  E-value=0.0054  Score=35.78  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        34 ~~~i~G~nGsGKSTLl~~l~Gl~   56 (258)
T PRK11701         34 VLGIVGESGSGKTTLLNALSARL   56 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887653

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.47  E-value=0.0051  Score=36.22  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl   50 (271)
T PRK13638         29 VTGLVGANGCGKSTLFMNLSGL   50 (271)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4679999999999999987754

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.46  E-value=0.0032  Score=35.43  Aligned_cols=20  Identities=35%  Similarity=0.491  Sum_probs=16.9

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      |.+.|++|+|||+|+.++..
T Consensus         2 IgI~G~sgSGKTTla~~L~~   21 (194)
T PF00485_consen    2 IGIAGPSGSGKTTLAKRLAQ   21 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            46789999999999997654

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.46  E-value=0.0052  Score=36.29  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        35 ~~~l~G~nGsGKSTLl~~i~Gl~   57 (280)
T PRK13649         35 YTAFIGHTGSGKSTIMQLLNGLH   57 (280)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999887643

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.46  E-value=0.0056  Score=34.87  Aligned_cols=22  Identities=41%  Similarity=0.536  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+.
T Consensus        39 ~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         39 ALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            4679999999999999988764

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=96.45  E-value=0.0058  Score=35.18  Aligned_cols=23  Identities=39%  Similarity=0.416  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        13 ~~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184        13 FISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46789999999999999887653

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.

>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=96.45  E-value=0.0057  Score=35.36  Aligned_cols=23  Identities=22%  Similarity=0.215  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        49 ~~~i~G~NGsGKSTLl~~i~Gl~   71 (236)
T cd03267          49 IVGFIGPNGAGKTTTLKILSGLL   71 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            46799999999999999887643

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=96.45  E-value=0.005  Score=38.95  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=20.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|.+++|||||+.++...+
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak  182 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAK  182 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCC
Confidence            67899999999999999998754

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.45  E-value=0.0044  Score=35.23  Aligned_cols=25  Identities=24%  Similarity=0.404  Sum_probs=21.1

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ....+.++|..|+|||+++.++...
T Consensus        21 ~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        21 GLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            3567789999999999999998754

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=96.44  E-value=0.006  Score=34.66  Aligned_cols=23  Identities=39%  Similarity=0.423  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        32 ~~~i~G~nGsGKSTLl~~i~G~~   54 (220)
T cd03245          32 KVAIIGRVGSGKSTLLKLLAGLY   54 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCc
Confidence            46799999999999999887653

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.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.44  E-value=0.0064  Score=33.49  Aligned_cols=22  Identities=41%  Similarity=0.564  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+...
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          29 RLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4689999999999999988764

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

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=96.43  E-value=0.0042  Score=38.51  Aligned_cols=30  Identities=23%  Similarity=0.272  Sum_probs=25.7

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ..+.+.+.++|.+++|||+|.++..+....
T Consensus        69 ~~k~L~vavIG~PNvGKStLtN~mig~kv~   98 (379)
T KOG1423|consen   69 AQKSLYVAVIGAPNVGKSTLTNQMIGQKVS   98 (379)
T ss_pred             cceEEEEEEEcCCCcchhhhhhHhhCCccc
Confidence            356889999999999999999999987553

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.43  E-value=0.0036  Score=37.08  Aligned_cols=21  Identities=33%  Similarity=0.428  Sum_probs=17.9

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|.+|+|||++++.+..
T Consensus         4 liil~G~pGSGKSTla~~L~~   24 (300)
T PHA02530          4 IILTVGVPGSGKSTWAREFAA   24 (300)
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            467789999999999998764

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=96.43  E-value=0.0056  Score=33.81  Aligned_cols=23  Identities=35%  Similarity=0.304  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+..-.
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          30 SLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcc
Confidence            36799999999999999887643

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

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=96.43  E-value=0.0061  Score=35.30  Aligned_cols=22  Identities=32%  Similarity=0.309  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+.
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~   52 (250)
T PRK11264         31 VVAIIGPSGSGKTTLLRCINLL   52 (250)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3679999999999999988754

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.43  E-value=0.0052  Score=36.54  Aligned_cols=23  Identities=22%  Similarity=0.203  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        39 ~~~l~G~nGsGKSTLl~~l~Gl~   61 (289)
T PRK13645         39 VTCVIGTTGSGKSTMIQLTNGLI   61 (289)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999887653

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=96.43  E-value=0.006  Score=35.17  Aligned_cols=23  Identities=17%  Similarity=0.374  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~G~~   52 (242)
T TIGR03411        30 LRVIIGPNGAGKTTMMDVITGKT   52 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999888653

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.43  E-value=0.004  Score=34.34  Aligned_cols=22  Identities=14%  Similarity=0.243  Sum_probs=18.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ..-+++.|.+|+|||+++..+.
T Consensus         7 ~~~I~i~G~~GsGKst~a~~l~   28 (176)
T PRK05541          7 GYVIWITGLAGSGKTTIAKALY   28 (176)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHH
Confidence            3578899999999999998765

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=96.42  E-value=0.0062  Score=35.18  Aligned_cols=22  Identities=32%  Similarity=0.348  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~   50 (242)
T cd03295          29 FLVLIGPSGSGKTTTMKMINRL   50 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3579999999999999988764

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=96.42  E-value=0.0033  Score=35.70  Aligned_cols=21  Identities=33%  Similarity=0.423  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++.++|..++|||+|+.+++.
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~   21 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLY   21 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHH
Confidence            578999999999999998864

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>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=96.42  E-value=0.006  Score=35.05  Aligned_cols=23  Identities=26%  Similarity=0.197  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (237)
T cd03252          30 VVGIVGRSGSGKSTLTKLIQRFY   52 (237)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCc
Confidence            46799999999999999887653

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.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.42  E-value=0.0031  Score=37.36  Aligned_cols=19  Identities=47%  Similarity=0.559  Sum_probs=16.7

Q ss_pred             EEECCCCCchHHHHHHhhc
Q 035406           12 LLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        12 ~viG~~~vGKtsl~~~~~~   30 (57)
                      .++|++|+|||+|++.+..
T Consensus        37 AlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          37 ALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             EEECCCCcCHHHHHHHHHh
Confidence            5889999999999998764

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=96.42  E-value=0.0058  Score=35.47  Aligned_cols=22  Identities=23%  Similarity=0.312  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl   54 (255)
T PRK11300         33 IVSLIGPNGAGKTTVFNCLTGF   54 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999987765

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.41  E-value=0.0063  Score=35.22  Aligned_cols=22  Identities=27%  Similarity=0.327  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl   52 (241)
T PRK14250         31 IYTIVGPSGAGKSTLIKLINRL   52 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999988764

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=96.41  E-value=0.0044  Score=35.97  Aligned_cols=22  Identities=36%  Similarity=0.362  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        34 ~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         34 VTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4679999999999999988753

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.41  E-value=0.0055  Score=34.30  Aligned_cols=26  Identities=35%  Similarity=0.405  Sum_probs=20.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ...++++|++|+|||.++..+..--+
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~   28 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLF   28 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            45788999999999998887665433

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.41  E-value=0.0069  Score=33.44  Aligned_cols=22  Identities=23%  Similarity=0.253  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+.
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~   49 (173)
T cd03230          28 IYGLLGPNGAGKTTLIKIILGL   49 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999987764

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.

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=96.41  E-value=0.0062  Score=34.99  Aligned_cols=23  Identities=35%  Similarity=0.417  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+..
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~   49 (232)
T PRK10771         27 RVAILGPSGAGKSTLLNLIAGFL   49 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            45789999999999999887643

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=96.40  E-value=0.0062  Score=34.93  Aligned_cols=23  Identities=30%  Similarity=0.351  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        29 ~~~l~G~nGsGKSTLl~~i~Gl~   51 (236)
T cd03253          29 KVAIVGPSGSGKSTILRLLFRFY   51 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            45799999999999999988653

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.

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=96.40  E-value=0.0062  Score=35.93  Aligned_cols=22  Identities=27%  Similarity=0.279  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        35 ~~~l~G~nGsGKSTLl~~l~Gl   56 (272)
T PRK15056         35 IAALVGVNGSGKSTLFKALMGF   56 (272)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999988764

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=96.40  E-value=0.0057  Score=36.06  Aligned_cols=23  Identities=30%  Similarity=0.304  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        52 ~~~l~G~nGsGKSTLl~~L~Gl~   74 (269)
T cd03294          52 IFVIMGLSGSGKSTLLRCINRLI   74 (269)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            35799999999999999887643

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.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=96.39  E-value=0.0041  Score=35.74  Aligned_cols=24  Identities=33%  Similarity=0.292  Sum_probs=20.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+.++|++|+|||+|++-+.+..-
T Consensus        14 ~~~i~G~nGsGKSTLl~~l~Gl~~   37 (230)
T TIGR02770        14 VLALVGESGSGKSLTCLAILGLLP   37 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            467999999999999998887543

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.

>PLN02200 adenylate kinase family protein

Probab=96.39  E-value=0.0051  Score=35.94  Aligned_cols=23  Identities=17%  Similarity=0.359  Sum_probs=19.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.++++|.+|+|||+++.++..
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            36789999999999999887764

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=96.39  E-value=0.0063  Score=35.80  Aligned_cols=23  Identities=35%  Similarity=0.429  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+..
T Consensus        41 ~~~i~G~NGsGKSTLl~~l~Gl~   63 (267)
T PRK15112         41 TLAIIGENGSGKSTLAKMLAGMI   63 (267)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887653

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.39  E-value=0.0053  Score=35.41  Aligned_cols=24  Identities=21%  Similarity=0.112  Sum_probs=20.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+-+.+.|++|+|||+|+..+..
T Consensus        32 ~~~iigi~G~~GsGKTTl~~~L~~   55 (229)
T PRK09270         32 RRTIVGIAGPPGAGKSTLAEFLEA   55 (229)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            356778999999999999987664

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.39  E-value=0.0037  Score=35.75  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+++.|++|+|||.|..+|...
T Consensus        21 ~~li~G~~GsGKT~l~~q~l~~   42 (226)
T PF06745_consen   21 VVLISGPPGSGKTTLALQFLYN   42 (226)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCcHHHHHHHHHH
Confidence            4688999999999999998753

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

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

Probab=96.38  E-value=0.0054  Score=41.21  Aligned_cols=27  Identities=30%  Similarity=0.572  Sum_probs=23.7

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ...++++++|.+|+|||++++.+....
T Consensus       116 dfslrIvLVGKTGVGKSSLINSILGek  142 (763)
T TIGR00993       116 DFSLNILVLGKSGVGKSATINSIFGEV  142 (763)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhccc
Confidence            346789999999999999999998764

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.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.38  E-value=0.0047  Score=35.81  Aligned_cols=22  Identities=41%  Similarity=0.412  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+.
T Consensus        31 ~~~i~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14247         31 ITALMGPSGSGKSTLLRVFNRL   52 (250)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4679999999999999988764

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=96.38  E-value=0.0057  Score=38.12  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=21.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +++.++|.+++|||+|++.+....
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~   26 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAG   26 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            689999999999999999998755

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

Probab=96.38  E-value=0.0058  Score=35.63  Aligned_cols=26  Identities=31%  Similarity=0.286  Sum_probs=20.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVD   35 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~   35 (57)
                      .+.++|++|+|||++++-+.+=+.+.
T Consensus        27 ~vAi~GpSGaGKSTLLnLIAGF~~P~   52 (231)
T COG3840          27 IVAILGPSGAGKSTLLNLIAGFETPA   52 (231)
T ss_pred             EEEEECCCCccHHHHHHHHHhccCCC
Confidence            56789999999999999877654443

>PRK14527 adenylate kinase; Provisional

Probab=96.38  E-value=0.0045  Score=34.71  Aligned_cols=21  Identities=24%  Similarity=0.389  Sum_probs=18.3

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .-++++|++|+|||+++.++.
T Consensus         7 ~~i~i~G~pGsGKsT~a~~La   27 (191)
T PRK14527          7 KVVIFLGPPGAGKGTQAERLA   27 (191)
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            358899999999999998876

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=96.37  E-value=0.0055  Score=37.75  Aligned_cols=23  Identities=39%  Similarity=0.476  Sum_probs=19.7

Q ss_pred             EEEECCCCCchHHHHHHhhcCcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      +.++|++|+|||+|++.+.+-.-
T Consensus        33 ~~llG~sGsGKSTLLr~iaGl~~   55 (356)
T PRK11650         33 IVLVGPSGCGKSTLLRMVAGLER   55 (356)
T ss_pred             EEEECCCCCcHHHHHHHHHCCCC
Confidence            57999999999999998887543

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=96.37  E-value=0.0067  Score=35.25  Aligned_cols=22  Identities=41%  Similarity=0.460  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~   49 (252)
T TIGR03005        28 KVALIGPSGSGKSTILRILMTL   49 (252)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4678999999999999988764

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.

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=96.37  E-value=0.0056  Score=39.32  Aligned_cols=24  Identities=25%  Similarity=0.234  Sum_probs=20.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ++.++|++|+|||+|++-+.+-..
T Consensus       371 ~~aIvG~sGsGKSTLl~ll~gl~~  394 (582)
T PRK11176        371 TVALVGRSGSGKSTIANLLTRFYD  394 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccC
Confidence            678999999999999998876443

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.37  E-value=0.0049  Score=35.84  Aligned_cols=23  Identities=35%  Similarity=0.382  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~Gl~   57 (254)
T PRK14273         35 ITALIGPSGCGKSTFLRTLNRMN   57 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            45799999999999999887643

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=96.37  E-value=0.0067  Score=35.62  Aligned_cols=23  Identities=30%  Similarity=0.294  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        39 ~~~i~G~nGsGKSTLl~~l~Gl~   61 (265)
T TIGR02769        39 TVGLLGRSGCGKSTLARLLLGLE   61 (265)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999877643

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.

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=96.36  E-value=0.005  Score=34.29  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=21.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..++.++|..++|||+|+.++...
T Consensus         3 ~~~I~i~G~~~sGKTTL~~~L~~~   26 (188)
T PF00009_consen    3 IRNIAIIGHVDSGKTTLLGALLGK   26 (188)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCcEeechhhhhh
Confidence            578999999999999999998853

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=96.36  E-value=0.0046  Score=37.70  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=20.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-+++++|.+|+|||+|++.+..
T Consensus       162 ~~~~~~~G~~~~gkstl~~~l~~  184 (325)
T TIGR01526       162 VKTVAILGGESTGKSTLVNKLAA  184 (325)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            34789999999999999998775

E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.

>COG1161 Predicted GTPases [General function prediction only]

Probab=96.36  E-value=0.012  Score=35.85  Aligned_cols=26  Identities=27%  Similarity=0.422  Sum_probs=23.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..++.++|-++|||||+++++....-
T Consensus       132 ~~~v~vvG~PNVGKSslIN~L~~k~~  157 (322)
T COG1161         132 KIRVGVVGYPNVGKSTLINRLLGKKV  157 (322)
T ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccc
Confidence            47799999999999999999998655

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=96.36  E-value=0.0071  Score=34.33  Aligned_cols=23  Identities=35%  Similarity=0.348  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+....
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~   48 (213)
T TIGR01277        26 IVAIMGPSGAGKSTLLNLIAGFI   48 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46789999999999999887653

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.

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=96.36  E-value=0.0049  Score=35.71  Aligned_cols=22  Identities=41%  Similarity=0.386  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14239         33 ITALIGPSGSGKSTLLRSINRM   54 (252)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            3679999999999999998753

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=96.36  E-value=0.0043  Score=34.17  Aligned_cols=20  Identities=25%  Similarity=0.458  Sum_probs=17.6

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      |++.|..|+|||+++.++..
T Consensus         3 I~ieG~~GsGKtT~~~~L~~   22 (200)
T cd01672           3 IVFEGIDGAGKTTLIELLAE   22 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999998764

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.36  E-value=0.0054  Score=37.88  Aligned_cols=25  Identities=40%  Similarity=0.422  Sum_probs=21.1

Q ss_pred             EEEECCCCCchHHHHHHhhcCcCCC
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSYVD   35 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~~~   35 (57)
                      +.++|++|+|||++++.+.+-+.++
T Consensus        31 vaLlGpSGaGKsTlLRiIAGLe~p~   55 (345)
T COG1118          31 VALLGPSGAGKSTLLRIIAGLETPD   55 (345)
T ss_pred             EEEECCCCCcHHHHHHHHhCcCCCC
Confidence            5689999999999999888766554

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=96.36  E-value=0.0068  Score=35.73  Aligned_cols=23  Identities=35%  Similarity=0.407  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+..-.
T Consensus        28 ~~~IvG~nGsGKSTLlk~l~Gl~   50 (255)
T cd03236          28 VLGLVGPNGIGKSTALKILAGKL   50 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            57899999999999998877643

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.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.36  E-value=0.0043  Score=37.07  Aligned_cols=20  Identities=35%  Similarity=0.431  Sum_probs=17.4

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +.++|+.|+|||||++.+..
T Consensus        31 ~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          31 TGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            46889999999999998775

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=96.36  E-value=0.0072  Score=34.48  Aligned_cols=22  Identities=32%  Similarity=0.329  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~   49 (223)
T TIGR03740        28 VYGLLGPNGAGKSTLLKMITGI   49 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999988764

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=96.35  E-value=0.0067  Score=37.24  Aligned_cols=23  Identities=26%  Similarity=0.333  Sum_probs=20.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..|.++|.+++|||||+.++...
T Consensus       159 adVglVG~PNaGKSTLln~ls~a  181 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAA  181 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcC
Confidence            35789999999999999999864

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.35  E-value=0.0079  Score=35.21  Aligned_cols=25  Identities=16%  Similarity=0.341  Sum_probs=20.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+=|-+.|.+|+|||++++++..
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~   30 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSE   30 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHH
Confidence            3446667889999999999998764

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=96.35  E-value=0.0059  Score=39.06  Aligned_cols=24  Identities=29%  Similarity=0.275  Sum_probs=20.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ++.++|++|+|||||+....+-..
T Consensus       360 ~v~IvG~sGsGKSTLl~lL~gl~~  383 (571)
T TIGR02203       360 TVALVGRSGSGKSTLVNLIPRFYE  383 (571)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccC
Confidence            568999999999999998875443

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.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=96.35  E-value=0.0065  Score=34.64  Aligned_cols=22  Identities=36%  Similarity=0.418  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        36 ~~~l~G~nGsGKSTLl~~i~G~   57 (224)
T TIGR02324        36 CVALSGPSGAGKSTLLKSLYAN   57 (224)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999988765

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.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.35  E-value=0.0053  Score=34.47  Aligned_cols=22  Identities=36%  Similarity=0.469  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+.
T Consensus        35 ~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          35 LTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999998864

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.

>PRK04182 cytidylate kinase; Provisional

Probab=96.35  E-value=0.0053  Score=33.54  Aligned_cols=22  Identities=18%  Similarity=0.332  Sum_probs=19.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.|++.|.+|+|||++...+..
T Consensus         1 ~~I~i~G~~GsGKstia~~la~   22 (180)
T PRK04182          1 MIITISGPPGSGKTTVARLLAE   22 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3688999999999999998864

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=96.34  E-value=0.007  Score=34.67  Aligned_cols=23  Identities=30%  Similarity=0.320  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (234)
T cd03251          30 TVALVGPSGSGKSTLVNLIPRFY   52 (234)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            36799999999999999877653

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.

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=96.34  E-value=0.0069  Score=35.66  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~Gl~   57 (269)
T PRK11831         35 ITAIMGPSGIGKTTLLRLIGGQI   57 (269)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887653

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=96.34  E-value=0.0051  Score=35.88  Aligned_cols=23  Identities=30%  Similarity=0.340  Sum_probs=19.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+..
T Consensus        32 ~~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         32 VTAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            46799999999999999888754

>PRK13768 GTPase; Provisional

Probab=96.34  E-value=0.0052  Score=36.18  Aligned_cols=22  Identities=23%  Similarity=0.566  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+++.|++|+|||+++.++..
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~   24 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSD   24 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHH
Confidence            5688999999999998887663

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=96.34  E-value=0.0072  Score=35.25  Aligned_cols=23  Identities=30%  Similarity=0.291  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+..
T Consensus        33 ~~~l~G~nGsGKSTLl~~i~G~~   55 (257)
T PRK10619         33 VISIIGSSGSGKSTFLRCINFLE   55 (257)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999888654

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=96.34  E-value=0.0072  Score=35.42  Aligned_cols=22  Identities=32%  Similarity=0.347  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        32 ~~~I~G~NGsGKSTLl~~i~Gl   53 (251)
T PRK09544         32 ILTLLGPNGAGKSTLVRVVLGL   53 (251)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999988764

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=96.33  E-value=0.0051  Score=36.34  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=18.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-.+++.|++|+|||+|+.-+..
T Consensus        50 l~h~lf~GPPG~GKTTLA~IIA~   72 (233)
T PF05496_consen   50 LDHMLFYGPPGLGKTTLARIIAN   72 (233)
T ss_dssp             --EEEEESSTTSSHHHHHHHHHH
T ss_pred             cceEEEECCCccchhHHHHHHHh
Confidence            34789999999999999887654

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>PRK04040 adenylate kinase; Provisional

Probab=96.33  E-value=0.0055  Score=34.70  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||+++..+..
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~   24 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALE   24 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            4678999999999999997754

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=96.33  E-value=0.0047  Score=35.79  Aligned_cols=23  Identities=39%  Similarity=0.417  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (247)
T TIGR00972        29 VTALIGPSGCGKSTLLRSLNRMN   51 (247)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            35789999999999999887654

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.

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=96.33  E-value=0.0049  Score=34.53  Aligned_cols=20  Identities=20%  Similarity=0.408  Sum_probs=17.3

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+.|.+|+|||+++..+..
T Consensus         2 i~i~G~sgsGKttla~~l~~   21 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSN   21 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56889999999999988764

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>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=96.33  E-value=0.0074  Score=34.46  Aligned_cols=23  Identities=26%  Similarity=0.290  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        42 ~~~i~G~nGsGKSTLl~~l~Gl~   64 (226)
T cd03248          42 VTALVGPSGSGKSTVVALLENFY   64 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCc
Confidence            46799999999999999887653

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.

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=96.33  E-value=0.0045  Score=37.64  Aligned_cols=23  Identities=26%  Similarity=0.276  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        35 ~~~ivG~sGsGKSTLl~~i~Gl~   57 (330)
T PRK15093         35 IRGLVGESGSGKSLIAKAICGVT   57 (330)
T ss_pred             EEEEECCCCCCHHHHHHHHHccC
Confidence            36799999999999999887653

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.33  E-value=0.0051  Score=33.47  Aligned_cols=21  Identities=29%  Similarity=0.401  Sum_probs=17.5

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.|.+|+|||+++..+...
T Consensus         2 i~i~G~~GsGKSTla~~L~~~   22 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEK   22 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            578899999999999876653

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=96.33  E-value=0.004  Score=34.14  Aligned_cols=35  Identities=23%  Similarity=0.455  Sum_probs=25.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      |+.++|..|+|||++.+...+.+.  .+.-|-.++|+
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~--lykKTQAve~~   37 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDT--LYKKTQAVEFN   37 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchh--hhcccceeecc
Confidence            688999999999999998887654  23344444443

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=96.33  E-value=0.0069  Score=35.57  Aligned_cols=22  Identities=36%  Similarity=0.398  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        39 ~~~i~G~nGsGKSTLl~~l~Gl   60 (265)
T PRK10575         39 VTGLIGHNGSGKSTLLKMLGRH   60 (265)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4579999999999999987764

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.33  E-value=0.0048  Score=34.56  Aligned_cols=21  Identities=33%  Similarity=0.434  Sum_probs=17.9

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -++++|.+|+|||+++..+..
T Consensus         5 ~i~l~G~sGsGKSTl~~~la~   25 (176)
T PRK09825          5 SYILMGVSGSGKSLIGSKIAA   25 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            367899999999999987664

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=96.32  E-value=0.0068  Score=34.48  Aligned_cols=23  Identities=30%  Similarity=0.536  Sum_probs=19.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|+..+.+-.
T Consensus        29 ~~~i~G~nGsGKSTLl~~i~G~~   51 (218)
T cd03290          29 LTMIVGQVGCGKSSLLLAILGEM   51 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            46789999999999999888654

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.

>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=96.32  E-value=0.0054  Score=35.10  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        35 ~~~l~G~nGsGKSTLlk~l~G~~   57 (226)
T cd03234          35 VMAILGSSGSGKTTLLDAISGRV   57 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            46799999999999999887653

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

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=96.32  E-value=0.0068  Score=34.44  Aligned_cols=22  Identities=36%  Similarity=0.495  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+.
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~G~   53 (221)
T cd03244          32 KVGIVGRTGSGKSSLLLALFRL   53 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3578999999999999988764

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=96.32  E-value=0.015  Score=37.20  Aligned_cols=40  Identities=25%  Similarity=0.420  Sum_probs=29.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCc------CCCcccCCeeeeEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDS------YVDSYISTIGVDFV   46 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~------~~~~~~~tig~~~~   46 (57)
                      ..+|+.++|.+++|||+|++++++.+      .+..+...|-.+|.
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e  222 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFE  222 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEE
Confidence            35899999999999999999998763      33344444544444

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=96.32  E-value=0.0039  Score=38.28  Aligned_cols=28  Identities=18%  Similarity=0.320  Sum_probs=22.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ...-++++|-.|+|||+|++|+...-..
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~   45 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHA   45 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhh
Confidence            4567889999999999999998764443

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.31  E-value=0.0052  Score=35.88  Aligned_cols=22  Identities=27%  Similarity=0.302  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+.
T Consensus        40 ~~~l~G~nGsGKSTLl~~l~G~   61 (259)
T PRK14274         40 VTAIIGPSGCGKSTFIKTLNLM   61 (259)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4679999999999999988754

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=96.31  E-value=0.0048  Score=36.09  Aligned_cols=22  Identities=41%  Similarity=0.468  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+-
T Consensus        41 ~~~i~G~nGsGKSTLl~~l~Gl   62 (260)
T PRK10744         41 VTAFIGPSGCGKSTLLRTFNRM   62 (260)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4579999999999999988764

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=96.31  E-value=0.0075  Score=34.58  Aligned_cols=23  Identities=30%  Similarity=0.316  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus         8 ~~~l~G~nGsGKSTLl~~l~G~~   30 (223)
T TIGR03771         8 LLGLLGPNGAGKTTLLRAILGLI   30 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46789999999999999887643

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.

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.31  E-value=0.0051  Score=34.82  Aligned_cols=23  Identities=30%  Similarity=0.489  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          35 MVLVLGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             EEEEECCCCCCHHHHHHHhcccC
Confidence            46799999999999999877654

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.

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=96.31  E-value=0.0051  Score=35.64  Aligned_cols=22  Identities=27%  Similarity=0.297  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++-+.+.
T Consensus        35 ~~~i~G~nGsGKSTLl~~i~Gl   56 (252)
T CHL00131         35 IHAIMGPNGSGKSTLSKVIAGH   56 (252)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4679999999999999887763

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.31  E-value=0.0075  Score=35.89  Aligned_cols=23  Identities=22%  Similarity=0.325  Sum_probs=19.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+..
T Consensus        35 ~~~i~G~nGsGKSTLl~~L~Gl~   57 (286)
T PRK13646         35 YYAIVGQTGSGKSTLIQNINALL   57 (286)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999888653

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.31  E-value=0.0062  Score=40.73  Aligned_cols=25  Identities=32%  Similarity=0.320  Sum_probs=20.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ++.++|.+|+||||+++-+.+-..+
T Consensus       501 ~vaIvG~SGsGKSTL~KLL~gly~p  525 (709)
T COG2274         501 KVAIVGRSGSGKSTLLKLLLGLYKP  525 (709)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            5889999999999999988765443

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=96.31  E-value=0.0055  Score=35.74  Aligned_cols=23  Identities=30%  Similarity=0.192  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+..
T Consensus        31 ~~~l~G~nGsGKSTLl~~l~Gl~   53 (254)
T PRK10418         31 VLALVGGSGSGKSLTCAAALGIL   53 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887654

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.31  E-value=0.005  Score=35.10  Aligned_cols=21  Identities=19%  Similarity=0.355  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      +++++.|-+|+|||+++.++.
T Consensus         1 m~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           1 MLIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             CeEEEeCCCCCchHHHHHHHH
Confidence            478999999999999999887

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.31  E-value=0.0076  Score=33.22  Aligned_cols=23  Identities=35%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        30 ~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          30 KVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            45789999999999999887653

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.

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=96.31  E-value=0.0077  Score=34.61  Aligned_cols=22  Identities=41%  Similarity=0.495  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|+.-+.+.
T Consensus        50 ~~~i~G~nGsGKSTLl~~l~G~   71 (224)
T cd03220          50 RIGLIGRNGAGKSTLLRLLAGI   71 (224)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999988864

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.

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=96.31  E-value=0.0064  Score=37.44  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=19.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+.++|++|+|||+|++-+.+-.-
T Consensus        34 ~~~llGpsGsGKSTLLr~IaGl~~   57 (351)
T PRK11432         34 MVTLLGPSGCGKTTVLRLVAGLEK   57 (351)
T ss_pred             EEEEECCCCCcHHHHHHHHHCCCC
Confidence            457899999999999998876543

>cd00066 G-alpha G protein alpha subunit

Probab=96.30  E-value=0.0043  Score=37.64  Aligned_cols=21  Identities=43%  Similarity=0.681  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .|++++|.+++|||++++++.
T Consensus         1 ~klLlLG~geSGKSTi~KQmr   21 (317)
T cd00066           1 VKLLLLGAGESGKSTILKQMK   21 (317)
T ss_pred             CeEEEecCCCccHHHHHHHHH
Confidence            489999999999999999876

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=96.30  E-value=0.0073  Score=37.07  Aligned_cols=23  Identities=22%  Similarity=0.328  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        26 ~~~l~G~nGsGKSTLl~~iaGl~   48 (352)
T PRK11144         26 ITAIFGRSGAGKTSLINAISGLT   48 (352)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999887653

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.30  E-value=0.0088  Score=34.95  Aligned_cols=23  Identities=30%  Similarity=0.342  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        40 ~~~i~G~nGsGKSTLl~~i~Gl~   62 (258)
T PRK14268         40 VTALIGPSGCGKSTFIRCLNRMN   62 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36799999999999999988643

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=96.29  E-value=0.016  Score=39.23  Aligned_cols=30  Identities=17%  Similarity=0.174  Sum_probs=25.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSY   37 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~   37 (57)
                      ...+.++|..++|||||+.++....+....
T Consensus       290 ~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e  319 (787)
T PRK05306        290 PPVVTIMGHVDHGKTSLLDAIRKTNVAAGE  319 (787)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhCCccccc
Confidence            467899999999999999999887765443

>PTZ00301 uridine kinase; Provisional

Probab=96.29  E-value=0.005  Score=35.54  Aligned_cols=21  Identities=29%  Similarity=0.279  Sum_probs=17.1

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      +=|.+.|.+|+|||+++..+.
T Consensus         4 ~iIgIaG~SgSGKTTla~~l~   24 (210)
T PTZ00301          4 TVIGISGASGSGKSSLSTNIV   24 (210)
T ss_pred             EEEEEECCCcCCHHHHHHHHH
Confidence            456688999999999997653

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=96.29  E-value=0.0081  Score=33.91  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          36 KIGIVGRTGAGKSTLILALFRF   57 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4678999999999999988764

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.

>COG3596 Predicted GTPase [General function prediction only]

Probab=96.29  E-value=0.0061  Score=37.05  Aligned_cols=27  Identities=26%  Similarity=0.391  Sum_probs=23.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ...++++.|..|+||||+++.+..++.
T Consensus        38 ~pvnvLi~G~TG~GKSSliNALF~~~~   64 (296)
T COG3596          38 EPVNVLLMGATGAGKSSLINALFQGEV   64 (296)
T ss_pred             CceeEEEecCCCCcHHHHHHHHHhccC
Confidence            468899999999999999999886544

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=96.28  E-value=0.0075  Score=37.29  Aligned_cols=23  Identities=35%  Similarity=0.424  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++-+.+-.
T Consensus        31 ~~~l~G~nGsGKSTLL~~iaGl~   53 (369)
T PRK11000         31 FVVFVGPSGCGKSTLLRMIAGLE   53 (369)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            46799999999999999887653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	57
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		1e-17
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		2e-17
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		2e-17
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		5e-17
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		6e-17
4fmc_B	171	Espg-Rab1 Complex Length = 171		1e-16
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		2e-16
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		2e-16
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		2e-16
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		8e-16
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		8e-16
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		8e-16
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		7e-15
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		2e-13
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		3e-13
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		8e-13
4fmc_F	117	Espg-Rab1 Complex Length = 117		6e-12
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		1e-11
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		7e-11
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		1e-10
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-10
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		2e-10
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		3e-10
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		8e-10
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		1e-09
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		1e-09
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		3e-09
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		4e-09
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		1e-08
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		1e-08
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		1e-08
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		1e-08
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		1e-08
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		2e-08
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		2e-08
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		2e-08
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-08
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		2e-08
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		3e-08
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		5e-08
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		6e-08
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		6e-08
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		7e-08
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		1e-07
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		2e-07
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		4e-07
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		4e-07
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		5e-07
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		5e-07
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		5e-07
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		6e-07
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		7e-07
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		1e-06
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		2e-06
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		3e-06
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		3e-06
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		3e-06
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		3e-06
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		3e-06
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		3e-06
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		3e-06
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		3e-06
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		3e-06
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		4e-06
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		7e-06
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		2e-05
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		2e-05
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		3e-05
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		3e-05
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		4e-05
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		7e-05
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		7e-05
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		7e-05
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		7e-05
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		7e-05
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		8e-05
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		9e-05
1vg1_A	185	Gdp-bound Rab7 Length = 185		9e-05
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		9e-05
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		9e-05
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		9e-05
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		9e-05
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		9e-05
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		1e-04
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		1e-04
2efc_B	181	Ara7-GdpATVPS9A Length = 181		1e-04
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		2e-04
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		2e-04
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		3e-04
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		3e-04
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		4e-04
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		5e-04
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		5e-04
1s1c_A	183	Crystal Structure Of The Complex Between The Human		5e-04
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		5e-04
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		5e-04
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		5e-04
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		5e-04
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		5e-04
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		5e-04
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		6e-04
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		6e-04
3icq_B	171	Karyopherin Nuclear State Length = 171		6e-04
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		7e-04
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		7e-04
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		7e-04
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		7e-04
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		8e-04
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		9e-04
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		9e-04

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 84.7 bits (208), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 40/45 (88%), Positives = 42/45 (93%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y DSYISTIGVDF
Sbjct: 2  MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDF 46

>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 = 84.0 bits (206), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 39/45 (86%), Positives = 42/45 (93%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 9  MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 53

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 83.6 bits (205), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 39/45 (86%), Positives = 42/45 (93%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 1  MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 45

>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 = 82.4 bits (202), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 38/45 (84%), Positives = 42/45 (93%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGK+CLLLRFADD+Y +SYISTIGVDF
Sbjct: 9  MNPEYDYLFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDF 53

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 82.4 bits (202), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 39/44 (88%), Positives = 41/44 (93%)
Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          S EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 19 SPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 62

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 81.3 bits (199), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 38/42 (90%), Positives = 40/42 (95%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 2  EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 43

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 38/42 (90%), Positives = 40/42 (95%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 29 EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 70

>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 = 80.5 bits (197), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 38/42 (90%), Positives = 40/42 (95%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 5  EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 46

>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 = 80.5 bits (197), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 38/42 (90%), Positives = 40/42 (95%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 5  EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 46

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 78.6 bits (192), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 37/42 (88%), Positives = 39/42 (92%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          EYD LFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 2  EYDALFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 43

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 78.6 bits (192), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 36/45 (80%), Positives = 42/45 (93%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M++EYDYLFKLLLIG+S VGKSCLLLRF+DD+Y + YISTIGVDF
Sbjct: 1  MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDF 45

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 78.6 bits (192), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 36/45 (80%), Positives = 42/45 (93%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M++EYDYLFKLLLIG+S VGKSCLLLRF+DD+Y + YISTIGVDF
Sbjct: 1  MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDF 45

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 75.5 bits (184), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 35/43 (81%), Positives = 40/43 (93%)
Query: 3  NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +EYDYLFKLLLIG+S VGKSCLLLRF+DD+Y + YISTIGVDF
Sbjct: 16 SEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDF 58

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 70.9 bits (172), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 32/45 (71%), Positives = 40/45 (88%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ +YD+LFKLL+IGDS VGKS LLLRFAD+++  SYI+TIGVDF
Sbjct: 2  MARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDF 46

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 70.1 bits (170), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 29/45 (64%), Positives = 39/45 (86%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+  YDYLFKLLLIGDS VGK+C+L RF++D++  ++ISTIG+DF
Sbjct: 1  MAKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDF 45

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 68.6 bits (166), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 32/36 (88%), Positives = 34/36 (94%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          KLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 1  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 36

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 65.5 bits (158), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 31/35 (88%), Positives = 33/35 (94%)
Query: 11 LLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          LLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 1  LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 35

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 64.7 bits (156), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 27/40 (67%), Positives = 36/40 (90%)
Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          DYLFKLLLIGDS VGK+C+L RF++D++  ++ISTIG+DF
Sbjct: 4  DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDF 43

>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 = 62.0 bits (149), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 26/51 (50%), Positives = 41/51 (80%), Gaps = 1/51 (1%)
Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY 52
          S+ +DY FK+L+IG+SSVGK+  L R+ADDS+  +++ST+G+DF  + +IY
Sbjct: 2  SHXFDYXFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDF-KVKTIY 51

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 25/40 (62%), Positives = 35/40 (87%)
Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          DY+FKLLLIG+SSVGK+  L R+ADDS+  +++ST+G+DF
Sbjct: 20 DYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDF 59

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 26/41 (63%), Positives = 34/41 (82%)
Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          YD + K+LLIGDS VGKSCLL+RF +D +  S+I+TIG+DF
Sbjct: 17 YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDF 57

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 25/48 (52%), Positives = 40/48 (83%), Gaps = 1/48 (2%)
Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY 52
          +DY+FK+L+IG+SSVGK+  L R+ADDS+  +++ST+G+DF  + +IY
Sbjct: 2  FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDF-KVKTIY 48

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 23/41 (56%), Positives = 36/41 (87%)
Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +DY+FKLL+IG+SSVGK+  L R+ADD++  +++ST+G+DF
Sbjct: 20 FDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDF 60

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 58.5 bits (140), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 25/40 (62%), Positives = 33/40 (82%)
Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          D + K+LLIGDS VGKSCLL+RF +D +  S+I+TIG+DF
Sbjct: 1  DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDF 40

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 25/40 (62%), Positives = 33/40 (82%)
Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          D + K+LLIGDS VGKSCLL+RF +D +  S+I+TIG+DF
Sbjct: 1  DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDF 40

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 25/40 (62%), Positives = 33/40 (82%)
Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          D + K+LLIGDS VGKSCLL+RF +D +  S+I+TIG+DF
Sbjct: 1  DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDF 40

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 24/38 (63%), Positives = 32/38 (84%)
Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          + K+LLIGDS VGKSCLL+RF +D +  S+I+TIG+DF
Sbjct: 7  IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDF 44

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 56.2 bits (134), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/51 (45%), Positives = 34/51 (66%)
Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY 52
          S +YDYL KLL +GDS VGK+  L R+ D+ +   +I+T+G+DF     +Y
Sbjct: 19 SGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVY 69

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/42 (54%), Positives = 34/42 (80%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +YD+LFKL+L+GD+SVGK+C++ RF   ++ +   STIGVDF
Sbjct: 25 QYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDF 66

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/42 (54%), Positives = 35/42 (83%), Gaps = 1/42 (2%)
Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDF 45
          YD  FK++L+GDS VGK+CLL+RF D +++  ++IST+G+DF
Sbjct: 7  YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDF 48

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 22/49 (44%), Positives = 33/49 (67%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY 52
          +YDYL KLL +GDS VGK+  L R+ D+ +   +I+T+G+DF     +Y
Sbjct: 7  DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVY 55

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 33/46 (71%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          EYDYLFK++LIGDS VGKS LL RF  + +     STIGV+F + S
Sbjct: 1  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRS 46

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 22/49 (44%), Positives = 33/49 (67%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY 52
          +YDYL KLL +GDS VGK+  L R+ D+ +   +I+T+G+DF     +Y
Sbjct: 7  DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVY 55

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/49 (44%), Positives = 33/49 (67%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY 52
          +YDYL KLL +GDS VGK+  L R+ D+ +   +I+T+G+DF     +Y
Sbjct: 7  DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVY 55

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/49 (55%), Positives = 34/49 (69%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          M  +YDYLFK++LIGDS VGKS LL RF  D +     STIGV+F + +
Sbjct: 3  MGYDYDYLFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRT 51

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/48 (58%), Positives = 35/48 (72%)
Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          S+EYDYLFK++LIGDS VGKS LL RF  + +     STIGV+F + S
Sbjct: 2  SDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRS 49

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/49 (44%), Positives = 33/49 (67%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY 52
          +YDYL KLL +GDS VGK+  L R+ D+ +   +I+T+G+DF     +Y
Sbjct: 7  DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVY 55

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/47 (57%), Positives = 34/47 (72%)
Query: 3  NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          +EYDYLFK++LIGDS VGKS LL RF  + +     STIGV+F + S
Sbjct: 24 DEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRS 70

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/47 (57%), Positives = 34/47 (72%)
Query: 3  NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          +EYDYLFK++LIGDS VGKS LL RF  + +     STIGV+F + S
Sbjct: 24 DEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRS 70

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 27/45 (60%), Positives = 32/45 (71%)
Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          YDYLFK++LIGDS VGKS LL RF  D +     STIGV+F + S
Sbjct: 4  YDYLFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKS 48

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score = 52.4 bits (124), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 27/47 (57%), Positives = 34/47 (72%)
Query: 3  NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          +EYDYLFK++LIGDS VGKS LL RF  + +     STIGV+F + S
Sbjct: 6  DEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRS 52

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 52.4 bits (124), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 23/45 (51%), Positives = 32/45 (71%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          + + Y YLFK ++IGD+ VGKSCLLL+F D  +   +  TIGV+F
Sbjct: 3  LGSAYAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEF 47

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 52.0 bits (123), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 24/47 (51%), Positives = 32/47 (68%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          MS  YD+LFK L+IG++  GKSCLL +F +  + D    TIGV+F S
Sbjct: 3  MSETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGS 49

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 26/45 (57%), Positives = 32/45 (71%)
Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          YDYLFK++LIGDS VGKS LL RF  + +     STIGV+F + S
Sbjct: 2  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRS 46

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 26/45 (57%), Positives = 32/45 (71%)
Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          YDYLFK++LIGDS VGKS LL RF  + +     STIGV+F + S
Sbjct: 17 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRS 61

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/39 (56%), Positives = 29/39 (74%)
Query: 7  YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          YLFK ++IGD+ VGKSCLLL+F D  +   +  TIGV+F
Sbjct: 20 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEF 58

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/43 (48%), Positives = 32/43 (74%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV 46
          +YD+LFK++LIG++ VGK+CL+ RF    +     +TIGVDF+
Sbjct: 22 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFM 64

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 49.7 bits (117), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 20/49 (40%), Positives = 32/49 (65%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY 52
          +YDYL K L +GDS VGK+ +L ++ D  +   +I+T+G+DF     +Y
Sbjct: 7  DYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVY 55

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 23/46 (50%), Positives = 31/46 (67%)
Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          S  YD+LFK L+IG++  GKSCLL +F +  + D    TIGV+F S
Sbjct: 5  SETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGS 50

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 24/44 (54%), Positives = 31/44 (70%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          +YD LFK++LIGDS VGKS LL RF  + +     STIGV+F +
Sbjct: 9  DYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFAT 52

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/37 (59%), Positives = 28/37 (75%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           K+L+IG+S VGKS LLLRF DD++     +TIGVDF
Sbjct: 16 LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDF 52

>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 = 48.9 bits (115), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/46 (50%), Positives = 31/46 (67%)
Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          S  YD+LFK L+IG++  GKSCLL +F +  + D    TIGV+F S
Sbjct: 2  SETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGS 47

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/39 (51%), Positives = 31/39 (79%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          FKL+ +G+ SVGK+ L+ RF  DS+ ++Y +TIG+DF+S
Sbjct: 17 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLS 55

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/39 (51%), Positives = 31/39 (79%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          FKL+ +G+ SVGK+ L+ RF  DS+ ++Y +TIG+DF+S
Sbjct: 14 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLS 52

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/39 (51%), Positives = 31/39 (79%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          FKL+ +G+ SVGK+ L+ RF  DS+ ++Y +TIG+DF+S
Sbjct: 7  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLS 45

>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 = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 20/39 (51%), Positives = 31/39 (79%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          FKL+ +G+ SVGK+ L+ RF  DS+ ++Y +TIG+DF+S
Sbjct: 2  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLS 40

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 20/39 (51%), Positives = 31/39 (79%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          FKL+ +G+ SVGK+ L+ RF  DS+ ++Y +TIG+DF+S
Sbjct: 7  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLS 45

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/41 (48%), Positives = 28/41 (68%)
Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          Y Y+FK ++IGD  VGKSCLL +F +  ++     TIGV+F
Sbjct: 27 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEF 67

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 20/39 (51%), Positives = 31/39 (79%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          FKL+ +G+ SVGK+ L+ RF  DS+ ++Y +TIG+DF+S
Sbjct: 3  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLS 41

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/41 (48%), Positives = 28/41 (68%)
Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          Y Y+FK ++IGD  VGKSCLL +F +  ++     TIGV+F
Sbjct: 12 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEF 52

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/38 (52%), Positives = 28/38 (73%)
Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +FK+++IGDS+VGK+CL  RF    + D   +TIGVDF
Sbjct: 20 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDF 57

>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 = 46.6 bits (109), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/38 (52%), Positives = 28/38 (73%)
Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +FK+++IGDS+VGK+CL  RF    + D   +TIGVDF
Sbjct: 29 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDF 66

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/47 (40%), Positives = 32/47 (68%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          MS+    + K++++GDS VGK+ L+ R+ +D Y   Y +TIG DF++
Sbjct: 1  MSSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLT 47

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/39 (51%), Positives = 31/39 (79%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          FKL+ +G+ SVGK+ L+ RF  DS+ ++Y +TIG+DF+S
Sbjct: 15 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLS 53

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 45.4 bits (106), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 20/44 (45%), Positives = 32/44 (72%)
Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          S +Y+++FK++LIG+S VGK+ LL RF  + +     +TIGV+F
Sbjct: 19 SEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEF 62

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/42 (47%), Positives = 28/42 (66%)
Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          D+LFK L+IG +  GKSCLL +F ++ +      TIGV+F S
Sbjct: 23 DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGS 64

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/42 (45%), Positives = 31/42 (73%)
Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +Y+++FK++LIG+S VGK+ LL RF  + +     +TIGV+F
Sbjct: 6  DYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEF 47

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 17/39 (43%), Positives = 31/39 (79%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          +KL+ +G+ +VGK+ ++ RF  D++ ++Y STIG+DF+S
Sbjct: 2  YKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLS 40

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/40 (42%), Positives = 29/40 (72%)
Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          D+  ++++IG   VGK+ L+ RF DD++ ++  ST+GVDF
Sbjct: 24 DFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDF 63

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 16/41 (39%), Positives = 31/41 (75%)
Query: 7  YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          Y FK++L+G+  VGK+ L+LR+ ++ + D +I+T+G  F++
Sbjct: 5  YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLT 45

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 29/41 (70%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S+VGKS L+LRF    + +   STIG  F++ +
Sbjct: 8  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQT 48

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 29/41 (70%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S+VGKS L+LRF    + +   STIG  F++ +
Sbjct: 4  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQT 44

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 29/41 (70%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S+VGKS L+LRF    + +   STIG  F++ +
Sbjct: 7  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQT 47

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 29/41 (70%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S+VGKS L+LRF    + +   STIG  F++ +
Sbjct: 6  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQT 46

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 29/41 (70%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S+VGKS L+LRF    + +   STIG  F++ +
Sbjct: 6  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQT 46

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 29/41 (70%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S+VGKS L+LRF    + +   STIG  F++ +
Sbjct: 8  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQT 48

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/47 (34%), Positives = 32/47 (68%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          M++    L K++++GDS VGK+ L+ ++ +  + + Y +TIG DF++
Sbjct: 1  MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLT 47

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/47 (34%), Positives = 32/47 (68%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          M++    L K++++GDS VGK+ L+ ++ +  + + Y +TIG DF++
Sbjct: 1  MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLT 47

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/47 (34%), Positives = 32/47 (68%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          M++    L K++++GDS VGK+ L+ ++ +  + + Y +TIG DF++
Sbjct: 1  MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLT 47

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/47 (34%), Positives = 32/47 (68%)
Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          M++    L K++++GDS VGK+ L+ ++ +  + + Y +TIG DF++
Sbjct: 1  MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLT 47

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 28/41 (68%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S VGKS L+LRF    + +   STIG  F++ +
Sbjct: 7  FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQT 47

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 28/41 (68%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S VGKS L+LRF    + +   STIG  F++ +
Sbjct: 7  FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQT 47

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 28/41 (68%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S VGKS L+LRF    + +   STIG  F++ +
Sbjct: 7  FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQT 47

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 28/41 (68%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S VGKS L+LRF    + +   STIG  F++ +
Sbjct: 7  FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQT 47

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/41 (48%), Positives = 29/41 (70%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S+VGKS L+LRF    + +   STIG  F++ S
Sbjct: 9  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQS 49

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/38 (52%), Positives = 25/38 (65%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+L+GD   GKS L+LRF  D +V+   STIG  F S
Sbjct: 14 KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFS 51

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/34 (38%), Positives = 27/34 (79%)
Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          + K +++GD +VGK+CLL+ +A+D++ + Y+ T+
Sbjct: 18 MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV 51

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 40.4 bits (93), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/41 (36%), Positives = 30/41 (73%)
Query: 7  YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          Y FK++L+G+  VGK+ L+LR+ ++ + D +I+T+   F++
Sbjct: 19 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLT 59

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 30/41 (73%)
Query: 7  YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          Y FK++L+G+  VGK+ L+LR+ ++ + D +I+T+   F++
Sbjct: 5  YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLT 45

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 28/41 (68%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S VGKS L+LRF    + +   STIG  F++ +
Sbjct: 7  FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQT 47

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 15/38 (39%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+L+G+++VGKS ++LRF  + + ++   TIG  F++
Sbjct: 5  KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLT 42

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 17/40 (42%), Positives = 27/40 (67%)
Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          LFK++L+GD  VGKS L+ R+  + +      TIGV+F++
Sbjct: 11 LFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLN 50

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 14/38 (36%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++V+
Sbjct: 10 KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA 47

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 14/38 (36%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++V+
Sbjct: 9  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA 46

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 14/38 (36%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++V+
Sbjct: 9  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA 46

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 14/38 (36%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++V+
Sbjct: 9  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA 46

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 14/38 (36%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++V+
Sbjct: 8  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA 45

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 14/38 (36%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++V+
Sbjct: 11 KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA 48

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 14/38 (36%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++V+
Sbjct: 7  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA 44

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 18/41 (43%), Positives = 28/41 (68%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+G+S+VGKS L+LRF    + +   STI   F++ +
Sbjct: 6  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQT 46

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 15/37 (40%), Positives = 27/37 (72%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +K++L GD++VGKS  L+R   + + ++  +T+GVDF
Sbjct: 29 YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDF 65

>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 = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 28/45 (62%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYM 53
           K+ L+GD+ VGKS ++ RF +DS+  +   TIG  F++ +  Y 
Sbjct: 7  LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQ 51

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 38.9 bits (89), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 17/41 (41%), Positives = 24/41 (58%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          FKL+L+GD   GK+  + R     +   YI+TIGV+   LS
Sbjct: 5  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLS 45

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 13/38 (34%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++++
Sbjct: 27 KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIA 64

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 13/38 (34%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++++
Sbjct: 27 KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIA 64

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/38 (36%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++V+
Sbjct: 27 KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVA 64

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/38 (36%), Positives = 28/38 (73%)
Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++V+
Sbjct: 8  KLVIVGDVACGKTCLLIVFSKDQFPEVYVPTVFENYVA 45

>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 = 38.9 bits (89), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 17/40 (42%), Positives = 27/40 (67%)
Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          LFK++L+GD  VGKS L+ R+  + +      TIGV+F++
Sbjct: 9  LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLN 48

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 38.5 bits (88), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 28/45 (62%)
Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYM 53
           K+ L+GD+ VGKS ++ RF +DS+  +   TIG  F++ +  Y 
Sbjct: 6  LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQ 50

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 38.5 bits (88), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 17/40 (42%), Positives = 27/40 (67%)
Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          LFK++L+GD  VGKS L+ R+  + +      TIGV+F++
Sbjct: 7  LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLN 46

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	57
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	2e-28
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	4e-28
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	4e-28
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	8e-28
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-27
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	2e-27
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	3e-27
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	8e-27
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	8e-27
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	8e-27
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	9e-27
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-26
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	2e-26
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	3e-26
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	3e-26
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	3e-26
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	3e-26
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	4e-26
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	6e-26
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	7e-26
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	7e-26
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	8e-26
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	9e-26
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-25
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-25
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-25
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-25
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	2e-25
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	2e-25
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	5e-25
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	5e-25
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	6e-25
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	8e-25
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	9e-25
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	1e-24
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	3e-24
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	9e-24
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-23
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	3e-23
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	4e-23
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	6e-22
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	9e-22
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	2e-21
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	2e-21
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	3e-21
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	1e-20
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	1e-20
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	2e-20
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	1e-19
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-18
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	2e-18
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	8e-18
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	8e-18
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	2e-17
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	5e-17
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	5e-17
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	5e-17
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	6e-17
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	9e-17
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	2e-16
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	2e-16
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	2e-15
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	3e-15
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	5e-15
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	5e-15
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	8e-15
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	5e-14
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	1e-13
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	2e-13
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	8e-13
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	1e-11
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	3e-11
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	7e-10
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	8e-10
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	5e-09
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	5e-09
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	7e-09
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	8e-09
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	2e-08
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	2e-08
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	2e-08
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	6e-08
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	7e-08
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	2e-06

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 98.4 bits (246), Expect = 2e-28
 Identities = 32/45 (71%), Positives = 40/45 (88%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ +YD+LFKLL+IGDS VGKS LLLRFAD+++  SYI+TIGVDF
Sbjct: 2  MARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDF 46

>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 = 97.7 bits (244), Expect = 4e-28
 Identities = 29/45 (64%), Positives = 39/45 (86%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+  YDYLFKLLLIGDS VGK+C+L RF++D++  ++ISTIG+DF
Sbjct: 1  MAKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDF 45

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 97.7 bits (244), Expect = 4e-28
 Identities = 39/45 (86%), Positives = 42/45 (93%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 9  MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 53

>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 = 97.4 bits (243), Expect = 8e-28
 Identities = 36/45 (80%), Positives = 42/45 (93%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M++EYDYLFKLLLIG+S VGKSCLLLRF+DD+Y + YISTIGVDF
Sbjct: 1  MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDF 45

>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 = 96.6 bits (241), Expect = 1e-27
 Identities = 24/44 (54%), Positives = 38/44 (86%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          S+ +DY+FK+L+IG+SSVGK+  L R+ADDS+  +++ST+G+DF
Sbjct: 2  SHMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDF 45

>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 = 96.2 bits (240), Expect = 2e-27
 Identities = 39/45 (86%), Positives = 42/45 (93%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M+ EYDYLFKLLLIGDS VGKSCLLLRFADD+Y +SYISTIGVDF
Sbjct: 26 MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDF 70

>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 = 95.4 bits (238), Expect = 3e-27
 Identities = 23/45 (51%), Positives = 36/45 (80%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
              +DY+FKLL+IG+SSVGK+  L R+ADD++  +++ST+G+DF
Sbjct: 16 FQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDF 60

>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 = 94.2 bits (235), Expect = 8e-27
 Identities = 23/45 (51%), Positives = 31/45 (68%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MS  YD+LFK L+IG++  GKSCLL +F +  + D    TIGV+F
Sbjct: 3  MSETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEF 47

>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 = 94.6 bits (236), Expect = 8e-27
 Identities = 23/45 (51%), Positives = 30/45 (66%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M  +     K+L+IG+S VGKS LLLRF DD++     +TIGVDF
Sbjct: 8  MDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDF 52

>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 = 94.6 bits (236), Expect = 8e-27
 Identities = 16/47 (34%), Positives = 32/47 (68%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          M++    L K++++GDS VGK+ L+ ++ +  + + Y +TIG DF++
Sbjct: 1  MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLT 47

>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 = 94.7 bits (236), Expect = 9e-27
 Identities = 26/45 (57%), Positives = 34/45 (75%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
              YD + K+LLIGDS VGKSCLL+RF +D +  S+I+TIG+DF
Sbjct: 13 NGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDF 57

>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 = 93.4 bits (233), Expect = 1e-26
 Identities = 19/47 (40%), Positives = 32/47 (68%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          MS+    + K++++GDS VGK+ L+ R+ +D Y   Y +TIG DF++
Sbjct: 1  MSSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLT 47

>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 = 93.4 bits (233), Expect = 2e-26
 Identities = 22/45 (48%), Positives = 30/45 (66%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +     YLFK ++IGD+ VGKSCLLL+F D  +   +  TIGV+F
Sbjct: 14 LVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEF 58

>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 = 92.7 bits (231), Expect = 3e-26
 Identities = 20/44 (45%), Positives = 28/44 (63%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
                +FK+++IGDS+VGK+CL  RF    + D   +TIGVDF
Sbjct: 14 RGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDF 57

>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 = 93.1 bits (232), Expect = 3e-26
 Identities = 26/45 (57%), Positives = 32/45 (71%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
            +EYDYLFK++LIGDS VGKS LL RF  + +     STIGV+F
Sbjct: 22 RDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEF 66

>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 = 92.7 bits (231), Expect = 3e-26
 Identities = 25/45 (55%), Positives = 36/45 (80%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +    DY+FKLLLIG+SSVGK+  L R+ADDS+  +++ST+G+DF
Sbjct: 15 VPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDF 59

>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 = 93.1 bits (232), Expect = 3e-26
 Identities = 17/45 (37%), Positives = 29/45 (64%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
               D+  ++++IG   VGK+ L+ RF DD++ ++  ST+GVDF
Sbjct: 19 SPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDF 63

>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 = 93.1 bits (232), Expect = 4e-26
 Identities = 23/45 (51%), Positives = 34/45 (75%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
             +YD+LFKL+L+GD+SVGK+C++ RF   ++ +   STIGVDF
Sbjct: 22 PDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDF 66

>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 = 92.3 bits (230), Expect = 6e-26
 Identities = 20/44 (45%), Positives = 32/44 (72%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          S +Y+++FK++LIG+S VGK+ LL RF  + +     +TIGV+F
Sbjct: 19 SEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEF 62

>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 = 92.3 bits (230), Expect = 7e-26
 Identities = 21/44 (47%), Positives = 31/44 (70%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
            +YD+LFK++LIG++ VGK+CL+ RF    +     +TIGVDF
Sbjct: 20 MEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDF 63

>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 = 92.8 bits (231), Expect = 7e-26
 Identities = 22/44 (50%), Positives = 32/44 (72%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          S +YDYL KLL +GDS VGK+  L R+ D+ +   +I+T+G+DF
Sbjct: 19 SGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDF 62

>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 = 91.9 bits (229), Expect = 8e-26
 Identities = 21/46 (45%), Positives = 33/46 (71%), Gaps = 1/46 (2%)

Query: 1  MSN-EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          MS+ +YDYL K L +GDS VGK+ +L ++ D  +   +I+T+G+DF
Sbjct: 3  MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDF 48

>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 = 92.5 bits (230), Expect = 9e-26
 Identities = 24/44 (54%), Positives = 30/44 (68%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
            +YD LFK++LIGDS VGKS LL RF  + +     STIGV+F
Sbjct: 7  GYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEF 50

>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 = 91.1 bits (227), Expect = 1e-25
 Identities = 23/46 (50%), Positives = 36/46 (78%), Gaps = 1/46 (2%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDF 45
            + YD  FK++L+GDS VGK+CLL+RF D +++  ++IST+G+DF
Sbjct: 3  GVDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDF 48

>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 = 91.5 bits (228), Expect = 1e-25
 Identities = 20/44 (45%), Positives = 28/44 (63%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          S   D+LFK L+IG +  GKSCLL +F ++ +      TIGV+F
Sbjct: 19 SIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEF 62

>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 = 91.6 bits (228), Expect = 1e-25
 Identities = 25/41 (60%), Positives = 30/41 (73%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          YDYLFK++LIGDS VGKS LL RF  + +     STIGV+F
Sbjct: 2  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEF 42

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score = 91.1 bits (227), Expect = 1e-25
 Identities = 20/45 (44%), Positives = 28/45 (62%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
              Y Y+FK ++IGD  VGKSCLL +F +  ++     TIGV+F
Sbjct: 8  APYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEF 52

>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 = 89.9 bits (224), Expect = 2e-25
 Identities = 14/41 (34%), Positives = 25/41 (60%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           +   K++++G+ +VGKS ++ R+    +   Y  TIGVDF
Sbjct: 2  SEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDF 42

>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 = 90.8 bits (226), Expect = 2e-25
 Identities = 16/44 (36%), Positives = 28/44 (63%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          S      +K++L GD++VGKS  L+R   + + ++  +T+GVDF
Sbjct: 22 SFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDF 65

>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 = 90.5 bits (225), Expect = 5e-25
 Identities = 15/49 (30%), Positives = 24/49 (48%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
             E    FKL+L+GD   GK+  + R     +   Y++T+GV+   L 
Sbjct: 8  AQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLV 56

>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 = 89.5 bits (223), Expect = 5e-25
 Identities = 18/47 (38%), Positives = 29/47 (61%), Gaps = 1/47 (2%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          M+     LFK++L+GD  VGKS L+ R+  + +      TIGV+F++
Sbjct: 1  MAG-KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLN 46

>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 = 89.5 bits (223), Expect = 6e-25
 Identities = 20/46 (43%), Positives = 26/46 (56%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          +       KL+L+GD   GKS L+LRF  D +V+   STIG  F S
Sbjct: 6  AGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFS 51

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score = 88.7 bits (221), Expect = 8e-25
 Identities = 16/41 (39%), Positives = 29/41 (70%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
            Y FK++L+G+  VGK+ L+LR+ ++ + D +I+T+G  F
Sbjct: 3  RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASF 43

>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 = 88.8 bits (221), Expect = 9e-25
 Identities = 14/41 (34%), Positives = 25/41 (60%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +    K++++GD + GK+ L   FA +++   Y  TIG+DF
Sbjct: 3  HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDF 43

>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 = 88.0 bits (219), Expect = 1e-24
 Identities = 25/40 (62%), Positives = 33/40 (82%)

Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          D + K+LLIGDS VGKSCLL+RF +D +  S+I+TIG+DF
Sbjct: 1  DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDF 40

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score = 88.1 bits (219), Expect = 3e-24
 Identities = 20/45 (44%), Positives = 31/45 (68%)

Query: 3  NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
                FKL+ +G+ SVGK+ L+ RF  DS+ ++Y +TIG+DF+S
Sbjct: 11 GNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLS 55

>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 = 86.1 bits (214), Expect = 9e-24
 Identities = 20/46 (43%), Positives = 31/46 (67%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
                 FKL+ +G+ SVGK+ L+ RF  DS+ ++Y +TIG+DF+S
Sbjct: 8  FGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLS 53

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 86.6 bits (215), Expect = 1e-23
 Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 2/49 (4%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFAD--DSYVDSYISTIGVDFVS 47
          +        K+ ++G+++VGKS L+  F      ++  Y  T GV+ V 
Sbjct: 13 IDITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVV 61

>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 = 85.4 bits (212), Expect = 3e-23
 Identities = 15/46 (32%), Positives = 24/46 (52%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
                  K+ L+GD+ VGKS ++ RF  D +  +   TIG  F++
Sbjct: 17 RGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMT 62

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score = 85.4 bits (212), Expect = 4e-23
 Identities = 13/44 (29%), Positives = 23/44 (52%), Gaps = 1/44 (2%)

Query: 3  NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGV-DF 45
             +  +K+ LIGD  VGK+  + R  D  +  +Y +T+G  + 
Sbjct: 6  ERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNH 49

>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 = 6e-22
 Identities = 13/44 (29%), Positives = 21/44 (47%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
            + D +FK++L+G+S VGKS L   F       ++      D 
Sbjct: 17 QGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDT 60

>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 = 81.0 bits (200), Expect = 9e-22
 Identities = 15/39 (38%), Positives = 28/39 (71%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
           KL+L+G+++VGKS ++LRF  + + ++   TIG  F++
Sbjct: 4  IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLT 42

>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 = 79.9 bits (198), Expect = 2e-21
 Identities = 19/41 (46%), Positives = 28/41 (68%)

Query: 7  YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
            FKL+L+G+S+VGKS L+LRF    + +   STIG  F++
Sbjct: 5  CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLT 45

>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 = 79.9 bits (198), Expect = 2e-21
 Identities = 16/39 (41%), Positives = 26/39 (66%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
           K+ L+GD+ VGKS ++ RF +DS+  +   TIG  F++
Sbjct: 7  LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMT 45

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 80.6 bits (199), Expect = 3e-21
 Identities = 17/44 (38%), Positives = 29/44 (65%)

Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          E    +K +L+G+SSVGKS ++LR   D++ ++  +TIG  F +
Sbjct: 3  EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCT 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 = 78.4 bits (194), Expect = 1e-20
 Identities = 15/44 (34%), Positives = 23/44 (52%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          S     L K++++G   VGKS L L+F  D +V+ Y  T    +
Sbjct: 12 SQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY 55

>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 = 78.8 bits (195), Expect = 1e-20
 Identities = 14/44 (31%), Positives = 22/44 (50%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
                L K++++G   VGKS L L+F  D +V+ Y  T    +
Sbjct: 8  GQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY 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 = 78.0 bits (193), Expect = 2e-20
 Identities = 14/45 (31%), Positives = 21/45 (46%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M        KL+++G   VGKS L ++F    +V  Y  TI   +
Sbjct: 2  MDPPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSY 46

>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 = 75.7 bits (187), Expect = 1e-19
 Identities = 15/43 (34%), Positives = 25/43 (58%)

Query: 3  NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           E    +++++ G   VGKS L+LRF   ++ D+YI TI   +
Sbjct: 3  PEQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY 45

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 72.5 bits (179), Expect = 2e-18
 Identities = 12/38 (31%), Positives = 19/38 (50%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +FK++L+G+S VGKS L   F       ++      D 
Sbjct: 2  VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDT 39

>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 = 72.6 bits (179), Expect = 2e-18
 Identities = 16/45 (35%), Positives = 26/45 (57%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          + +E    +KL+++GD  VGKS L ++F    +VD Y  TI   +
Sbjct: 11 VPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY 55

>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 = 70.6 bits (174), Expect = 8e-18
 Identities = 14/38 (36%), Positives = 22/38 (57%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          L K++++G   VGKS L L+F  D +V+ Y  T    +
Sbjct: 4  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY 41

>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 = 71.0 bits (175), Expect = 8e-18
 Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 2/45 (4%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          M        K+ ++G  SVGKS L ++F +  +VDSY  TI   F
Sbjct: 1  MPQSKSR--KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF 43

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 70.3 bits (173), Expect = 2e-17
 Identities = 9/41 (21%), Positives = 20/41 (48%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
               K++++G   VGK+ L  +F +  + + Y  T+   +
Sbjct: 21 LVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY 61

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score = 69.2 bits (170), Expect = 5e-17
 Identities = 13/37 (35%), Positives = 22/37 (59%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +KL+++G   VGKS L ++   + +VD Y  TI   +
Sbjct: 22 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY 58

>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 = 69.2 bits (170), Expect = 5e-17
 Identities = 13/44 (29%), Positives = 21/44 (47%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          S       KL + G + VGKS L++RF    ++  Y  T+   +
Sbjct: 22 SMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY 65

>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 = 69.2 bits (170), Expect = 5e-17
 Identities = 13/37 (35%), Positives = 22/37 (59%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +KL+++G   VGKS L ++   + +VD Y  TI   +
Sbjct: 5  YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY 41

>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 = 68.3 bits (168), Expect = 6e-17
 Identities = 12/37 (32%), Positives = 21/37 (56%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +KL+++G   VGKS L ++   + +VD    TI   +
Sbjct: 4  YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY 40

>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 = 68.5 bits (168), Expect = 9e-17
 Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 2/41 (4%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVD--SYISTIGVDFVS 47
           KL+++G++  GK+ LL +       D     +T+G+D   
Sbjct: 3  MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKD 43

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score = 67.2 bits (165), Expect = 2e-16
 Identities = 13/37 (35%), Positives = 23/37 (62%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +++ + G   VGKS L+LRF   ++ +SYI T+   +
Sbjct: 4  YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY 40

>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 = 66.7 bits (164), Expect = 2e-16
 Identities = 13/37 (35%), Positives = 22/37 (59%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +KL+++G   VGKS L ++F    +V+ Y  TI   +
Sbjct: 4  YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY 40

>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 = 65.4 bits (160), Expect = 2e-15
 Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDF 45
          S   +  ++++LIG+  VGKS L   FA      DS    +G D 
Sbjct: 31 SESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDT 75

>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 = 64.1 bits (157), Expect = 3e-15
 Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 1/38 (2%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          ++K+LL+G   VGKS L   F             G  +
Sbjct: 2  VYKVLLLGAPGVGKSALARIFGGV-EDGPEAEAAGHTY 38

>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 = 63.8 bits (156), Expect = 5e-15
 Identities = 8/45 (17%), Positives = 18/45 (40%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +  +      L ++G    GKS L ++F    ++  Y   +   +
Sbjct: 14 LYFQGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY 58

>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 = 63.3 bits (155), Expect = 5e-15
 Identities = 13/37 (35%), Positives = 24/37 (64%), Gaps = 1/37 (2%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +K++++G   VGKS L ++F   ++++ Y  TI  DF
Sbjct: 4  YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DF 39

>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 = 62.9 bits (154), Expect = 8e-15
 Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          L++++L+GD  VGK+ L   FA     D +   +G D 
Sbjct: 4  LYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDV 40

>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 = 61.1 bits (149), Expect = 5e-14
 Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 1/38 (2%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
            +L ++GD+  GKS L+ RF   SY      T    +
Sbjct: 7  ELRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQY 43

>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 = 60.4 bits (147), Expect = 1e-13
 Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 1/42 (2%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDF 45
              ++++LIG+  VGKS L   FA      DS    +G D 
Sbjct: 3  GMTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDT 44

>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 = 59.5 bits (145), Expect = 2e-13
 Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 1/37 (2%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           K+ ++G+ S GKS L+ R+   +YV    S  G  F
Sbjct: 21 LKVGIVGNLSSGKSALVHRYLTGTYVQEE-SPEGGRF 56

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 59.6 bits (144), Expect = 8e-13
 Identities = 11/44 (25%), Positives = 21/44 (47%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +  +    K+ LIGD   GK+ LL +   +++      T G++ 
Sbjct: 35 ALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNV 78

>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 = 54.6 bits (132), Expect = 1e-11
 Identities = 14/43 (32%), Positives = 25/43 (58%)

Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV 46
                K++++GD +VGK+CLLL F+      +Y+ T+  +F 
Sbjct: 19 NGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS 61

>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 = 54.4 bits (131), Expect = 3e-11
 Identities = 15/51 (29%), Positives = 29/51 (56%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI 51
          M    +   K++++GDS  GK+ LL  FA D + ++Y+ T+  ++ +   I
Sbjct: 21 MDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI 71

>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 = 50.5 bits (121), Expect = 7e-10
 Identities = 14/38 (36%), Positives = 25/38 (65%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV 46
           K++L+GD   GK+ LL+ FAD ++ +SY  T+   ++
Sbjct: 35 VKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYM 72

>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 = 50.1 bits (120), Expect = 8e-10
 Identities = 12/43 (27%), Positives = 26/43 (60%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI 51
           K + +GD +VGK+CLL+ +  +++   Y+ T+  +F +   +
Sbjct: 9  IKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVV 51

>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 = 48.2 bits (115), Expect = 5e-09
 Identities = 14/42 (33%), Positives = 27/42 (64%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI 51
          K++++GDS  GK+ LL  FA D + ++Y+ T+  ++ +   I
Sbjct: 9  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI 50

>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 = 48.2 bits (115), Expect = 5e-09
 Identities = 14/42 (33%), Positives = 29/42 (69%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI 51
          KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++V+   +
Sbjct: 27 KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVADIEV 68

>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 = 47.9 bits (114), Expect = 7e-09
 Identities = 13/43 (30%), Positives = 24/43 (55%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI 51
           KL+L+GD   GK+ +L   A D Y ++Y+ T+  ++ +    
Sbjct: 28 CKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLET 70

>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 = 47.8 bits (114), Expect = 8e-09
 Identities = 14/50 (28%), Positives = 31/50 (62%)

Query: 2  SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI 51
          S+      KL+++GD + GK+CLL+ F+ D + + Y+ T+  ++++   +
Sbjct: 19 SHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADIEV 68

>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 = 47.3 bits (112), Expect = 2e-08
 Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 4/37 (10%)

Query: 15 GDSSVGKSCLLLRF---ADDSYVDSYISTIG-VDFVS 47
          G   +GKSCL  RF   + D +   + S +   DF  
Sbjct: 35 GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGG 71

>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 = 46.6 bits (111), Expect = 2e-08
 Identities = 11/33 (33%), Positives = 21/33 (63%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
           K + +GD +VGK+C+L+ +  + +   YI T+
Sbjct: 10 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV 42

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score = 46.3 bits (110), Expect = 2e-08
 Identities = 13/41 (31%), Positives = 27/41 (65%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
                 + K +++GD +VGK+CLL+ +A+D++ + Y+ T+
Sbjct: 11 AHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV 51

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 45.1 bits (107), Expect = 6e-08
 Identities = 12/32 (37%), Positives = 20/32 (62%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          K +L+GD +VGK+ L++ +  + Y   YI T 
Sbjct: 22 KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA 53

>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 = 7e-08
 Identities = 12/43 (27%), Positives = 27/43 (62%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI 51
           K +++GD +VGK+CLL+ +  +++   YI T+  ++ +   +
Sbjct: 31 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV 73

>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 = 41.3 bits (97), Expect = 2e-06
 Identities = 12/32 (37%), Positives = 23/32 (71%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          K +++GD +VGK+CLL+ +  +++   YI T+
Sbjct: 7  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV 38

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	57
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.48
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.28
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.27
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.27
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.27
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.26
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.25
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.23
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.23
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.2
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.19
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.19
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.19
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.18
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.17
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.17
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.17
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.16
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.16
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.16
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.15
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.15
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.13
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.13
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.13
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.13
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.13
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.13
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.12
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.12
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.12
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.11
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.11
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.11
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.1
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.09
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.09
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.09
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.09
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.08
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.08
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.08
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.07
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.06
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.06
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.06
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.04
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.03
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.03
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.02
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.01
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.0
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	98.99
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	98.99
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	98.99
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	98.98
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	98.98
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	98.97
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	98.97
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	98.97
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	98.96
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	98.96
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	98.96
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	98.96
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	98.95
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	98.94
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	98.94
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	98.93
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	98.93
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	98.92
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	98.92
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	98.9
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	98.9
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	98.9
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	98.89
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	98.88
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	98.87
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	98.87
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	98.87
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.85
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	98.85
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	98.83
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	98.83
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	98.82
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	98.8
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	98.8
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	98.79
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	98.79
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	98.78
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	98.78
2wji_A	165	Ferrous iron transport protein B homolog; membrane	98.77
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	98.76
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	98.74
2fh5_B	214	SR-beta, signal recognition particle receptor beta	98.73
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	98.72
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	98.71
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	98.71
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	98.7
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	98.68
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	98.67
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	98.66
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	98.65
1nrj_B	218	SR-beta, signal recognition particle receptor beta	98.63
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	98.62
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.06
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	98.61
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	98.6
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	98.6
2ged_A	193	SR-beta, signal recognition particle receptor beta	98.59
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.54
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	98.53
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	98.52
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	98.51
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	98.49
3llu_A	196	RAS-related GTP-binding protein C; structural geno	98.48
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	98.48
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	98.47
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	98.46
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	98.46
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	98.43
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	98.39
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.34
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	98.34
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	98.32
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	98.27
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	98.27
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	98.21
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.17
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	98.15
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	98.02
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	97.99
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	97.98
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	97.96
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	97.95
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	97.94
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	97.92
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	97.82
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	97.8
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	97.79
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	97.78
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	97.76
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	97.75
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	97.73
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	97.65
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	97.63
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	97.61
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	97.61
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	97.6
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	97.6
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	97.58
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	97.56
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	97.56
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	97.55
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	97.54
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.53
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.51
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	97.5
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.49
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	97.47
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	97.46
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	97.44
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.44
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.41
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	97.41
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.39
1wxq_A	397	GTP-binding protein; structural genomics, riken st	97.33
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.33
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	97.32
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.31
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	97.3
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.3
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	97.29
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.28
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.27
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	97.25
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.25
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.23
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.22
1wb1_A	482	Translation elongation factor SELB; selenocysteine	97.2
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.19
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.19
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.17
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.17
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	97.16
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.16
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.16
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.15
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.14
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	97.14
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	97.11
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.09
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.09
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.08
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.07
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	97.07
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.06
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.05
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.04
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.04
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.04
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	97.04
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.03
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.02
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.02
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.01
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.01
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.0
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	97.0
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.99
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.99
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	96.99
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	96.99
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.99
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.98
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	96.96
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	96.96
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.95
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	96.95
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	96.94
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	96.92
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.92
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.91
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	96.91
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.91
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	96.91
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.9
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.9
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.89
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.89
3bos_A	242	Putative DNA replication factor; P-loop containing	96.87
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.87
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.86
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.86
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.85
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	96.85
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.85
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.84
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.84
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.84
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.84
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.83
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.83
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.82
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.82
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.81
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.81
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.81
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.8
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.8
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.8
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.8
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.8
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.8
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.79
1g6h_A	257	High-affinity branched-chain amino acid transport	96.79
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.78
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.78
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.78
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.78
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.77
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.77
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.76
1via_A	175	Shikimate kinase; structural genomics, transferase	96.76
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.76
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.76
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.75
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.75
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.74
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.74
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.73
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.73
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	96.73
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.73
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.72
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.72
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.72
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.72
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.71
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.71
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.71
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.7
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.7
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.69
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	96.69
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	96.68
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.68
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.67
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.66
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.66
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.65
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	96.65
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.65
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.65
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.64
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.64
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.64
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.63
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.63
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.62
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.61
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	96.61
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.61
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.61
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	96.61
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.6
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.59
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.59
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.58
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.58
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.57
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	96.57
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	96.56
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	96.55
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.54
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.54
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.54
2fna_A	357	Conserved hypothetical protein; structural genomic	96.54
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.54
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.53
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	96.53
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.53
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.53
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.53
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.52
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.52
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.51
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.51
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.5
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.5
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.5
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	96.5
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.5
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.5
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.5
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.49
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	96.49
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.48
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.48
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.47
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.46
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	96.46
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.46
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.45
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.45
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.44
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.43
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.43
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.43
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.42
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.41
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.4
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.4
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.4
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.4
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.39
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.38
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.38
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.38
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.38
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.38
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.37
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.37
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	96.36
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.35
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.35
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.34
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.34
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.33
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	96.33
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	96.32
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.32
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.31
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.3
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	96.3
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.3
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.29
3co5_A	143	Putative two-component system transcriptional RES	96.29
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	96.28
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	96.28
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.27
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.27
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.27
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.26
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.26
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.26
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	96.25
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.24
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.24
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.22
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.22
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	96.22
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.21
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	96.21
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.2
2og2_A	359	Putative signal recognition particle receptor; nuc	96.19
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.19
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.15
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	96.14
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.14
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.13
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.11
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.11
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.11
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.1
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.09
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	96.09
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	96.09
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.08
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.06
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.06
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.06
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.05
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.05
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.04
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.04
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.04
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.03
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	96.02
2qgz_A	308	Helicase loader, putative primosome component; str	96.02
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.02
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	96.01
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.0
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.99
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.97
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.96
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.95
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	95.93
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	95.93
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	95.92
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	95.92
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.91
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	95.91
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.9
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.89
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.89
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	95.88
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.88
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	95.87
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.87
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.87
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	95.87
2r44_A	331	Uncharacterized protein; putative ATPase, structur	95.86
3pvs_A	447	Replication-associated recombination protein A; ma	95.85
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.85
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	95.84
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.84
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.84
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	95.82
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	95.79
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.78
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.78
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	95.77
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.76
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.76
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.75
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	95.75
2chq_A	319	Replication factor C small subunit; DNA-binding pr	95.74
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	95.74
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.73
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.72
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.71
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.71
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.7
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.68
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.67
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.66
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.66
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.64
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	95.62
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.6
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.59
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.59
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.58
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.58
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.57
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	95.56
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	95.54
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	95.51
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.51
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.51
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.47
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.43
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.43
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	95.39
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.38
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.37
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.37
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	95.37
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.35
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.31
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.3
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	95.29
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.29
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	95.25
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.24
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	95.18
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	95.17
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.16

>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=99.48  E-value=4e-14  Score=80.08  Aligned_cols=46  Identities=43%  Similarity=0.740  Sum_probs=31.4

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ..+||++++|+++||||+|+.||..+.|.+.+.||+|.+|..+...
T Consensus        11 ~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~   56 (216)
T 4dkx_A           11 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMY   56 (216)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEE
T ss_pred             CCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEE
Confidence            4579999999999999999999999999999999999999877653

>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=99.28  E-value=1.3e-11  Score=67.77  Aligned_cols=51  Identities=71%  Similarity=1.169  Sum_probs=43.8

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      |+.+.+..+|++++|++++|||+|+.++..+.+...+.||++.++....+.
T Consensus         1 M~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~   51 (206)
T 2bcg_Y            1 MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVE   51 (206)
T ss_dssp             --CCCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEE
T ss_pred             CCcccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEE
Confidence            776678899999999999999999999999999999999999888765543

>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=99.27  E-value=2.2e-11  Score=65.58  Aligned_cols=51  Identities=47%  Similarity=0.798  Sum_probs=44.3

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      |+.+.+..+|++++|++++|||+|++++..+.+...+.+|++.++......
T Consensus         3 m~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~   53 (186)
T 2bme_A            3 MSETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIIN   53 (186)
T ss_dssp             -CCCCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEE
T ss_pred             cccccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEE
Confidence            667777899999999999999999999999999988999999888766543

>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=99.27  E-value=3e-12  Score=69.00  Aligned_cols=51  Identities=57%  Similarity=1.052  Sum_probs=28.4

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      |+++.++.+|++++|++++|||+|+.++..+.+...+.||++.++....+.
T Consensus         1 M~~~~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~   51 (183)
T 2fu5_C            1 MAKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIE   51 (183)
T ss_dssp             --CCCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEE
T ss_pred             CCcccCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEE
Confidence            777778899999999999999999999999999888899999888766543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.27  E-value=2e-11  Score=65.25  Aligned_cols=51  Identities=63%  Similarity=0.990  Sum_probs=39.9

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      |+.+.+..+|++++|++++|||+|++++..+.+...+.++++.++......
T Consensus         2 m~~~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~   52 (181)
T 3tw8_B            2 MARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVE   52 (181)
T ss_dssp             ----CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEE
T ss_pred             CccccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEE
Confidence            667778899999999999999999999999999988999999888766553

>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=99.26  E-value=8.6e-12  Score=66.71  Aligned_cols=50  Identities=38%  Similarity=0.757  Sum_probs=37.4

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      |+.+....++++++|++++|||+|+.++..+.+...+.||++.++....+
T Consensus         1 Ms~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~   50 (182)
T 1ky3_A            1 MSSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEV   50 (182)
T ss_dssp             ------CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEE
T ss_pred             CCcccCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEE
Confidence            77777789999999999999999999999999998899999988876654

>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=99.25  E-value=2.5e-11  Score=66.44  Aligned_cols=51  Identities=31%  Similarity=0.699  Sum_probs=41.0

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      |+.+....++++++|++++|||+|+.++..+.+...+.+|++.++....+.
T Consensus         1 M~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~   51 (207)
T 1vg8_A            1 MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVM   51 (207)
T ss_dssp             ------CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEE
T ss_pred             CCcccCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEE
Confidence            677778899999999999999999999999999989999999888766543

>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=99.23  E-value=4.6e-11  Score=64.66  Aligned_cols=51  Identities=45%  Similarity=0.685  Sum_probs=43.5

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      |+.+....+|++++|++++|||+|+.++..+.+...+.+|++.++....+.
T Consensus         8 ~~~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~   58 (195)
T 1x3s_A            8 MDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTIS   58 (195)
T ss_dssp             -CTTEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEE
T ss_pred             cccCCCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEE
Confidence            455566789999999999999999999999999988999999888766543

>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=99.23  E-value=4.3e-11  Score=64.44  Aligned_cols=46  Identities=46%  Similarity=0.964  Sum_probs=39.6

Q ss_pred             CCC-ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            1 MSN-EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         1 m~~-~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      |+. +.+..+|++++|++++|||+|++++..+.+...+.+|++.++.
T Consensus         3 m~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~   49 (195)
T 3bc1_A            3 MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFR   49 (195)
T ss_dssp             ---CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE
T ss_pred             CcccccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeee
Confidence            443 4567899999999999999999999999998889999999887

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.20  E-value=8.5e-11  Score=63.71  Aligned_cols=50  Identities=76%  Similarity=1.186  Sum_probs=43.0

Q ss_pred             CCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            2 SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         2 ~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +.+....+|++++|++++|||+|++++..+.+...+.++++.++......
T Consensus        10 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~   59 (196)
T 3tkl_A           10 NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIE   59 (196)
T ss_dssp             -CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEE
T ss_pred             CcccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEE
Confidence            34556789999999999999999999999999999999999888766553

>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=99.19  E-value=3.9e-11  Score=66.58  Aligned_cols=46  Identities=30%  Similarity=0.597  Sum_probs=37.6

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      |+......+|++++|++++|||+|++++..+.|...+.||++.++.
T Consensus        21 m~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~   66 (205)
T 1gwn_A           21 MDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT   66 (205)
T ss_dssp             ------CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE
T ss_pred             CCcccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEE
Confidence            5566677899999999999999999999999999989999998774

>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=99.19  E-value=6.4e-11  Score=64.61  Aligned_cols=49  Identities=31%  Similarity=0.509  Sum_probs=40.9

Q ss_pred             CCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            2 SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         2 ~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ....+..+|++++|++++|||+|++++..+.+...+.||+|.++.....
T Consensus        17 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~   65 (192)
T 2fg5_A           17 RGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTV   65 (192)
T ss_dssp             ----CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEE
T ss_pred             ccccCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEE
Confidence            4455678999999999999999999999999988899999988876654

>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=99.19  E-value=1.2e-10  Score=63.34  Aligned_cols=49  Identities=39%  Similarity=0.796  Sum_probs=42.5

Q ss_pred             CccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            3 NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         3 ~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ++.+..+|++++|++++|||+|++++..+.+...+.+|+|.++..+...
T Consensus        20 ~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~   68 (193)
T 2oil_A           20 EDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVM   68 (193)
T ss_dssp             CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEE
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEE
Confidence            3456689999999999999999999999999988899999888766543

>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=99.18  E-value=1.1e-10  Score=63.90  Aligned_cols=48  Identities=56%  Similarity=0.825  Sum_probs=41.8

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +.+..++++++|++|+|||||++++....++..+.||++.++....+.
T Consensus        25 ~~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~   72 (191)
T 1oix_A           25 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQ   72 (191)
T ss_dssp             CCSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEE
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEE
Confidence            345679999999999999999999999999988999999888765543

>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=99.17  E-value=9.7e-11  Score=64.72  Aligned_cols=49  Identities=45%  Similarity=0.938  Sum_probs=42.9

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      +++..+|++++|++++|||+|++++..+.+...+.+|++.++..+.+.+
T Consensus        21 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~   69 (217)
T 2f7s_A           21 DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVY   69 (217)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEE
T ss_pred             CcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEE
Confidence            4567899999999999999999999999998889999999987765543

>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=99.17  E-value=1.1e-10  Score=64.67  Aligned_cols=48  Identities=44%  Similarity=0.833  Sum_probs=42.2

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +++..+|++++|++++|||+|++++..+.+...+.+|++.++......
T Consensus        22 ~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~   69 (201)
T 2ew1_A           22 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVE   69 (201)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEE
T ss_pred             ccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEE
Confidence            345689999999999999999999999999988999999998766543

>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=99.17  E-value=1.2e-10  Score=62.05  Aligned_cols=48  Identities=42%  Similarity=0.806  Sum_probs=41.4

Q ss_pred             CccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            3 NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         3 ~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      .+....+|++++|++++|||+|++++..+.+...+.+|++.++.....
T Consensus        10 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~   57 (179)
T 1z0f_A           10 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRII   57 (179)
T ss_dssp             -CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEE
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEE
Confidence            345568999999999999999999999999998899999988766654

>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=99.16  E-value=2e-10  Score=62.78  Aligned_cols=48  Identities=48%  Similarity=0.978  Sum_probs=42.0

Q ss_pred             CccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            3 NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         3 ~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ...++.+|++++|++++|||+|+.++..+.+...+.+|+|.++.....
T Consensus         3 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~   50 (203)
T 1zbd_A            3 HMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTI   50 (203)
T ss_dssp             CSCSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEE
T ss_pred             cccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEE
Confidence            345678999999999999999999999999988899999988876554

>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=99.16  E-value=1.1e-10  Score=61.69  Aligned_cols=46  Identities=30%  Similarity=0.648  Sum_probs=40.5

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +..+|++++|++++|||+|++++..+.+...+.||++.++......
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~   48 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQ   48 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEE
Confidence            4679999999999999999999999999989999999888766553

>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=99.16  E-value=1.5e-10  Score=61.33  Aligned_cols=47  Identities=34%  Similarity=0.715  Sum_probs=41.0

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ....+|++++|++++|||+|++++..+.+...+.||++.++......
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~   49 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLN   49 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEE
Confidence            45689999999999999999999999999988999999888765543

>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=99.15  E-value=1.6e-10  Score=61.71  Aligned_cols=47  Identities=36%  Similarity=0.648  Sum_probs=37.6

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ....++++++|++++|||+|++++..+.+...+.||++.++......
T Consensus         4 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~   50 (177)
T 1wms_A            4 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLE   50 (177)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEE
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEE
Confidence            45679999999999999999999999999988999999888665543

>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=99.15  E-value=1.6e-10  Score=61.69  Aligned_cols=46  Identities=30%  Similarity=0.501  Sum_probs=40.1

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      |.......++++++|++++|||+|++++..+.+...+.+|++.++.
T Consensus         2 m~~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~   47 (181)
T 2fn4_A            2 MDPPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT   47 (181)
T ss_dssp             --CCSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE
T ss_pred             CCCCCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE
Confidence            5555667899999999999999999999999999999999998875

>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=99.13  E-value=2.8e-10  Score=61.73  Aligned_cols=46  Identities=54%  Similarity=0.999  Sum_probs=40.7

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      .++.+|++++|++++|||+|++++..+.+...+.+|+|.++.....
T Consensus        19 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~   64 (189)
T 2gf9_A           19 SDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTV   64 (189)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEE
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEE
Confidence            4568999999999999999999999999988889999988876544

>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=99.13  E-value=2.7e-10  Score=60.25  Aligned_cols=47  Identities=34%  Similarity=0.540  Sum_probs=41.2

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ....+|++++|++++|||+|++++..+.+...+.|++|.++......
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~   49 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQ   49 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEE
Confidence            45679999999999999999999999999888999999888765543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.13  E-value=1.8e-10  Score=62.16  Aligned_cols=46  Identities=35%  Similarity=0.615  Sum_probs=41.2

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ...+|++++|++++|||+|+.++....+...+.+|++.++......
T Consensus         5 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~   50 (208)
T 3clv_A            5 KSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVN   50 (208)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEE
Confidence            4579999999999999999999999999999999999988776554

>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=99.13  E-value=1.2e-10  Score=64.15  Aligned_cols=47  Identities=49%  Similarity=0.879  Sum_probs=32.2

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .+..+|++++|++++|||+|+.++..+.|...+.+|++.++....+.
T Consensus        26 ~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~   72 (201)
T 2hup_A           26 YDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLE   72 (201)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEE
T ss_pred             cccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEE
Confidence            45679999999999999999999999999888999999888766554

>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=99.13  E-value=2.9e-10  Score=60.05  Aligned_cols=46  Identities=41%  Similarity=0.639  Sum_probs=40.7

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ....+|++++|++++|||+|+.++..+.+...+.++++.++.....
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~   48 (170)
T 1r2q_A            3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV   48 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEE
Confidence            4568999999999999999999999999998889999988866554

>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=99.13  E-value=2.3e-10  Score=62.32  Aligned_cols=42  Identities=21%  Similarity=0.457  Sum_probs=37.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ...+|++++|++++|||+|+.++..+.|...+.||++.++..
T Consensus        19 ~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~   60 (187)
T 3c5c_A           19 PLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSS   60 (187)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEE
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceeeE
Confidence            457999999999999999999999999999999999988744

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.12  E-value=5.2e-11  Score=63.67  Aligned_cols=47  Identities=30%  Similarity=0.504  Sum_probs=41.0

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ....+|++++|++++|||+|+.++..+.+...+.||+|.++......
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~   49 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRIT   49 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEE
Confidence            34679999999999999999999999999888889999888766554

>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=99.12  E-value=3.8e-11  Score=65.39  Aligned_cols=50  Identities=46%  Similarity=0.959  Sum_probs=43.3

Q ss_pred             CCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            2 SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         2 ~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +.+.++.+|++++|++++|||+|++++..+.+...+.+|++.++......
T Consensus        17 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~   66 (191)
T 3dz8_A           17 QGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVY   66 (191)
T ss_dssp             TTEEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEE
T ss_pred             ccccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEE
Confidence            34567789999999999999999999999999888999999888766553

>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=99.12  E-value=2.1e-10  Score=62.41  Aligned_cols=48  Identities=46%  Similarity=0.730  Sum_probs=37.2

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +....+|++++|++++|||+|+.++..+.+...+.+|++.++......
T Consensus        17 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~   64 (191)
T 2a5j_A           17 RGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVN   64 (191)
T ss_dssp             TTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEE
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEE
Confidence            345689999999999999999999999999888889999888765543

>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=99.11  E-value=3.6e-10  Score=59.68  Aligned_cols=45  Identities=33%  Similarity=0.649  Sum_probs=39.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ..+|++++|++++|||+|+.++..+.+...+.|+++.++......
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~   46 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVT   46 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEE
Confidence            368999999999999999999999999988999999888665543

>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=99.11  E-value=3.5e-10  Score=60.82  Aligned_cols=44  Identities=36%  Similarity=0.616  Sum_probs=38.8

Q ss_pred             CccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            3 NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         3 ~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ......+|++++|++++|||+|++++..+.+...+.+|++.++.
T Consensus        13 ~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~   56 (183)
T 3kkq_A           13 SENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSYL   56 (183)
T ss_dssp             -CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE
T ss_pred             ccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceeE
Confidence            33456899999999999999999999999999999999998773

>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=99.11  E-value=3.4e-10  Score=60.29  Aligned_cols=46  Identities=43%  Similarity=0.740  Sum_probs=40.6

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ...+|++++|++++|||+|++++..+.+...+.++++.++......
T Consensus        12 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~   57 (179)
T 2y8e_A           12 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMY   57 (179)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEE
Confidence            4569999999999999999999999999988999999888766543

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.10  E-value=2.2e-10  Score=62.55  Aligned_cols=48  Identities=35%  Similarity=0.675  Sum_probs=34.7

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .....+|++++|++++|||+|++++..+.+...+.+|++.++....+.
T Consensus        22 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~   69 (192)
T 2il1_A           22 PADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVE   69 (192)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEE
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEE
Confidence            345689999999999999999999999999888899999888766554

>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=99.09  E-value=3.4e-10  Score=61.42  Aligned_cols=46  Identities=43%  Similarity=0.746  Sum_probs=40.2

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ...+|++++|++++|||+|++++..+.+...+.+|++.++....+.
T Consensus        18 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~   63 (189)
T 1z06_A           18 SRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVD   63 (189)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEE
Confidence            4579999999999999999999999999988999999888766543

>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=99.09  E-value=2.5e-10  Score=61.18  Aligned_cols=40  Identities=30%  Similarity=0.365  Sum_probs=35.6

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ...+|++++|++++|||+|+.++..+.|.. +.||++..+.
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~~   44 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQYK   44 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeEE
Confidence            467999999999999999999999999986 7899986663

>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=99.09  E-value=3.9e-10  Score=61.84  Aligned_cols=46  Identities=54%  Similarity=0.779  Sum_probs=37.5

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ++.++++++|++|+|||||++++.+..+...+.||+|.++....+.
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~   48 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQ   48 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEE
Confidence            4579999999999999999999999999888899999887665543

>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=99.09  E-value=4.2e-10  Score=60.22  Aligned_cols=47  Identities=43%  Similarity=0.593  Sum_probs=40.6

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ....+|++++|++++|||+|+.++..+.+...+.+|++.++......
T Consensus         9 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~   55 (181)
T 2efe_B            9 KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLA   55 (181)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEE
T ss_pred             CccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEE
Confidence            45679999999999999999999999999988889999888765543

>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=99.08  E-value=2.8e-10  Score=61.59  Aligned_cols=42  Identities=31%  Similarity=0.615  Sum_probs=37.3

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ....+|++++|++++|||+|++++..+.|...+.||++.++.
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~   45 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT   45 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEE
Confidence            456899999999999999999999999999889999998774

>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=99.08  E-value=2.3e-10  Score=62.87  Aligned_cols=47  Identities=43%  Similarity=0.729  Sum_probs=30.3

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .+..+|++++|++++|||+|++++..+.+...+.+|++.++......
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~   68 (200)
T 2o52_A           22 SDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVN   68 (200)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEE
Confidence            45689999999999999999999999999888999999888766543

>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=99.08  E-value=3.8e-10  Score=62.78  Aligned_cols=41  Identities=32%  Similarity=0.574  Sum_probs=37.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ...+|++++|++++|||+|+.++..+.|...+.||++.++.
T Consensus        25 ~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~~   65 (214)
T 3q3j_B           25 VARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT   65 (214)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeEE
Confidence            45799999999999999999999999999999999998875

>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=99.07  E-value=6.3e-10  Score=60.54  Aligned_cols=44  Identities=32%  Similarity=0.647  Sum_probs=39.0

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ....+|++++|++++|||+|++++..+.+...+.||++.++...
T Consensus        20 ~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~   63 (194)
T 3reg_A           20 GKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHV   63 (194)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEE
T ss_pred             cceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeEEE
Confidence            34579999999999999999999999999999999999887653

>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=99.06  E-value=3.1e-10  Score=60.03  Aligned_cols=45  Identities=53%  Similarity=0.921  Sum_probs=33.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ..+|++++|++++|||+|++++..+.+...+.||++.++......
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~   46 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVD   46 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEE
Confidence            468999999999999999999999999888999999888766543

>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=99.06  E-value=3e-10  Score=62.18  Aligned_cols=45  Identities=33%  Similarity=0.654  Sum_probs=29.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ...+|++++|++++|||+|+.++..+.+...+.+|+|.++.....
T Consensus        26 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~   70 (199)
T 2p5s_A           26 QKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTL   70 (199)
T ss_dssp             --CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEE
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEE
Confidence            457999999999999999999999999988889999988766554

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.06  E-value=4.9e-10  Score=62.43  Aligned_cols=46  Identities=50%  Similarity=0.732  Sum_probs=35.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +..+|++++|++++|||+|+.++..+.+...+.||++.++....+.
T Consensus        11 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~   56 (223)
T 3cpj_B           11 DLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLE   56 (223)
T ss_dssp             CEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEE
T ss_pred             CeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEE
Confidence            4579999999999999999999999999988899999988776543

>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=99.04  E-value=3e-10  Score=61.66  Aligned_cols=42  Identities=26%  Similarity=0.490  Sum_probs=28.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcC--cCCCcccCCeeeeEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADD--SYVDSYISTIGVDFVSLS   49 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~--~~~~~~~~tig~~~~~~~   49 (57)
                      .+|++++|++|+|||||++++...  .+...+.||+|.++....
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~   45 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWP   45 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEee
Confidence            479999999999999999999984  677778899999887654

>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=99.03  E-value=1.4e-09  Score=58.12  Aligned_cols=46  Identities=50%  Similarity=0.998  Sum_probs=39.4

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCC-CcccCCeeeeEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDFVSLS   49 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~-~~~~~tig~~~~~~~   49 (57)
                      .++..+|++++|++++|||+|+.++..+.+. ..+.||++.++....
T Consensus         6 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~   52 (180)
T 2g6b_A            6 FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKV   52 (180)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEE
T ss_pred             cCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEE
Confidence            3466899999999999999999999999885 567899998887654

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.03  E-value=6.3e-10  Score=61.24  Aligned_cols=41  Identities=29%  Similarity=0.677  Sum_probs=37.4

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ...+|++++|++++|||+|+.++..+.|...+.||++.++.
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~   47 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS   47 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeEE
Confidence            46799999999999999999999999999899999997764

>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=99.02  E-value=7.1e-10  Score=60.24  Aligned_cols=42  Identities=21%  Similarity=0.365  Sum_probs=37.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ...+|++++|++++|||+|++++..+.+...+.||++.++..
T Consensus        20 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~   61 (188)
T 1zd9_A           20 KEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK   61 (188)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE
Confidence            357999999999999999999999999988889999988754

>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=99.01  E-value=1e-09  Score=60.13  Aligned_cols=46  Identities=54%  Similarity=0.935  Sum_probs=39.6

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ...++++++|++++|||+|+.++....+...+.+|++.++....+.
T Consensus        18 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~   63 (213)
T 3cph_A           18 DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVD   63 (213)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEE
Confidence            4579999999999999999999999999888999999888766543

>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=99.00  E-value=1.1e-09  Score=57.67  Aligned_cols=39  Identities=33%  Similarity=0.634  Sum_probs=36.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      .+|++++|++++|||+|++++..+.+...+.||++.++.
T Consensus         3 ~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~   41 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR   41 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEE
Confidence            589999999999999999999999999899999997765

>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=99.00  E-value=1.1e-09  Score=59.43  Aligned_cols=41  Identities=32%  Similarity=0.801  Sum_probs=37.4

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ...+|++++|++++|||+|+.++..+.|...+.||++.++.
T Consensus        16 ~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~   56 (194)
T 2atx_A           16 ALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYA   56 (194)
T ss_dssp             EEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeE
Confidence            46799999999999999999999999999999999987764

>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=99.00  E-value=1.6e-09  Score=58.05  Aligned_cols=40  Identities=40%  Similarity=0.602  Sum_probs=37.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...+|++++|++++|||+|+.++..+.+...+.||.+.++
T Consensus         4 ~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~   43 (181)
T 3t5g_A            4 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF   43 (181)
T ss_dssp             EEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE
Confidence            3579999999999999999999999999999999999877

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=98.99  E-value=9.4e-11  Score=64.24  Aligned_cols=50  Identities=76%  Similarity=1.186  Sum_probs=42.5

Q ss_pred             CCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            2 SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         2 ~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +...+..+|++++|++++|||+|++++..+.+...+.++++.++....+.
T Consensus        27 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~   76 (199)
T 3l0i_B           27 NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIE   76 (199)
T ss_dssp             -CCCSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEE
T ss_pred             CcccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEE
Confidence            44456789999999999999999999999999988889999888766553

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=98.99  E-value=7.8e-10  Score=60.01  Aligned_cols=42  Identities=12%  Similarity=0.231  Sum_probs=33.5

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCC-cccCCeeeeEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVD-SYISTIGVDFV   46 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~-~~~~tig~~~~   46 (57)
                      ....+|++++|++++|||+|+.++..+.+.. .+.||+|....
T Consensus        14 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~   56 (199)
T 4bas_A           14 SKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNVE   56 (199)
T ss_dssp             --CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEEE
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeEE
Confidence            4568999999999999999999999999988 88999995544

>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=98.99  E-value=1.9e-09  Score=57.66  Aligned_cols=43  Identities=33%  Similarity=0.534  Sum_probs=37.2

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ....+|++++|++++|||+|++++..+.+...+.+|.+.++..
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~   57 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRK   57 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEEEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEEEE
Confidence            3457999999999999999999999999998899999877744

>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=98.98  E-value=2.2e-09  Score=57.47  Aligned_cols=41  Identities=29%  Similarity=0.683  Sum_probs=36.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ...+|++++|++++|||+|+.++..+.+...+.+|++..+.
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~   43 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS   43 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCcccceeE
Confidence            35799999999999999999999999999889999987664

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=98.98  E-value=1.2e-09  Score=59.65  Aligned_cols=43  Identities=30%  Similarity=0.516  Sum_probs=29.3

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ....+|++++|++++|||+|+.++..+.|...+.||++.++..
T Consensus        17 ~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~   59 (201)
T 2q3h_A           17 EGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSA   59 (201)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEEEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEE
Confidence            3457999999999999999999999999998999999877643

>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=98.97  E-value=2.1e-09  Score=58.62  Aligned_cols=42  Identities=29%  Similarity=0.489  Sum_probs=37.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ...+|++++|++++|||+|+.++..+.+...+.||++.++..
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~   67 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRH   67 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceEEE
Confidence            457999999999999999999999999998999999977743

>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=98.97  E-value=2.6e-09  Score=58.21  Aligned_cols=42  Identities=33%  Similarity=0.562  Sum_probs=37.5

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ...++++++|++++|||+|+.++..+.+...+.+|.+..+..
T Consensus        12 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~   53 (206)
T 2bov_A           12 LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRK   53 (206)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEE
Confidence            347899999999999999999999999998999999977643

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=98.97  E-value=3.1e-09  Score=56.11  Aligned_cols=41  Identities=32%  Similarity=0.630  Sum_probs=36.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ..+|++++|++++|||+|++++..+.+...+.||++.++..
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~   42 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQ   42 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEEE
Confidence            36899999999999999999999999988889999877653

>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=98.96  E-value=3e-09  Score=57.87  Aligned_cols=40  Identities=30%  Similarity=0.438  Sum_probs=35.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ...+|++++|++++|||+|+.++..+.|...+.||.+ +|.
T Consensus        18 ~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~~-~~~   57 (184)
T 3ihw_A           18 GPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEGG-RFK   57 (184)
T ss_dssp             CCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTCE-EEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCcc-eEE
Confidence            4589999999999999999999999999988889854 454

>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=98.96  E-value=4.4e-10  Score=60.19  Aligned_cols=42  Identities=29%  Similarity=0.676  Sum_probs=27.7

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ....+|++++|++++|||+|+.++..+.+...+.||++.++.
T Consensus         5 ~~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~   46 (182)
T 3bwd_D            5 ASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS   46 (182)
T ss_dssp             --CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE
Confidence            345799999999999999999999999999888999986654

>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=98.96  E-value=3.3e-09  Score=55.73  Aligned_cols=41  Identities=34%  Similarity=0.608  Sum_probs=36.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ..+|++++|++++|||+|++++..+.+...+.+|.+.++..
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~   43 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRK   43 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEEEE
Confidence            46899999999999999999999999988899999877754

>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=98.96  E-value=3.5e-09  Score=55.57  Aligned_cols=38  Identities=29%  Similarity=0.623  Sum_probs=34.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      .+|++++|++++|||+|+.++..+.+...+.+|++..+
T Consensus         3 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~   40 (167)
T 1kao_A            3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY   40 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeE
Confidence            58999999999999999999999999988899988655

>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=98.95  E-value=5.8e-10  Score=61.89  Aligned_cols=46  Identities=30%  Similarity=0.573  Sum_probs=40.5

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ....+|++++|++++|||||++++..+.+...+.+|+|.++.....
T Consensus        12 ~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~   57 (221)
T 3gj0_A           12 PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVF   57 (221)
T ss_dssp             CCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEE
Confidence            4568999999999999999999999999988889999988776654

>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=98.94  E-value=2.2e-09  Score=60.24  Aligned_cols=45  Identities=29%  Similarity=0.376  Sum_probs=32.4

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcC--cCCCcccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADD--SYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~--~~~~~~~~tig~~~~~~~~   50 (57)
                      ....+|++++|+++||||||+++|...  .|...+ +++|.++..+.+
T Consensus        34 ~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i   80 (211)
T 2g3y_A           34 GNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTL   80 (211)
T ss_dssp             -CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEE
Confidence            456799999999999999999999964  344443 567777765544

>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=98.94  E-value=1.2e-09  Score=60.09  Aligned_cols=46  Identities=28%  Similarity=0.243  Sum_probs=34.1

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ....+|++++|+++||||||++++....+...+.|+.+.++.....
T Consensus        20 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~   65 (195)
T 3cbq_A           20 KDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRI   65 (195)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEE
T ss_pred             CCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEE
Confidence            3567999999999999999999997655544455667766655543

>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=98.93  E-value=3.5e-09  Score=57.38  Aligned_cols=42  Identities=33%  Similarity=0.661  Sum_probs=37.2

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ...++++++|++++|||+|++++..+.+...+.||++..+..
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~   47 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYRQ   47 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEEE
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccceeE
Confidence            456999999999999999999999999988889999876653

>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=98.93  E-value=2.7e-09  Score=58.50  Aligned_cols=43  Identities=30%  Similarity=0.687  Sum_probs=38.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ...+|++++|++++|||+|+.++..+.+...+.||++.++...
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~   65 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIAD   65 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEEEE
Confidence            3578999999999999999999999999988999999887543

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=98.92  E-value=3.2e-09  Score=58.18  Aligned_cols=40  Identities=23%  Similarity=0.458  Sum_probs=36.6

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...+|++++|++++|||+|++++..+.+...+.+|++.++
T Consensus        22 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~   61 (201)
T 3oes_A           22 VRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY   61 (201)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE
T ss_pred             CCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE
Confidence            3579999999999999999999999999999999999777

>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=98.92  E-value=5.8e-09  Score=56.35  Aligned_cols=41  Identities=32%  Similarity=0.566  Sum_probs=36.6

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ...++++++|++++|||||+.++..+.+...+.+|.+..+.
T Consensus        19 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~   59 (190)
T 3con_A           19 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR   59 (190)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEEE
T ss_pred             cceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEEE
Confidence            45799999999999999999999999998888898887664

>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=98.90  E-value=3.9e-09  Score=58.52  Aligned_cols=41  Identities=34%  Similarity=0.630  Sum_probs=30.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ..+|++++|++++|||+|+.++..+.+...+.||++.++..
T Consensus        33 ~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~   73 (214)
T 2j1l_A           33 RSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMV   73 (214)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEEEE
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeEEE
Confidence            46999999999999999999999999988889999877643

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=98.90  E-value=4e-10  Score=61.41  Aligned_cols=46  Identities=28%  Similarity=0.524  Sum_probs=10.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcC--cCCCcccCCeeeeEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADD--SYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~--~~~~~~~~tig~~~~~~~~~   51 (57)
                      ...++++++|++++|||+|+.++..+  .+...+.+|++.++....+.
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~   65 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVT   65 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEE
Confidence            35789999999999999999999998  88888999999887665543

>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=98.90  E-value=7.8e-09  Score=55.45  Aligned_cols=40  Identities=33%  Similarity=0.606  Sum_probs=35.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ..+|++++|++++|||+|++++..+.+...+.+|.+..+.
T Consensus         3 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~   42 (189)
T 4dsu_A            3 TEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR   42 (189)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCCEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCchheEE
Confidence            5799999999999999999999999998888898875544

>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=98.89  E-value=4.6e-09  Score=57.82  Aligned_cols=43  Identities=33%  Similarity=0.661  Sum_probs=31.7

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ...+|++++|++++|||+|+.++..+.+...+.||++.++...
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~   65 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVAD   65 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEEEE
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEEEE
Confidence            3478999999999999999999999999988899999877543

>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=98.88  E-value=2.1e-09  Score=57.96  Aligned_cols=43  Identities=23%  Similarity=0.328  Sum_probs=33.7

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCc-----------ccCCeeeeEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDS-----------YISTIGVDFVSL   48 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~-----------~~~tig~~~~~~   48 (57)
                      ....+|++++|++++|||+|+ +++.+.+...           +.||+|.++...
T Consensus        11 ~~~~~ki~vvG~~~~GKssL~-~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~   64 (198)
T 3t1o_A           11 REINFKIVYYGPGLSGKTTNL-KWIYSKVPEGRKGEMVSLATEDERTLFFDFLPL   64 (198)
T ss_dssp             TEEEEEEEEECSTTSSHHHHH-HHHHHTSCGGGBCCCEEEECSSCEEEEEEECCS
T ss_pred             cccccEEEEECCCCCCHHHHH-HHHHhhccccccccccccccccccceeeeeccc
Confidence            356899999999999999999 6777777666           346888776543

>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=98.87  E-value=6e-09  Score=55.30  Aligned_cols=43  Identities=30%  Similarity=0.467  Sum_probs=31.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ..+|++++|++++|||+|++++..+.+... .++.|.++.....
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~-~~~~~~~~~~~~~   45 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDL-HEQLGEDVYERTL   45 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC------CCCSSSSEEEEEE
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCccc-cCccccceeEEEE
Confidence            568999999999999999999999888654 3567777655543

>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=98.87  E-value=8.7e-09  Score=53.89  Aligned_cols=39  Identities=31%  Similarity=0.566  Sum_probs=35.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      .+|++++|++++|||+|++++..+.+...+.+|.+..+.
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~   41 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYR   41 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEEE
Confidence            589999999999999999999999998888899886653

>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=98.87  E-value=2.9e-09  Score=58.77  Aligned_cols=46  Identities=28%  Similarity=0.489  Sum_probs=38.9

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ....+|++++|++++|||+|++++..+.+...+.+|++.++.....
T Consensus         8 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~   53 (218)
T 4djt_A            8 RELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTF   53 (218)
T ss_dssp             --CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEE
T ss_pred             ccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEE
Confidence            3457999999999999999999999999988888999977765543

>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=98.85  E-value=7.4e-09  Score=57.02  Aligned_cols=41  Identities=29%  Similarity=0.690  Sum_probs=34.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ...+|++++|++++|||+|+.++..+.+...+.+|++..+.
T Consensus        28 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~   68 (204)
T 4gzl_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS   68 (204)
T ss_dssp             --CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEEEEE
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeecceeE
Confidence            45799999999999999999999999999999999986554

>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=98.85  E-value=8.9e-09  Score=55.45  Aligned_cols=39  Identities=28%  Similarity=0.611  Sum_probs=33.7

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...++++++|++++|||+|++++..+. ...+.||++...
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~~   54 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFNI   54 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccce
Confidence            457999999999999999999999888 677889998554

>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=98.83  E-value=7.8e-09  Score=56.64  Aligned_cols=44  Identities=32%  Similarity=0.437  Sum_probs=31.4

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc--CcCCCcccCCeeeeEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD--DSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~--~~~~~~~~~tig~~~~~~~~   50 (57)
                      ...+|++++|+++||||||++++.+  ..|...+ +++|.++..+.+
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~   49 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTL   49 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEE
Confidence            3569999999999999999999995  3445443 457777765543

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=98.83  E-value=4.7e-09  Score=55.94  Aligned_cols=43  Identities=14%  Similarity=0.135  Sum_probs=35.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ...++++++|++++|||+|+.++..+.+...+.++++.++...
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~   48 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAY   48 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEE
Confidence            4578999999999999999999999999887777776555443

>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=98.82  E-value=1.4e-08  Score=53.68  Aligned_cols=39  Identities=28%  Similarity=0.489  Sum_probs=33.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ..++++++|++++|||+|+.++..+.+. .+.||++....
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~~   44 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIGFNVE   44 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSSEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCccceE
Confidence            4689999999999999999999998886 46789886543

>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=98.80  E-value=9e-09  Score=55.76  Aligned_cols=39  Identities=18%  Similarity=0.344  Sum_probs=33.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCc-CCCcccCCeeee
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDS-YVDSYISTIGVD   44 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~-~~~~~~~tig~~   44 (57)
                      ...+|++++|++++|||+|++++..+. +...+.+|++..
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~~~   58 (190)
T 2h57_A           19 SKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIGFS   58 (190)
T ss_dssp             --CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSSEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCcccee
Confidence            457999999999999999999999988 677788999844

>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=98.80  E-value=1.4e-08  Score=53.72  Aligned_cols=43  Identities=28%  Similarity=0.264  Sum_probs=26.5

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      .+|++++|++++|||+|+.++....+...+.++.+.++.....
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~   44 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRI   44 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEE
Confidence            5899999999999999999999877776666666666655543

>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=98.79  E-value=4.1e-09  Score=56.83  Aligned_cols=40  Identities=23%  Similarity=0.379  Sum_probs=33.7

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ...+|++++|++++|||+|++++..+++ ..+.+|+|..+.
T Consensus        19 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~~   58 (181)
T 2h17_A           19 SQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVE   58 (181)
T ss_dssp             --CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSCE
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceeeE
Confidence            4579999999999999999999999988 567889886543

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=98.79  E-value=1.7e-08  Score=54.31  Aligned_cols=44  Identities=18%  Similarity=0.237  Sum_probs=35.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ..++++++|++|+|||||++++....+.....|++..++....+
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~   49 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEF   49 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEE
Confidence            56899999999999999999999877766666776666554443

>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=98.78  E-value=3.8e-09  Score=60.44  Aligned_cols=42  Identities=31%  Similarity=0.540  Sum_probs=35.0

Q ss_pred             cceeeeEEEECCC---------CCchHHHHHHhhc---CcCCCcccCCe-eeeEE
Q 035406            5 YDYLFKLLLIGDS---------SVGKSCLLLRFAD---DSYVDSYISTI-GVDFV   46 (57)
Q Consensus         5 ~~~~~ki~viG~~---------~vGKtsl~~~~~~---~~~~~~~~~ti-g~~~~   46 (57)
                      ....+|++++|++         +||||||++++..   +.|...+.||+ +.+|.
T Consensus        16 ~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~   70 (255)
T 3c5h_A           16 FQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFG   70 (255)
T ss_dssp             CCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHT
T ss_pred             CCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccc
Confidence            4567999999999         9999999999999   67777778876 55543

>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=98.78  E-value=6.9e-09  Score=56.10  Aligned_cols=39  Identities=26%  Similarity=0.457  Sum_probs=34.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...++++++|++++|||+|++++..+++. .+.||+|.+.
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~   52 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSNV   52 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSSC
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccce
Confidence            34789999999999999999999999887 6788988544

>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=98.77  E-value=1.6e-08  Score=53.89  Aligned_cols=40  Identities=20%  Similarity=0.336  Sum_probs=29.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      .++++++|++|+|||||++++....+.....|+...++..
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~   42 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKE   42 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCE
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeE
Confidence            5899999999999999999999887765556665555443

>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=98.76  E-value=1.1e-08  Score=53.94  Aligned_cols=35  Identities=29%  Similarity=0.573  Sum_probs=30.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeee
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVD   44 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~   44 (57)
                      +|++++|++++|||+|+.++..+.|.. +.||++..
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~~~   35 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFN   35 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCcee
Confidence            589999999999999999999988875 67898843

>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=98.74  E-value=6.6e-09  Score=55.68  Aligned_cols=39  Identities=23%  Similarity=0.411  Sum_probs=33.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...++++++|++++|||+|+.++..+++ ..+.||+|...
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~~   54 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFNV   54 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCCE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccce
Confidence            4579999999999999999999999888 56788988544

>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=98.73  E-value=1.8e-08  Score=55.44  Aligned_cols=41  Identities=22%  Similarity=0.271  Sum_probs=32.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ...+|++++|++++|||+|+.++..+.|...+.++ +.++..
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~-~~~~~~   45 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSI-TDSSAI   45 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCC-SCEEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccCCc-ceeeEE
Confidence            45799999999999999999999999998877654 445543

>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=98.72  E-value=1.7e-08  Score=54.60  Aligned_cols=38  Identities=29%  Similarity=0.472  Sum_probs=32.4

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeee
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVD   44 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~   44 (57)
                      ...+|++++|++++|||+|+.++..+.+. .+.||+|..
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~~-~~~~t~g~~   51 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDIS-HITPTQGFN   51 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCE-EEEEETTEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCC-cccCcCCeE
Confidence            46799999999999999999999988664 577888854

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=98.71  E-value=1.6e-08  Score=62.82  Aligned_cols=44  Identities=27%  Similarity=0.359  Sum_probs=29.4

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ....+|++++|++++|||||+.++....|...+.||+|.++.++
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            34579999999999999999999999999999999999988754

>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=98.71  E-value=8.4e-09  Score=56.35  Aligned_cols=39  Identities=26%  Similarity=0.488  Sum_probs=33.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...+|++++|++++|||+|+.++..+++.. +.||++...
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~-~~~t~~~~~   65 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFNV   65 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSSCCEE-EEEETTEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhCCccc-cCCcCceeE
Confidence            347899999999999999999999988874 578888443

>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=98.70  E-value=2.2e-08  Score=53.79  Aligned_cols=36  Identities=22%  Similarity=0.335  Sum_probs=31.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeee
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVD   44 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~   44 (57)
                      +|++++|++++|||||++++..+.+...+.|++..+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~   37 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRK   37 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCccce
Confidence            689999999999999999999999887777765433

>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=98.68  E-value=4e-08  Score=53.53  Aligned_cols=38  Identities=26%  Similarity=0.258  Sum_probs=31.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ..+|++++|++++|||+|+.++..+.+. .+.||++...
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~~   59 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTS   59 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSCEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCCCe
Confidence            4679999999999999999999998886 5678888654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=98.67  E-value=1.9e-08  Score=54.34  Aligned_cols=39  Identities=28%  Similarity=0.551  Sum_probs=33.2

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...+|++++|++++|||+|++++..+++.. +.||++...
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~~~~   58 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVGVNL   58 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTTCCE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCceEE
Confidence            457999999999999999999999888864 678888543

>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=98.66  E-value=7.5e-08  Score=55.70  Aligned_cols=41  Identities=32%  Similarity=0.732  Sum_probs=36.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ..++++++|++++|||+|+.++..+.+...+.+|++..+..
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~~~  194 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA  194 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEEEE
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCCCCcccCCcccceeEE
Confidence            45899999999999999999999999999999999877643

>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=98.65  E-value=2.7e-08  Score=54.64  Aligned_cols=39  Identities=26%  Similarity=0.266  Sum_probs=28.9

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ..+|++++|++++|||+|++++..+.+. .+.||++.+..
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~~~   62 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPTSE   62 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSCE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCceeE
Confidence            4689999999999999999999998875 46788886543

>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=98.63  E-value=2.3e-08  Score=55.12  Aligned_cols=41  Identities=24%  Similarity=0.340  Sum_probs=32.5

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCC---cccCCeeeeE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVD---SYISTIGVDF   45 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~---~~~~tig~~~   45 (57)
                      ....++++++|++|+|||+|+.++....+..   .+.|+++.++
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~   52 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY   52 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe
Confidence            3457899999999999999999999988765   3566666443

>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=98.62  E-value=4.2e-08  Score=53.02  Aligned_cols=39  Identities=26%  Similarity=0.259  Sum_probs=24.1

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ..++++++|++++|||||++++..+.|...+.++.|...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~   60 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQ   60 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC-------------C
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCcee
Confidence            468999999999999999999999987777777776443

>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=98.06  E-value=3.9e-09  Score=57.83  Aligned_cols=41  Identities=29%  Similarity=0.690  Sum_probs=36.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ...+|++++|++++|||+|+.++..+.+...+.+|++..+.
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~   68 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS   68 (204)
Confidence            34689999999999999999999999998888898886653

>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=98.61  E-value=6.5e-08  Score=50.95  Aligned_cols=38  Identities=29%  Similarity=0.408  Sum_probs=24.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      .+|++++|++++|||+|++++.+..+. ...++.+..+.
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~   39 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTYD   39 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccceE
Confidence            589999999999999999999876654 34567776553

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=98.60  E-value=3.5e-08  Score=59.20  Aligned_cols=38  Identities=21%  Similarity=0.110  Sum_probs=31.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCC---cccCCeeeeEEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVD---SYISTIGVDFVS   47 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~---~~~~tig~~~~~   47 (57)
                      |++++|++|||||+|+.++..+.++.   .+.||+|.++..
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~   41 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH   41 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE
Confidence            68999999999999999887665543   367999998864

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=98.60  E-value=1.4e-07  Score=55.28  Aligned_cols=43  Identities=30%  Similarity=0.332  Sum_probs=35.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcC--cCC-CcccCCeeeeEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADD--SYV-DSYISTIGVDFVSLS   49 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~--~~~-~~~~~tig~~~~~~~   49 (57)
                      ..+|++++|++++|||||+.++..+  .+. ..+.+|++.++....
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~~~   47 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLR   47 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEEEE
Confidence            3689999999999999999999887  443 356799998887554

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=98.59  E-value=3.7e-08  Score=53.26  Aligned_cols=39  Identities=26%  Similarity=0.331  Sum_probs=26.6

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCC---cccCCeeee
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVD---SYISTIGVD   44 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~---~~~~tig~~   44 (57)
                      ...++++++|++|+|||||+.++....+..   .+.|+++.+
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~   87 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAAD   87 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------C
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeee
Confidence            457899999999999999999999987754   344555443

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.54  E-value=3.2e-08  Score=54.89  Aligned_cols=40  Identities=20%  Similarity=0.265  Sum_probs=34.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ..++++++|++|+|||||+.++....+...+.++++.|+.
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            3589999999999999999999988777767788888764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=98.53  E-value=1.7e-07  Score=50.37  Aligned_cols=39  Identities=26%  Similarity=0.215  Sum_probs=30.4

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...++++++|++++|||||++++..+.+ ..+.++.+...
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~t~   59 (195)
T 3pqc_A           21 PLKGEVAFVGRSNVGKSSLLNALFNRKI-AFVSKTPGKTR   59 (195)
T ss_dssp             CTTCEEEEEEBTTSSHHHHHHHHHTSCC-SCCCSSCCCCC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHcCcc-ccccCCCCCcc
Confidence            3468999999999999999999998874 34456655433

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=98.52  E-value=4.8e-08  Score=57.84  Aligned_cols=41  Identities=24%  Similarity=0.489  Sum_probs=34.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ..+|++++|++++|||+|+.++..+.+... .||++.++...
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~~~~  204 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNVETV  204 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEEEEE
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEEEEE
Confidence            357999999999999999999999998765 47888776543

>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=98.51  E-value=1.8e-07  Score=53.80  Aligned_cols=43  Identities=19%  Similarity=0.148  Sum_probs=33.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ...++++++|++++|||||++++.+..+.....|.+..+....
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~   45 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEG   45 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEE
Confidence            4578999999999999999999998877555556555444433

>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=98.49  E-value=2.1e-07  Score=53.44  Aligned_cols=44  Identities=16%  Similarity=0.119  Sum_probs=36.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .+++.++|++|+|||||++++.+..+.....|++..++......
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~   46 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIME   46 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEE
Confidence            58999999999999999999999888666777777776655443

>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=98.48  E-value=8e-08  Score=52.42  Aligned_cols=39  Identities=18%  Similarity=0.141  Sum_probs=27.1

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ....+|++++|+++||||+|++++.+ .+...  +|++.++.
T Consensus        17 ~~~~~ki~~vG~~~vGKTsLi~~l~~-~~~~~--~~~~~~~~   55 (196)
T 3llu_A           17 QGSKPRILLMGLRRSGKSSIQKVVFH-KMSPN--ETLFLEST   55 (196)
T ss_dssp             ---CCEEEEEESTTSSHHHHHHHHHS-CCCGG--GGGGCCCC
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHHh-cCCCc--ceeeeccc
Confidence            45689999999999999999986655 44332  55555544

>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=98.48  E-value=3.7e-07  Score=51.33  Aligned_cols=34  Identities=18%  Similarity=0.253  Sum_probs=27.2

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYIS   39 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~   39 (57)
                      ...++++++|++|+|||||++++....+.....+
T Consensus        27 ~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~   60 (239)
T 3lxx_A           27 NSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTA   60 (239)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHTSCCSCC---
T ss_pred             CCceEEEEECCCCCCHHHHHHHHcCCCcCccCCC
Confidence            3479999999999999999999999887665544

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=98.47  E-value=3.5e-07  Score=47.80  Aligned_cols=26  Identities=31%  Similarity=0.554  Sum_probs=23.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      .|++++|++++|||+|++++..+.+.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~   27 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSA   27 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCee
Confidence            68999999999999999999988753

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=98.46  E-value=2.5e-07  Score=53.24  Aligned_cols=45  Identities=29%  Similarity=0.516  Sum_probs=29.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhh-cCcCCCcc-------cCCeeeeEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFA-DDSYVDSY-------ISTIGVDFVSLSS   50 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~-~~~~~~~~-------~~tig~~~~~~~~   50 (57)
                      ...++++++|.+|+|||||++++. .+.+...+       .+|++.++.....
T Consensus         6 g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~   58 (274)
T 3t5d_A            6 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLI   58 (274)
T ss_dssp             -CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEE
T ss_pred             ccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEE
Confidence            357999999999999999999854 55666655       6888877765543

>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=98.46  E-value=2.4e-07  Score=51.66  Aligned_cols=29  Identities=21%  Similarity=0.227  Sum_probs=26.2

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ...++++++|++++|||||++++..+.+.
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            34689999999999999999999998875

>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=98.39  E-value=9.3e-07  Score=47.48  Aligned_cols=27  Identities=30%  Similarity=0.374  Sum_probs=23.6

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..++++++|++++|||||++++....+
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~   29 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREA   29 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            357999999999999999999998764

>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=98.34  E-value=5.1e-07  Score=49.34  Aligned_cols=39  Identities=21%  Similarity=0.193  Sum_probs=23.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ...++.++|++|+|||||++++.+..+...+.|+.|..+
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~   63 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQ   63 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC-------------C
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccce
Confidence            357899999999999999999998876556667777554

>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=98.34  E-value=6.5e-07  Score=51.74  Aligned_cols=43  Identities=16%  Similarity=0.163  Sum_probs=33.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      .++++++|++++|||||++++.+..+.....|.+..+......
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~   45 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQF   45 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEE
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEE
Confidence            5899999999999999999999887765566666555554443

>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=98.32  E-value=1.5e-06  Score=49.24  Aligned_cols=34  Identities=18%  Similarity=0.267  Sum_probs=28.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCc-CCCcccCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDS-YVDSYIST   40 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~-~~~~~~~t   40 (57)
                      ..++|+++|++++|||||+.++.... +...+.|+
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~   55 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQ   55 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCC
Confidence            46899999999999999999999876 55555443

>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=98.27  E-value=1.3e-06  Score=50.26  Aligned_cols=43  Identities=19%  Similarity=0.220  Sum_probs=33.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .+++++|++++|||||++++.+..+.....|.+..+.......
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~   44 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFL   44 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEE
Confidence            4799999999999999999998877655667776666555443

>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=98.21  E-value=2.4e-06  Score=49.57  Aligned_cols=32  Identities=19%  Similarity=0.280  Sum_probs=25.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYIS   39 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~   39 (57)
                      .++++++|++++|||||++++.+..+.....|
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~p   34 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGNWP   34 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCCC
Confidence            57999999999999999999998654333334

>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=98.17  E-value=2.3e-06  Score=51.33  Aligned_cols=42  Identities=29%  Similarity=0.586  Sum_probs=27.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhh-cCcCCCccc--------CCeeeeEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFA-DDSYVDSYI--------STIGVDFVSL   48 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~-~~~~~~~~~--------~tig~~~~~~   48 (57)
                      ..++++++|++|+|||||+.++. ...+...+.        +|++.++...
T Consensus        36 ~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~   86 (361)
T 2qag_A           36 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTV   86 (361)
T ss_dssp             CEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEE
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEE
Confidence            46899999999999999999954 455554442        6777665443

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=98.15  E-value=1.7e-06  Score=47.63  Aligned_cols=27  Identities=19%  Similarity=0.236  Sum_probs=24.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..++++++|++++|||||++++....+
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~~~   54 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQKR   54 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTCSS
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCc
Confidence            468999999999999999999998874

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=98.02  E-value=1.9e-05  Score=45.14  Aligned_cols=27  Identities=22%  Similarity=0.401  Sum_probs=24.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..++++++|+.++|||||++++....+
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            579999999999999999999998774

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=97.99  E-value=7.9e-06  Score=49.80  Aligned_cols=28  Identities=32%  Similarity=0.482  Sum_probs=25.1

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ..++++++|+++||||||++++...++.
T Consensus       174 ~~~ki~lvG~~nvGKSSLin~l~~~~~~  201 (436)
T 2hjg_A          174 EVIQFCLIGRPNVGKSSLVNAMLGEERV  201 (436)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTTE
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCCCce
Confidence            4689999999999999999999988763

>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=97.98  E-value=1.6e-05  Score=48.83  Aligned_cols=28  Identities=29%  Similarity=0.536  Sum_probs=24.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ..+++.++|++|+|||||++.+.+..++
T Consensus        30 vsf~I~lvG~sGaGKSTLln~L~g~~~~   57 (418)
T 2qag_C           30 FEFTLMVVGESGLGKSTLINSLFLTDLY   57 (418)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHTTCCCC
T ss_pred             CCEEEEEECCCCCcHHHHHHHHhCCCCC
Confidence            4688999999999999999999987763

>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=97.96  E-value=1.1e-05  Score=47.40  Aligned_cols=33  Identities=27%  Similarity=0.374  Sum_probs=26.4

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      |+.. ....+++++|.+++|||||++++....+.
T Consensus         1 m~~~-~~~g~V~ivG~~nvGKSTLln~l~g~~~~   33 (301)
T 1wf3_A            1 MAEK-TYSGFVAIVGKPNVGKSTLLNNLLGVKVA   33 (301)
T ss_dssp             --CC-CEEEEEEEECSTTSSHHHHHHHHHTSCCS
T ss_pred             CCCC-ccCCEEEEECCCCCCHHHHHHHHhCCcee
Confidence            5554 34568999999999999999999988774

>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=97.95  E-value=6.6e-06  Score=48.25  Aligned_cols=30  Identities=30%  Similarity=0.578  Sum_probs=21.2

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcC-cCCCc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADD-SYVDS   36 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~-~~~~~   36 (57)
                      ..++++++|++|+|||||++++... .++.+
T Consensus        17 ~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~   47 (301)
T 2qnr_A           17 FEFTLMVVGESGLGKSTLINSLFLTDLYPER   47 (301)
T ss_dssp             -CEEEEEEEETTSSHHHHHHHHHC-------
T ss_pred             CCEEEEEECCCCCCHHHHHHHHhCCCccCCC
Confidence            4689999999999999999997654 55543

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=97.94  E-value=7.5e-06  Score=46.94  Aligned_cols=28  Identities=29%  Similarity=0.528  Sum_probs=25.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ...+++++|++++|||||++++.+..+.
T Consensus        25 ~~~~i~vvG~~~~GKSSLln~l~g~~~~   52 (299)
T 2aka_B           25 DLPQIAVVGGQSAGKSSVLENFVGRDFL   52 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSCCS
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHHCCCcC
Confidence            4579999999999999999999998874

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=97.92  E-value=9.4e-06  Score=46.51  Aligned_cols=27  Identities=22%  Similarity=0.397  Sum_probs=24.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..++++++|++|+|||||++++....+
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            479999999999999999999998775

>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=97.82  E-value=1.2e-05  Score=49.32  Aligned_cols=38  Identities=26%  Similarity=0.265  Sum_probs=24.4

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeee
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVD   44 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~   44 (57)
                      ....+++++|.++||||||++++....+. ...++.|..
T Consensus        21 m~~~~V~lvG~~nvGKSTL~n~l~~~~~~-~v~~~~g~t   58 (456)
T 4dcu_A           21 MGKPVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVT   58 (456)
T ss_dssp             --CCEEEEECSSSSSHHHHHHHHEEEEEC----------
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCc-ccCCCCCcc
Confidence            34579999999999999999999987664 233444543

>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=97.80  E-value=7.3e-05  Score=45.20  Aligned_cols=43  Identities=19%  Similarity=0.287  Sum_probs=31.6

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhc---CcCCCcccC--CeeeeEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFAD---DSYVDSYIS--TIGVDFVS   47 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~---~~~~~~~~~--tig~~~~~   47 (57)
                      ....+++.++|..++|||||+.++..   ..+.++..+  |+...|..
T Consensus         7 ~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~   54 (410)
T 1kk1_A            7 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFAD   54 (410)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeee
Confidence            35678999999999999999999983   345555555  77666554

>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=97.79  E-value=5.8e-05  Score=45.66  Aligned_cols=43  Identities=14%  Similarity=0.249  Sum_probs=28.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc---CcCCCcccC--CeeeeEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD---DSYVDSYIS--TIGVDFVSL   48 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~---~~~~~~~~~--tig~~~~~~   48 (57)
                      ...+++.++|..++|||||+.++..   ..+.++..+  |+...|...
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~   53 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADC   53 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEeccccc
Confidence            4568999999999999999999983   345555555  776666543

>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=97.78  E-value=2.7e-05  Score=47.49  Aligned_cols=25  Identities=28%  Similarity=0.518  Sum_probs=20.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+++++|.++||||||++++.....
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~   26 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKK   26 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC---
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3789999999999999999998764

>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=97.76  E-value=3.1e-05  Score=46.00  Aligned_cols=27  Identities=26%  Similarity=0.475  Sum_probs=24.3

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ..+++++|++++||||+++++.+..|.
T Consensus        34 lp~I~vvG~~~sGKSSLln~l~g~~~l   60 (360)
T 3t34_A           34 LPAIAVVGGQSSGKSSVLESIVGKDFL   60 (360)
T ss_dssp             CCEEEEECBTTSSHHHHHHHHHTSCCS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCcC
Confidence            448999999999999999999998774

>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=97.75  E-value=4e-05  Score=46.72  Aligned_cols=27  Identities=26%  Similarity=0.402  Sum_probs=24.1

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..+++.++|++|+|||||++++.+..+
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~  205 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKER  205 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTT
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcc
Confidence            358999999999999999999998754

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=97.73  E-value=1.4e-05  Score=43.96  Aligned_cols=25  Identities=20%  Similarity=0.302  Sum_probs=22.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..+++++|.+|+|||+++.++....
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999998653

>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=97.65  E-value=5.7e-05  Score=44.17  Aligned_cols=28  Identities=29%  Similarity=0.444  Sum_probs=24.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ....++.++|.+++|||||++++....+
T Consensus         6 ~r~~~VaIvG~~nvGKSTLln~L~g~~~   33 (301)
T 1ega_A            6 SYCGFIAIVGRPNVGKSTLLNKLLGQKI   33 (301)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSE
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHCCCc
Confidence            3456899999999999999999998765

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=97.63  E-value=7.3e-05  Score=43.78  Aligned_cols=30  Identities=23%  Similarity=0.237  Sum_probs=26.1

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      +...-.+.++|.+++|||||++++.+..+.
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~~~~   36 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGTKVS   36 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTSCCS
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCCCcc
Confidence            445678999999999999999999988764

>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=97.61  E-value=5.2e-05  Score=45.93  Aligned_cols=26  Identities=31%  Similarity=0.379  Sum_probs=22.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+++.++|.+++|||||++++....+
T Consensus         2 ~~kI~IVG~pnvGKSTL~n~Lt~~~~   27 (363)
T 1jal_A            2 GFKCGIVGLPNVGKSTLFNALTKAGI   27 (363)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC-
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCC
Confidence            36899999999999999999998664

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=97.61  E-value=3.1e-05  Score=47.16  Aligned_cols=35  Identities=29%  Similarity=0.354  Sum_probs=23.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeee
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGV   43 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~   43 (57)
                      ..+++++|.++||||||++++....+. ...++.|.
T Consensus         3 ~~~V~ivG~~nvGKStL~n~l~~~~~~-~v~~~~g~   37 (436)
T 2hjg_A            3 KPVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGV   37 (436)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHEEEECC---------
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCC
Confidence            368999999999999999999987663 23444554

>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=97.60  E-value=6e-05  Score=46.86  Aligned_cols=25  Identities=24%  Similarity=0.336  Sum_probs=21.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .++++++|++++|||||++++...+
T Consensus       233 ~~kV~ivG~~nvGKSSLln~L~~~~  257 (476)
T 3gee_A          233 GVSTVIAGKPNAGKSTLLNTLLGQE  257 (476)
T ss_dssp             CEEEEEECCTTSSHHHHHHHCC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            5789999999999999999999875

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=97.60  E-value=4.5e-05  Score=44.23  Aligned_cols=24  Identities=29%  Similarity=0.570  Sum_probs=21.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .|++.++|++|+|||||++.+.+.
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            588999999999999999987764

>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=97.58  E-value=5.7e-05  Score=46.24  Aligned_cols=26  Identities=31%  Similarity=0.498  Sum_probs=23.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..++++++|++++|||||++++...+
T Consensus       194 ~~~ki~ivG~~~vGKSslin~l~~~~  219 (456)
T 4dcu_A          194 EVIQFCLIGRPNVGKSSLVNAMLGEE  219 (456)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             ccceeEEecCCCCCHHHHHHHHhCCC
Confidence            46899999999999999999999764

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=97.56  E-value=2.4e-05  Score=48.03  Aligned_cols=28  Identities=18%  Similarity=0.357  Sum_probs=23.2

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ...++++++|+.++|||||++++....+
T Consensus        32 ~~~~kI~IvG~~~vGKSTLin~L~~~~~   59 (423)
T 3qq5_A           32 GFRRYIVVAGRRNVGKSSFMNALVGQNV   59 (423)
T ss_dssp             CCCEEEEEECSCSTTTTTTTTSSCC---
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHcCCC
Confidence            4578999999999999999999998876

>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=97.56  E-value=6e-05  Score=43.57  Aligned_cols=27  Identities=26%  Similarity=0.480  Sum_probs=24.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ...+++++|.+++|||||++++.+..+
T Consensus        23 ~~~~I~vvG~~~~GKSTlln~l~g~~~   49 (315)
T 1jwy_B           23 DLPQIVVVGSQSSGKSSVLENIVGRDF   49 (315)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHTSCC
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHCCCc
Confidence            457899999999999999999998876

>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=97.55  E-value=4.5e-05  Score=45.32  Aligned_cols=28  Identities=29%  Similarity=0.528  Sum_probs=25.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ...+++++|++++|||||++++.+..+.
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            3578999999999999999999998874

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=97.54  E-value=9.6e-05  Score=45.26  Aligned_cols=28  Identities=21%  Similarity=0.306  Sum_probs=22.2

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ..+++.++|.+++|||||++++....+.
T Consensus        21 ~~~kvgIVG~pnvGKSTL~n~Ltg~~~~   48 (396)
T 2ohf_A           21 TSLKIGIVGLPNVGKSTFFNVLTNSQAS   48 (396)
T ss_dssp             SCCCEEEECCSSSSHHHHHHHHHC----
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcc
Confidence            4578999999999999999999987553

>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=97.53  E-value=8.5e-05  Score=39.66  Aligned_cols=30  Identities=30%  Similarity=0.300  Sum_probs=21.5

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhc
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      |..+......++++|.+|+|||+++..+..
T Consensus         1 m~~~~~~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            1 MSTTNHDHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             --CCCTTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCccCCCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            444444445688999999999999987653

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.51  E-value=7.1e-05  Score=40.54  Aligned_cols=21  Identities=24%  Similarity=0.463  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -++++|++|+|||++++.+..
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            578999999999999998875

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=97.50  E-value=0.00018  Score=42.78  Aligned_cols=27  Identities=26%  Similarity=0.369  Sum_probs=24.2

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..++++++|.+|+|||||++++....+
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~~~~  192 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTTAKP  192 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCSSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            467999999999999999999998765

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.49  E-value=8.6e-05  Score=40.63  Aligned_cols=22  Identities=27%  Similarity=0.714  Sum_probs=18.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.++|++|+|||++++.+..
T Consensus         1 ~~i~l~G~nGsGKTTLl~~l~g   22 (178)
T 1ye8_A            1 MKIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3678999999999999987664

>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=97.47  E-value=2.7e-05  Score=48.25  Aligned_cols=27  Identities=30%  Similarity=0.466  Sum_probs=23.6

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..++++++|++++|||||++++...++
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~  249 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDR  249 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHB
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCc
Confidence            357899999999999999999987654

>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=97.46  E-value=0.00014  Score=43.76  Aligned_cols=26  Identities=15%  Similarity=0.269  Sum_probs=21.1

Q ss_pred             ee-EEEECCCCCchHHHHHHhhcCcCC
Q 035406            9 FK-LLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         9 ~k-i~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ++ +.++|.+++|||||++++....+.
T Consensus       179 ~~~V~lvG~~naGKSTLln~L~~~~~~  205 (364)
T 2qtf_A          179 IPSIGIVGYTNSGKTSLFNSLTGLTQK  205 (364)
T ss_dssp             CCEEEEECBTTSSHHHHHHHHHCC---
T ss_pred             CcEEEEECCCCCCHHHHHHHHHCCCcc
Confidence            45 889999999999999999987663

>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=97.44  E-value=0.00018  Score=43.48  Aligned_cols=27  Identities=15%  Similarity=0.186  Sum_probs=24.1

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ....+++.++|+.++|||||++++...
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~~~   31 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAITGI   31 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHSC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCc
Confidence            456799999999999999999999874

>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=97.44  E-value=0.0001  Score=40.89  Aligned_cols=20  Identities=35%  Similarity=0.561  Sum_probs=18.1

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      |+++|++|+||++|+.++..
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            68999999999999998874

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.41  E-value=0.00011  Score=40.51  Aligned_cols=21  Identities=38%  Similarity=0.548  Sum_probs=18.6

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.++|++|+||||+++.+..
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            578999999999999998764

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=97.41  E-value=2.3e-05  Score=49.48  Aligned_cols=38  Identities=16%  Similarity=0.162  Sum_probs=29.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ..+++++|..++|||||+.++....+.....+++..++
T Consensus         4 ~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i   41 (537)
T 3izy_P            4 SPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHI   41 (537)
T ss_dssp             CCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEE
Confidence            47899999999999999999998776655555554443

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.39  E-value=0.00013  Score=42.08  Aligned_cols=34  Identities=18%  Similarity=0.352  Sum_probs=22.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeee
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGV   43 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~   43 (57)
                      ++++++|.+++|||||++++....... ..++.|.
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~-~~~~~g~  133 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASS-VGAQPGI  133 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC----------
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccc-cCCCCCC
Confidence            589999999999999999999766532 3344443

>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=97.33  E-value=0.00014  Score=44.24  Aligned_cols=24  Identities=21%  Similarity=0.315  Sum_probs=20.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +++.++|.+++|||||++++....
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            589999999999999999999765

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=97.32  E-value=0.00061  Score=41.73  Aligned_cols=25  Identities=20%  Similarity=0.235  Sum_probs=22.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...++++++|..++|||||+.+++.
T Consensus        15 k~~~~i~iiG~~d~GKSTL~~~Ll~   39 (439)
T 3j2k_7           15 KEHVNVVFIGHVDAGKSTIGGQIMY   39 (439)
T ss_pred             CceeEEEEEeCCCCCHHHHHHHHHH
Confidence            4578999999999999999999843

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.31  E-value=0.00016  Score=40.76  Aligned_cols=22  Identities=23%  Similarity=0.323  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -++++|++|+|||||++.+...
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4678999999999999987753

>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=97.30  E-value=5.7e-05  Score=47.02  Aligned_cols=26  Identities=31%  Similarity=0.618  Sum_probs=23.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .++++++|.+++|||||++++...++
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~  268 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDR  268 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTB
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCC
Confidence            37999999999999999999998754

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.30  E-value=0.00018  Score=39.08  Aligned_cols=22  Identities=18%  Similarity=0.348  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+.++|++|+||||+++.+...
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            4678999999999999987753

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=97.29  E-value=0.00033  Score=44.18  Aligned_cols=29  Identities=21%  Similarity=0.260  Sum_probs=25.7

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      ....+++++|..++|||||++++++..+.
T Consensus        63 ~~~~~V~vvG~~n~GKSTLIN~Llg~~~~   91 (550)
T 2qpt_A           63 DGKPMVLVAGQYSTGKTSFIQYLLEQEVP   91 (550)
T ss_dssp             SSCCEEEEEEBTTSCHHHHHHHHHTSCCS
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCccc
Confidence            34689999999999999999999998763

>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=97.28  E-value=0.00018  Score=38.77  Aligned_cols=23  Identities=35%  Similarity=0.351  Sum_probs=19.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -.++++|++|+||||+++.+...
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            35789999999999999988764

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.27  E-value=0.0002  Score=39.60  Aligned_cols=22  Identities=32%  Similarity=0.388  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -++++|++|+|||+++..+...
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            4678999999999999988754

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=97.25  E-value=0.00039  Score=44.84  Aligned_cols=27  Identities=33%  Similarity=0.580  Sum_probs=24.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..++++++|++++|||||++++.+..+
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

>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=97.25  E-value=0.00023  Score=39.88  Aligned_cols=21  Identities=38%  Similarity=0.553  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -++++|++|+|||+|++.+..
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHh
Confidence            567899999999999998874

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.23  E-value=0.00022  Score=39.82  Aligned_cols=21  Identities=33%  Similarity=0.618  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.++|++|+|||++++.+..
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            467999999999999998775

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.22  E-value=0.00024  Score=39.17  Aligned_cols=21  Identities=33%  Similarity=0.501  Sum_probs=18.0

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+.++|++|+|||++++.+..
T Consensus        22 i~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            357899999999999998765

>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=97.20  E-value=0.00049  Score=42.70  Aligned_cols=27  Identities=19%  Similarity=0.132  Sum_probs=24.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ...+++.++|..++|||||+.++....
T Consensus        17 m~~~~I~iiG~~d~GKSTLi~~L~~~~   43 (482)
T 1wb1_A           17 FKNINLGIFGHIDHGKTTLSKVLTEIA   43 (482)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHCCC
Confidence            457899999999999999999998766

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.19  E-value=0.00029  Score=38.68  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-++++|.+|+|||+++..+..
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            4578999999999999998764

>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=97.19  E-value=0.00032  Score=40.84  Aligned_cols=26  Identities=38%  Similarity=0.566  Sum_probs=23.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..++++++|.++||||||++++....
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            35789999999999999999998754

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.17  E-value=0.00026  Score=38.13  Aligned_cols=18  Identities=39%  Similarity=0.577  Sum_probs=15.8

Q ss_pred             eEEEECCCCCchHHHHHH
Q 035406           10 KLLLIGDSSVGKSCLLLR   27 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~   27 (57)
                      -+.++|++|+|||++++.
T Consensus        11 i~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEEECCTTSCHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            357899999999999995

>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=97.17  E-value=0.00034  Score=36.59  Aligned_cols=20  Identities=25%  Similarity=0.250  Sum_probs=18.0

Q ss_pred             eeEEEECCCCCchHHHHHHh
Q 035406            9 FKLLLIGDSSVGKSCLLLRF   28 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~   28 (57)
                      +-+++.|.+|+|||+++..+
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            45789999999999999988

>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=97.16  E-value=0.00055  Score=41.78  Aligned_cols=27  Identities=22%  Similarity=0.293  Sum_probs=23.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ...++.++|.+|+|||||++.+.....
T Consensus        19 ~g~~vgiVG~pnaGKSTL~n~Ltg~~~   45 (392)
T 1ni3_A           19 NNLKTGIVGMPNVGKSTFFRAITKSVL   45 (392)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCc
Confidence            356899999999999999999998654

>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=97.16  E-value=0.00032  Score=36.93  Aligned_cols=21  Identities=19%  Similarity=0.267  Sum_probs=18.4

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|.+|+||||++..+..
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            578999999999999998764

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.16  E-value=0.00035  Score=38.36  Aligned_cols=22  Identities=18%  Similarity=0.388  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +++++.|.+|+|||+++..+..
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            4689999999999999988753

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.15  E-value=0.00033  Score=36.92  Aligned_cols=22  Identities=32%  Similarity=0.555  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~   65 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999987764

>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=97.14  E-value=0.00038  Score=38.30  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +++++.|.+|+|||+++..+..
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            4689999999999999998753

>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=97.14  E-value=0.00033  Score=43.26  Aligned_cols=26  Identities=27%  Similarity=0.627  Sum_probs=22.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+++.++|++|+|||||++.+.+..+
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            36799999999999999999887644

>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=97.11  E-value=0.00061  Score=41.52  Aligned_cols=26  Identities=31%  Similarity=0.498  Sum_probs=23.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ...++++++|..++|||||+.++...
T Consensus        22 ~~~~~i~iiG~~~~GKSTLi~~Ll~~   47 (434)
T 1zun_B           22 KEMLRFLTCGNVDDGKSTLIGRLLHD   47 (434)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHhh
Confidence            45689999999999999999999854

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.09  E-value=0.00052  Score=37.38  Aligned_cols=24  Identities=17%  Similarity=0.016  Sum_probs=20.2

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ....+++.|.+|+|||+++..+..
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHH
Confidence            346789999999999999987764

>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=97.09  E-value=0.00044  Score=36.80  Aligned_cols=22  Identities=32%  Similarity=0.394  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-+++.|.+|+|||++.+.+..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999988764

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.08  E-value=0.0004  Score=37.68  Aligned_cols=24  Identities=33%  Similarity=0.515  Sum_probs=20.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..+.++|++|+|||+++..+....
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            357899999999999999887543

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.07  E-value=0.00044  Score=38.10  Aligned_cols=23  Identities=30%  Similarity=0.228  Sum_probs=19.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -..+.++|++|+|||||++.+..
T Consensus        22 g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A           22 RQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999986653

>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=97.07  E-value=0.00033  Score=42.38  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=21.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +++.++|.+++|||||++++....
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            678999999999999999988653

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.06  E-value=0.00048  Score=36.50  Aligned_cols=22  Identities=32%  Similarity=0.320  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||+++..+..
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            4578999999999999998875

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.05  E-value=0.00046  Score=36.56  Aligned_cols=22  Identities=27%  Similarity=0.440  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..++++|.+|+|||++++.+..
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            4588999999999999987764

>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=97.04  E-value=0.00056  Score=36.96  Aligned_cols=29  Identities=17%  Similarity=0.116  Sum_probs=21.9

Q ss_pred             CccceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            3 NEYDYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         3 ~~~~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .-......+.+.|.+|+|||++...+...
T Consensus         3 ~~~~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            3 HEAKHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             ---CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CcccCceEEEEECCCCCCHHHHHHHHHHC
Confidence            33445678899999999999999987753

>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=97.04  E-value=0.00049  Score=37.10  Aligned_cols=21  Identities=33%  Similarity=0.463  Sum_probs=18.3

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -++++|++|+||||+++.+..
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            467899999999999998864

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=97.04  E-value=0.00059  Score=43.53  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=23.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ...++++++|..++|||||+.+++..
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

>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=97.03  E-value=0.00037  Score=37.41  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~   60 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLK   60 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999987764

>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=97.02  E-value=0.00057  Score=38.44  Aligned_cols=21  Identities=24%  Similarity=0.526  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ..++++|++|+||||+++.+.
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            468899999999999999887

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.02  E-value=0.00061  Score=36.75  Aligned_cols=21  Identities=24%  Similarity=0.457  Sum_probs=18.4

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|.+|+||||++..+..
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            588999999999999887764

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.01  E-value=0.00054  Score=37.36  Aligned_cols=22  Identities=27%  Similarity=0.324  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||+++..+..
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            3688999999999999987754

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.01  E-value=0.00063  Score=37.18  Aligned_cols=22  Identities=32%  Similarity=0.466  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..++++|.+|+|||++...+..
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            3688999999999999987763

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.00  E-value=0.00053  Score=37.49  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=18.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..++++|.+|+|||++++.+..
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            3578999999999999987753

>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=97.00  E-value=0.00043  Score=42.77  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=22.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ...++++++|..++|||||+.+++..
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~   56 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYD   56 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHh
Confidence            34699999999999999999998754

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.99  E-value=0.00056  Score=37.41  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=19.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+.++|++|+||||+++.+..
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999987654

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.99  E-value=0.00055  Score=36.89  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|+.|+|||+|++.+....
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            46789999999999999877643

>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=96.99  E-value=0.00058  Score=41.69  Aligned_cols=26  Identities=35%  Similarity=0.456  Sum_probs=23.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ...++++++|..++|||||+.++...
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~   29 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMD   29 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHH
Confidence            35689999999999999999999863

>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=96.99  E-value=0.00074  Score=41.59  Aligned_cols=30  Identities=20%  Similarity=0.226  Sum_probs=24.4

Q ss_pred             CCCccceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            1 MSNEYDYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         1 m~~~~~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      |.. ....++++++|..++|||||+.+++..
T Consensus         1 M~~-~~~~~~i~iiG~~~~GKSTLi~~Ll~~   30 (458)
T 1f60_A            1 MGK-EKSHINVVVIGHVDSGKSTTTGHLIYK   30 (458)
T ss_dssp             -CC-CCEEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCC-CCceeEEEEEcCCCCCHHHHHHHHHHH
Confidence            443 345799999999999999999999753

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.99  E-value=0.00068  Score=38.47  Aligned_cols=21  Identities=29%  Similarity=0.314  Sum_probs=18.3

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.++|++|+|||||++.+.+-
T Consensus        34 ~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           34 VSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             EEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHhcC
Confidence            579999999999999987754

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.98  E-value=0.00065  Score=36.27  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..|++.|.+|+|||+++..+..
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            3588999999999999987654

>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=96.96  E-value=0.00059  Score=43.50  Aligned_cols=39  Identities=18%  Similarity=0.230  Sum_probs=28.5

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCC----cccCCeeeeEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVD----SYISTIGVDFV   46 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~----~~~~tig~~~~   46 (57)
                      ..++.++|..++|||||+.++....+..    ...+++|..+.
T Consensus         5 ~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~   47 (594)
T 1g7s_A            5 SPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEI   47 (594)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEE
T ss_pred             CcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEE
Confidence            5789999999999999999998765533    22345665443

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=96.96  E-value=0.00068  Score=40.44  Aligned_cols=23  Identities=30%  Similarity=0.502  Sum_probs=21.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+.++|.+|+|||||++++..
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            57899999999999999999885

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.95  E-value=0.0007  Score=37.87  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.++++|++|+||+|.+.++..
T Consensus         1 M~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999988764

>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=96.95  E-value=0.00083  Score=43.33  Aligned_cols=28  Identities=14%  Similarity=0.107  Sum_probs=24.3

Q ss_pred             CccceeeeEEEECCCCCchHHHHHHhhc
Q 035406            3 NEYDYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         3 ~~~~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .......++.++|..++|||||+.++..
T Consensus         7 ~~~~~~~~I~IvG~~~aGKTTL~~~Ll~   34 (691)
T 1dar_A            7 YDLKRLRNIGIAAHIDAGKTTTTERILY   34 (691)
T ss_dssp             CCGGGEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CccccccEEEEECCCCCCHHHHHHHHHH
Confidence            4446688999999999999999999983

>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=96.94  E-value=0.0008  Score=40.60  Aligned_cols=25  Identities=20%  Similarity=0.169  Sum_probs=22.7

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.++|..++|||||+.++..
T Consensus         9 ~~~~~I~iiG~~~~GKSTLi~~L~~   33 (405)
T 2c78_A            9 KPHVNVGTIGHVDHGKTTLTAALTY   33 (405)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEEEcCCCCCHHHHHHHHHh
Confidence            4578999999999999999999986

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=96.92  E-value=0.00042  Score=41.44  Aligned_cols=23  Identities=39%  Similarity=0.436  Sum_probs=20.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ++.++|.+++|||||+.++....
T Consensus       160 ~V~lvG~~nvGKSTLln~L~~~~  182 (342)
T 1lnz_A          160 DVGLVGFPSVGKSTLLSVVSSAK  182 (342)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEEC
T ss_pred             eeeeeCCCCCCHHHHHHHHHcCC
Confidence            57899999999999999998764

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.92  E-value=0.00067  Score=37.10  Aligned_cols=22  Identities=27%  Similarity=0.302  Sum_probs=18.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-++++|++|+|||++++.+..
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999887653

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.91  E-value=0.00085  Score=35.82  Aligned_cols=22  Identities=18%  Similarity=0.140  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||+++..+..
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            5689999999999999887654

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=96.91  E-value=0.00091  Score=42.50  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=22.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...++++++|..++|||||+.+++.
T Consensus       175 k~~~~I~iiG~~d~GKSTLi~~Ll~  199 (592)
T 3mca_A          175 KPVVHLVVTGHVDSGKSTMLGRIMF  199 (592)
T ss_dssp             CCEEEEEEECCSSSTHHHHHHHHHH
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHHH
Confidence            4568999999999999999999853

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.91  E-value=0.00086  Score=35.91  Aligned_cols=22  Identities=27%  Similarity=0.368  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..++++|.+|+|||++...+..
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            4688999999999999998753

>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=96.91  E-value=0.0009  Score=40.37  Aligned_cols=25  Identities=20%  Similarity=0.142  Sum_probs=22.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..+++.++|..++|||||+.++...
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~   26 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKI   26 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhCh
Confidence            3689999999999999999999863

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.90  E-value=0.00063  Score=37.31  Aligned_cols=21  Identities=24%  Similarity=0.218  Sum_probs=18.6

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+.++|++|+|||+|+..+..
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999876

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.90  E-value=0.00099  Score=36.28  Aligned_cols=24  Identities=25%  Similarity=0.534  Sum_probs=20.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+.+++.|.+|+|||+++..+..
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            356799999999999999987754

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.89  E-value=0.00056  Score=36.08  Aligned_cols=22  Identities=32%  Similarity=0.511  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
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            3578999999999999987764

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.89  E-value=0.0011  Score=35.32  Aligned_cols=22  Identities=14%  Similarity=0.253  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||++...+..
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            5688999999999999987754

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.87  E-value=0.00077  Score=36.94  Aligned_cols=22  Identities=18%  Similarity=0.270  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
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            4688999999999999987754

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.87  E-value=0.00085  Score=37.76  Aligned_cols=21  Identities=38%  Similarity=0.414  Sum_probs=18.2

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.++|++|+|||||++.+.+-
T Consensus        33 ~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           33 VSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEECTTSCHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            578999999999999987754

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.86  E-value=0.001  Score=35.96  Aligned_cols=24  Identities=21%  Similarity=0.392  Sum_probs=20.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ...++++|.+|+|||++...+...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            457999999999999999877643

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.86  E-value=0.0011  Score=35.39  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=19.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||++...+..
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            5789999999999999988763

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.85  E-value=0.0011  Score=37.80  Aligned_cols=22  Identities=32%  Similarity=0.389  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++.+.+-
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999987764

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=96.85  E-value=0.00096  Score=40.22  Aligned_cols=24  Identities=38%  Similarity=0.592  Sum_probs=20.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhh
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ....|++++|.+++|||++++++.
T Consensus        31 ~~~~killlG~~~SGKST~~kq~~   54 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQMR   54 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHHH
Confidence            346899999999999999999864

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.85  E-value=0.001  Score=36.64  Aligned_cols=22  Identities=27%  Similarity=0.302  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+.++|.+|+||||+++.+..
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            5789999999999999987654

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.84  E-value=0.00084  Score=36.99  Aligned_cols=22  Identities=18%  Similarity=0.419  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +++++.|.+|+|||+++..+..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            1 MRIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999988754

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.84  E-value=0.0011  Score=38.23  Aligned_cols=21  Identities=33%  Similarity=0.343  Sum_probs=18.3

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.++|++|+|||||++.+.+-
T Consensus        35 ~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           35 ISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            578999999999999987764

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.84  E-value=0.0012  Score=37.75  Aligned_cols=23  Identities=26%  Similarity=0.212  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||||++.+.+-.
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            45799999999999999877643

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.84  E-value=0.00083  Score=36.54  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+.+.|.+|+|||+++..+..
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            4688999999999999988765

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.83  E-value=0.0014  Score=37.24  Aligned_cols=22  Identities=23%  Similarity=0.230  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++.+.+-
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4679999999999999987754

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=96.83  E-value=0.00094  Score=36.17  Aligned_cols=21  Identities=29%  Similarity=0.438  Sum_probs=18.2

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||+++..+..
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            478999999999999987764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.82  E-value=0.00089  Score=36.97  Aligned_cols=21  Identities=29%  Similarity=0.601  Sum_probs=18.0

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.++|++|+|||+++..+..
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g   23 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHh
Confidence            467899999999999987664

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.82  E-value=0.00049  Score=38.34  Aligned_cols=20  Identities=25%  Similarity=0.336  Sum_probs=14.1

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      -+.++|++|+|||++++.+.
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             EEEEECSCC----CHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            46789999999999999888

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.81  E-value=0.001  Score=37.77  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++.+.+-
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4578999999999999987754

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.81  E-value=0.0013  Score=37.99  Aligned_cols=22  Identities=32%  Similarity=0.419  Sum_probs=18.8

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||||++.+.+-.
T Consensus        40 ~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           40 VAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            5789999999999999887643

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.81  E-value=0.0012  Score=34.76  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +++++.|.+|+|||++...+..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            1 MRIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             CEEEEESCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999987764

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.80  E-value=0.0012  Score=37.29  Aligned_cols=24  Identities=17%  Similarity=0.231  Sum_probs=20.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+.+++.|.+|+|||+++.++..
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            357899999999999999998864

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.80  E-value=0.0012  Score=35.43  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||++...+..
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            5688999999999999988754

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.80  E-value=0.00081  Score=40.04  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=20.3

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .-++.++|++|+|||||++.+..-
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999987653

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.80  E-value=0.0011  Score=38.63  Aligned_cols=23  Identities=35%  Similarity=0.286  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||||++.+....
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCcHHHHHHHhcccc
Confidence            46789999999999999887644

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.80  E-value=0.001  Score=36.35  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=18.0

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+.++|++|+|||+|+..+..
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            367889999999999998774

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=96.80  E-value=0.001  Score=35.70  Aligned_cols=21  Identities=29%  Similarity=0.495  Sum_probs=18.3

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||+++..+..
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            389999999999999987764

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.79  E-value=0.00093  Score=38.86  Aligned_cols=23  Identities=26%  Similarity=0.288  Sum_probs=19.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..-+++.|.+|+|||+++..+..
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            35688999999999999998864

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.79  E-value=0.0012  Score=37.85  Aligned_cols=23  Identities=30%  Similarity=0.326  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||||++.+.+-.
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            35789999999999999877543

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.78  E-value=0.0013  Score=37.12  Aligned_cols=23  Identities=26%  Similarity=0.469  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||||++.+.+-.
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            35799999999999999887643

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.78  E-value=0.0013  Score=38.36  Aligned_cols=21  Identities=33%  Similarity=0.536  Sum_probs=18.3

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.++|++|+|||||++.+.+-
T Consensus        37 ~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           37 TAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            578999999999999987764

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.78  E-value=0.00099  Score=38.39  Aligned_cols=21  Identities=29%  Similarity=0.474  Sum_probs=18.1

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.++|++|+||||+++.+..
T Consensus        27 ~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHH
Confidence            478999999999999987664

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.78  E-value=0.001  Score=37.42  Aligned_cols=20  Identities=40%  Similarity=0.594  Sum_probs=18.2

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++|++|+|||++++.+..
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~   71 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAG   71 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999998765

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.77  E-value=0.0014  Score=35.45  Aligned_cols=22  Identities=23%  Similarity=0.209  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||+++..+..
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            5789999999999999988764

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.77  E-value=0.0011  Score=37.91  Aligned_cols=22  Identities=36%  Similarity=0.377  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++.+.+-
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            3578999999999999988864

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.76  E-value=0.0014  Score=36.89  Aligned_cols=22  Identities=23%  Similarity=0.350  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3578999999999999987754

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.76  E-value=0.0011  Score=35.29  Aligned_cols=21  Identities=33%  Similarity=0.444  Sum_probs=18.3

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|.+|+|||++.+.+..
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            688999999999999887653

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.76  E-value=0.0013  Score=37.33  Aligned_cols=22  Identities=32%  Similarity=0.371  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++.+.+-
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3578999999999999987764

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.76  E-value=0.0011  Score=40.15  Aligned_cols=24  Identities=33%  Similarity=0.355  Sum_probs=20.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+.++|++|+|||||++.+....-
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            468999999999999999986543

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.75  E-value=0.0011  Score=38.20  Aligned_cols=22  Identities=27%  Similarity=0.348  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++.+.+-
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            3578999999999999988874

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.75  E-value=0.0014  Score=38.00  Aligned_cols=23  Identities=22%  Similarity=0.232  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||+|++.+.+-.
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            35789999999999999877643

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.74  E-value=0.0012  Score=36.18  Aligned_cols=22  Identities=27%  Similarity=0.243  Sum_probs=18.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-+.+.|.+|+|||+++.++..
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            3467899999999999998775

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.74  E-value=0.0014  Score=37.88  Aligned_cols=22  Identities=32%  Similarity=0.335  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++.+.+-
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Confidence            3578999999999999987754

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.73  E-value=0.0016  Score=35.53  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=19.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+.++|.+|+|||++...+..
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            4688999999999999998875

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.73  E-value=0.0015  Score=37.64  Aligned_cols=22  Identities=27%  Similarity=0.271  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++.+.+-
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3578999999999999988764

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=96.73  E-value=0.0006  Score=42.86  Aligned_cols=24  Identities=17%  Similarity=0.249  Sum_probs=21.6

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhh
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ....+++++|.+++|||||+.+++
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            346899999999999999999996

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.73  E-value=0.0016  Score=37.87  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||||++-+.+-.
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            35789999999999999877643

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.72  E-value=0.0017  Score=34.68  Aligned_cols=22  Identities=18%  Similarity=0.459  Sum_probs=18.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||++...+..
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            5688999999999999887653

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.72  E-value=0.0013  Score=37.85  Aligned_cols=22  Identities=23%  Similarity=0.247  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++.+.+-
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4679999999999999987754

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.72  E-value=0.0016  Score=37.69  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=19.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||||++.+.+-.
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999887654

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.72  E-value=0.0012  Score=37.87  Aligned_cols=22  Identities=45%  Similarity=0.584  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3578999999999999987754

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.71  E-value=0.0012  Score=35.83  Aligned_cols=22  Identities=41%  Similarity=0.487  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|++|+|||+++..+..
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            5688999999999999987664

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.71  E-value=0.001  Score=37.22  Aligned_cols=22  Identities=23%  Similarity=0.295  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+..-
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3678999999999999987754

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=96.71  E-value=0.0017  Score=38.01  Aligned_cols=20  Identities=45%  Similarity=0.640  Sum_probs=18.2

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      -+.++|++|+|||||++.+.
T Consensus       167 i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            46789999999999999988

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.70  E-value=0.0014  Score=35.07  Aligned_cols=21  Identities=38%  Similarity=0.495  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ..+++.|.+|+|||+++..+.
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~   32 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELA   32 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHH
Confidence            468899999999999999876

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.70  E-value=0.0015  Score=36.37  Aligned_cols=22  Identities=23%  Similarity=0.336  Sum_probs=18.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+++.|.+|+|||+++..+..
T Consensus         1 m~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            1 MNILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3688999999999999988754

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.69  E-value=0.0015  Score=36.01  Aligned_cols=23  Identities=22%  Similarity=0.442  Sum_probs=19.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.+++.|.+|+|||++...+..
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            36789999999999999987754

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=96.69  E-value=0.002  Score=39.61  Aligned_cols=24  Identities=17%  Similarity=0.371  Sum_probs=20.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..+.++|++|+|||||++.+.+-.
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCcHHHHHHHHhCCC
Confidence            468899999999999999988743

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=96.68  E-value=0.0018  Score=38.68  Aligned_cols=25  Identities=32%  Similarity=0.478  Sum_probs=21.1

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhh
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .....|++++|...+|||++++++.
T Consensus         4 ~~~~~klLlLG~geSGKSTi~KQmk   28 (327)
T 3ohm_A            4 ARRELKLLLLGTGESGKSTFIKQMR   28 (327)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHHH
T ss_pred             hcccceEEEEcCCCccHHHHHHHHH
Confidence            3457999999999999999998754

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.68  E-value=0.0014  Score=35.70  Aligned_cols=21  Identities=24%  Similarity=0.218  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+.++|++|+|||+|+..+..
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            467899999999999999876

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.67  E-value=0.0011  Score=35.25  Aligned_cols=21  Identities=29%  Similarity=0.468  Sum_probs=18.2

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.++|++|+|||++++.+..
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~   58 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVA   58 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999998765

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.66  E-value=0.0017  Score=37.26  Aligned_cols=22  Identities=32%  Similarity=0.373  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3578999999999999988764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.66  E-value=0.0014  Score=36.37  Aligned_cols=23  Identities=22%  Similarity=0.498  Sum_probs=19.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.|.+|+|||+++..+..
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            36789999999999999988763

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.65  E-value=0.0017  Score=38.60  Aligned_cols=24  Identities=21%  Similarity=0.234  Sum_probs=20.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ....+.++|.+|+|||+++.++..
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            356899999999999999999863

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=96.65  E-value=0.0015  Score=39.28  Aligned_cols=24  Identities=21%  Similarity=0.398  Sum_probs=20.4

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhh
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ....|++++|..++|||++++++.
T Consensus         3 ~~~~klLLLG~geSGKSTi~KQmk   26 (340)
T 4fid_A            3 AKPITVMLLGSGESGKSTIAKQLK   26 (340)
T ss_dssp             -CCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCcceEEEECCCCCcHHHHHHHHH
Confidence            357899999999999999998654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.65  E-value=0.0018  Score=37.36  Aligned_cols=22  Identities=41%  Similarity=0.456  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3578999999999999987754

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.65  E-value=0.0014  Score=38.76  Aligned_cols=24  Identities=25%  Similarity=0.249  Sum_probs=19.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...-+.++|++|+|||||++.+..
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHh
Confidence            345678999999999999987665

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.64  E-value=0.0021  Score=35.13  Aligned_cols=24  Identities=21%  Similarity=0.315  Sum_probs=20.3

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ...+.+.|.+|+|||+++..+...
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            456889999999999999987753

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.64  E-value=0.0016  Score=36.00  Aligned_cols=22  Identities=18%  Similarity=0.206  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+.++|++|+|||+|+..+...
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            3678999999999999998863

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.64  E-value=0.0014  Score=36.85  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
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            3589999999999999987764

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.63  E-value=0.0014  Score=38.60  Aligned_cols=21  Identities=33%  Similarity=0.498  Sum_probs=18.4

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||++++.+..
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~   73 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIAS   73 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999998765

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.62  E-value=0.0019  Score=34.92  Aligned_cols=23  Identities=13%  Similarity=0.234  Sum_probs=20.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..|++.|.+|+||||++..+...
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            56899999999999999988753

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.61  E-value=0.0016  Score=37.07  Aligned_cols=20  Identities=25%  Similarity=0.434  Sum_probs=17.4

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      -++++|++|+|||++...+.
T Consensus         3 li~I~G~~GSGKSTla~~La   22 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIA   22 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHH
Confidence            36789999999999998765

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=96.61  E-value=0.002  Score=38.72  Aligned_cols=24  Identities=33%  Similarity=0.470  Sum_probs=21.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhh
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ....|++++|.+++|||++++++.
T Consensus         7 ~~~~k~lllG~~~sGKsT~~kq~~   30 (354)
T 2xtz_A            7 IHIRKLLLLGAGESGKSTIFKQIK   30 (354)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCceeEEEECCCCCcHHHHHHHHH
Confidence            457899999999999999999865

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.61  E-value=0.0016  Score=38.61  Aligned_cols=20  Identities=35%  Similarity=0.414  Sum_probs=17.5

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      .+.++|++|+|||+|+..+.
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~  147 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLI  147 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHh
Confidence            57899999999999998765

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.61  E-value=0.0015  Score=37.27  Aligned_cols=20  Identities=40%  Similarity=0.594  Sum_probs=18.2

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++|++|+|||++++.+..
T Consensus        76 vll~Gp~GtGKTtl~~~i~~   95 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAG   95 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHH
Confidence            89999999999999988765

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=96.61  E-value=0.0016  Score=37.47  Aligned_cols=22  Identities=45%  Similarity=0.625  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+++.|++|+|||+++..+...
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            4788999999999999988753

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.60  E-value=0.0017  Score=39.29  Aligned_cols=23  Identities=39%  Similarity=0.502  Sum_probs=19.3

Q ss_pred             EEEECCCCCchHHHHHHhhcCcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      +.++|++|+|||||++.+.+-.-
T Consensus        33 ~~llGpsGsGKSTLLr~iaGl~~   55 (359)
T 3fvq_A           33 LFIIGASGCGKTTLLRCLAGFEQ   55 (359)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCchHHHHHHHHhcCCC
Confidence            57899999999999998876543

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.59  E-value=0.002  Score=34.42  Aligned_cols=21  Identities=14%  Similarity=0.202  Sum_probs=18.3

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|.+|+|||++...+..
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            578999999999999988765

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.59  E-value=0.0014  Score=36.23  Aligned_cols=22  Identities=18%  Similarity=0.302  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||++...+..
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            5789999999999999987753

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.58  E-value=0.0018  Score=33.82  Aligned_cols=24  Identities=13%  Similarity=0.051  Sum_probs=20.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ...+++.|++|+|||.+++.+...
T Consensus        24 ~~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           24 DIAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             CSCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHh
Confidence            346899999999999999887654

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=96.58  E-value=0.0017  Score=36.28  Aligned_cols=22  Identities=32%  Similarity=0.369  Sum_probs=18.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
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            4578999999999999987764

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.57  E-value=0.0021  Score=38.78  Aligned_cols=22  Identities=32%  Similarity=0.374  Sum_probs=18.8

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||||++.+.+-.
T Consensus        44 ~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           44 VGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5789999999999999887643

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=96.57  E-value=0.002  Score=39.59  Aligned_cols=25  Identities=12%  Similarity=0.230  Sum_probs=21.5

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ....++++|.+|+|||++..++...
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999988754

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=96.56  E-value=0.0014  Score=38.11  Aligned_cols=22  Identities=14%  Similarity=0.283  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
T Consensus        46 ~~vli~G~~G~GKTtl~~~l~~   67 (386)
T 2qby_A           46 NNIFIYGLTGTGKTAVVKFVLS   67 (386)
T ss_dssp             CCEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999998775

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=96.55  E-value=0.0024  Score=38.40  Aligned_cols=24  Identities=33%  Similarity=0.498  Sum_probs=20.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhh
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ...+|++++|.+.+|||++++++.
T Consensus        30 ~~~~klLlLG~geSGKST~~KQmk   53 (353)
T 1cip_A           30 AREVKLLLLGAGESGKSTIVKQMK   53 (353)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHH
T ss_pred             cccceEEEEcCCCCCchhHHHHHH
Confidence            347899999999999999999765

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.54  E-value=0.0021  Score=35.57  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=19.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.+++.|.+|+|||++...+..
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            36799999999999999887753

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.54  E-value=0.0023  Score=35.71  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=19.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.|.+|+|||++...+..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999887753

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.54  E-value=0.0017  Score=36.84  Aligned_cols=22  Identities=32%  Similarity=0.377  Sum_probs=19.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
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            4589999999999999998764

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=96.54  E-value=0.0015  Score=37.66  Aligned_cols=21  Identities=24%  Similarity=0.268  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||+++..+..
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            478899999999999998865

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.54  E-value=0.0017  Score=38.21  Aligned_cols=22  Identities=23%  Similarity=0.459  Sum_probs=18.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+.++|++|+||||++..+..
T Consensus       103 ~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          103 RVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHH
Confidence            3577899999999999997663

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.53  E-value=0.0018  Score=37.37  Aligned_cols=20  Identities=35%  Similarity=0.506  Sum_probs=18.1

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|++|+|||++++.+..
T Consensus        47 vlL~Gp~GtGKTtLakala~   66 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVAN   66 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            88999999999999998765

>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=96.53  E-value=0.0009  Score=42.02  Aligned_cols=28  Identities=18%  Similarity=0.227  Sum_probs=23.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVD   35 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~   35 (57)
                      ..++.++|..++|||||+.++....+..
T Consensus         4 ~~~V~IvGhvd~GKTTLl~~L~~~~v~~   31 (501)
T 1zo1_I            4 APVVTIMGHVDHGKTSLLEYIRSTKVAS   31 (501)
T ss_dssp             CCCEEEEESTTSSSHHHHHHHHHHHHSB
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCcc
Confidence            4689999999999999999998765543

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=96.53  E-value=0.0017  Score=37.70  Aligned_cols=21  Identities=24%  Similarity=0.461  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||++++.+..
T Consensus        39 ~lll~G~~GtGKT~la~~i~~   59 (324)
T 1l8q_A           39 PIFIYGSVGTGKTHLLQAAGN   59 (324)
T ss_dssp             SEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            578999999999999988765

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.53  E-value=0.0017  Score=37.40  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -++++|++|+|||+|+..+...
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            3678999999999999987754

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.53  E-value=0.0024  Score=38.58  Aligned_cols=22  Identities=41%  Similarity=0.501  Sum_probs=18.8

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||||++.+.+-.
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           32 MALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCchHHHHHHHHhcCC
Confidence            5789999999999999887643

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.52  E-value=0.0027  Score=34.42  Aligned_cols=22  Identities=14%  Similarity=0.348  Sum_probs=18.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ...|++.|.+|+|||++...+.
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~   36 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLV   36 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3568899999999999998775

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.52  E-value=0.0024  Score=38.58  Aligned_cols=22  Identities=36%  Similarity=0.463  Sum_probs=18.8

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||||++.+.+-.
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           32 VALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHHCCC
Confidence            5789999999999999887643

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.51  E-value=0.0024  Score=38.66  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=18.9

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||||++.+.+-.
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           32 MILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCcHHHHHHHHHHcCC
Confidence            5789999999999999887653

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.51  E-value=0.0025  Score=38.87  Aligned_cols=22  Identities=36%  Similarity=0.493  Sum_probs=18.9

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||+|++.+.+-.
T Consensus        32 ~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           32 VVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHHcCC
Confidence            5789999999999999887644

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.50  E-value=0.0026  Score=38.61  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=18.7

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||||++.+.+-.
T Consensus        40 ~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           40 LVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            5789999999999999877643

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.50  E-value=0.0019  Score=36.97  Aligned_cols=22  Identities=36%  Similarity=0.386  Sum_probs=19.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
T Consensus        55 ~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           55 KGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHH
Confidence            4688999999999999988764

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.50  E-value=0.0027  Score=37.15  Aligned_cols=23  Identities=17%  Similarity=0.252  Sum_probs=19.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhh
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ....+.+.|.+|+|||+++..+.
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~   52 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIY   52 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            35678899999999999987654

>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=96.50  E-value=0.0026  Score=40.87  Aligned_cols=26  Identities=19%  Similarity=0.296  Sum_probs=22.4

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ....++.++|+.++|||||+.++...
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~   32 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYK   32 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHh
Confidence            34678999999999999999999843

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.50  E-value=0.0022  Score=34.50  Aligned_cols=22  Identities=18%  Similarity=0.365  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||+++..+..
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            5688999999999999887754

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=96.50  E-value=0.002  Score=36.70  Aligned_cols=22  Identities=36%  Similarity=0.600  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
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            4688999999999999987764

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.50  E-value=0.0022  Score=34.41  Aligned_cols=22  Identities=14%  Similarity=0.297  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||++...+..
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            5689999999999999987753

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.49  E-value=0.0024  Score=33.65  Aligned_cols=22  Identities=14%  Similarity=0.283  Sum_probs=18.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||++...+..
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            3588999999999999987754

>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=96.49  E-value=0.0023  Score=40.27  Aligned_cols=25  Identities=12%  Similarity=0.119  Sum_probs=22.6

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ....+++++|..++|||||+.++..
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            3478999999999999999999985

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.48  E-value=0.0021  Score=36.23  Aligned_cols=22  Identities=23%  Similarity=0.400  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+.++|++|+||||+++.+..
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            4578999999999999997765

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.48  E-value=0.002  Score=38.29  Aligned_cols=22  Identities=23%  Similarity=0.318  Sum_probs=19.3

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      -..+.++|++|+|||||++.+.
T Consensus        55 g~~v~i~G~~GaGKSTLl~~l~   76 (337)
T 2qm8_A           55 AIRVGITGVPGVGKSTTIDALG   76 (337)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            3467899999999999999886

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.47  E-value=0.0038  Score=33.52  Aligned_cols=23  Identities=30%  Similarity=0.388  Sum_probs=19.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.|.+|+|||+++..+..
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            45688999999999999987653

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.46  E-value=0.0027  Score=35.88  Aligned_cols=23  Identities=17%  Similarity=0.338  Sum_probs=18.2

Q ss_pred             eeeE-EEECCCCCchHHHHHHhhc
Q 035406            8 LFKL-LLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki-~viG~~~vGKtsl~~~~~~   30 (57)
                      +.|+ +++|++|+||+|.+.++..
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            4454 5789999999999887764

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=96.46  E-value=0.0021  Score=37.61  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+++.|++|+|||+++..+...
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            5889999999999999887753

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.46  E-value=0.0021  Score=35.54  Aligned_cols=21  Identities=29%  Similarity=0.389  Sum_probs=17.5

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||+|+.++..
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            357889999999999887753

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.45  E-value=0.0022  Score=37.75  Aligned_cols=21  Identities=24%  Similarity=0.434  Sum_probs=17.9

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+.++|++|+||||++..+..
T Consensus       102 vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          102 VIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            567999999999999987654

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.45  E-value=0.0029  Score=38.41  Aligned_cols=22  Identities=32%  Similarity=0.249  Sum_probs=18.6

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||||++.+..-.
T Consensus        57 ~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           57 YGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHhcCC
Confidence            4689999999999998877643

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.44  E-value=0.0025  Score=38.15  Aligned_cols=22  Identities=18%  Similarity=0.514  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+||||+++.+..-
T Consensus       177 ~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          177 VIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             CEEEEESSSSCHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            6789999999999999988764

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.43  E-value=0.0022  Score=38.16  Aligned_cols=22  Identities=18%  Similarity=0.560  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      --+.++|++|+||||++..+..
T Consensus       130 ~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          130 YVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4677999999999999987664

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.43  E-value=0.0022  Score=37.61  Aligned_cols=22  Identities=27%  Similarity=0.522  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4578999999999999987754

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.43  E-value=0.00085  Score=36.59  Aligned_cols=21  Identities=33%  Similarity=0.559  Sum_probs=17.9

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.++|++|+|||+++..+..
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~   24 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMP   24 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            567999999999999987654

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.42  E-value=0.0025  Score=34.65  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..|++.|.+|+|||+++..+..
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            5689999999999999988764

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.41  E-value=0.0027  Score=33.94  Aligned_cols=22  Identities=36%  Similarity=0.407  Sum_probs=18.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||++...+..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999887654

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.40  E-value=0.0033  Score=35.81  Aligned_cols=22  Identities=32%  Similarity=0.453  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..|++.|.+|+|||+++..+..
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            4688999999999999988764

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.40  E-value=0.0028  Score=36.29  Aligned_cols=22  Identities=23%  Similarity=0.533  Sum_probs=18.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ...+++.|++|+|||+++..+.
T Consensus        67 ~~~vll~G~~GtGKT~la~~la   88 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVALKMA   88 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHH
Confidence            3468999999999999997544

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=96.40  E-value=0.0024  Score=36.24  Aligned_cols=23  Identities=35%  Similarity=0.560  Sum_probs=19.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.|++|+|||+++..+..
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            45788999999999999988765

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=96.40  E-value=0.0042  Score=34.78  Aligned_cols=23  Identities=22%  Similarity=0.407  Sum_probs=20.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhh
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ....+++.|..|+|||+++.++.
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La   35 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFG   35 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHH
Confidence            35678899999999999999987

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=96.39  E-value=0.0025  Score=34.04  Aligned_cols=19  Identities=21%  Similarity=0.244  Sum_probs=16.4

Q ss_pred             EEEECCCCCchHHHHHHhh
Q 035406           11 LLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~   29 (57)
                      .+++|+.|+|||+++..+.
T Consensus        29 ~~i~G~NGsGKStll~ai~   47 (182)
T 3kta_A           29 TAIVGANGSGKSNIGDAIL   47 (182)
T ss_dssp             EEEEECTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4688999999999998764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.38  E-value=0.0042  Score=35.53  Aligned_cols=22  Identities=32%  Similarity=0.452  Sum_probs=18.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~   69 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAA   69 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3689999999999999987664

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.38  E-value=0.0031  Score=35.80  Aligned_cols=21  Identities=29%  Similarity=0.264  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ..+.++|++|+|||++++.+.
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            468899999999999998776

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.38  E-value=0.0023  Score=35.03  Aligned_cols=23  Identities=26%  Similarity=0.239  Sum_probs=19.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+.+.|.+|+|||+++..+..
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            35678999999999999987653

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.38  E-value=0.0022  Score=36.33  Aligned_cols=23  Identities=26%  Similarity=0.276  Sum_probs=19.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...++++|.+|+|||++...+..
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999988654

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.38  E-value=0.0021  Score=34.19  Aligned_cols=21  Identities=19%  Similarity=0.156  Sum_probs=14.7

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ..+++.|.+|+|||++...+.
T Consensus         6 ~~I~l~G~~GsGKST~a~~La   26 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLH   26 (183)
T ss_dssp             CEEEEECCC----CHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            568899999999999998875

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=96.37  E-value=0.0023  Score=35.79  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=19.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -.-+.+.|.+|+||||+++.+...
T Consensus        20 g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           20 PFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            356789999999999999887653

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.37  E-value=0.0021  Score=38.04  Aligned_cols=22  Identities=36%  Similarity=0.416  Sum_probs=18.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++-+..-
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTS
T ss_pred             EEEEECCCCchHHHHHHHHHcC
Confidence            4679999999999999877653

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=96.36  E-value=0.002  Score=37.55  Aligned_cols=22  Identities=23%  Similarity=0.232  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
T Consensus        45 ~~vll~G~~G~GKT~l~~~~~~   66 (387)
T 2v1u_A           45 SNALLYGLTGTGKTAVARLVLR   66 (387)
T ss_dssp             CCEEECBCTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999988764

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.35  E-value=0.0038  Score=34.29  Aligned_cols=22  Identities=36%  Similarity=0.514  Sum_probs=19.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+.+.|.+|+|||+++..+..
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            6789999999999999998764

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.35  E-value=0.0025  Score=38.31  Aligned_cols=21  Identities=33%  Similarity=0.465  Sum_probs=18.2

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .++++|++|+||||+++.+..
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            578999999999999987654

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.34  E-value=0.0032  Score=34.45  Aligned_cols=22  Identities=18%  Similarity=0.326  Sum_probs=18.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-+.+.|.+|+|||+++.++..
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999988664

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.34  E-value=0.0021  Score=38.62  Aligned_cols=22  Identities=23%  Similarity=0.409  Sum_probs=18.9

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||||++.+.+-.
T Consensus        29 ~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           29 FVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEECCCCccHHHHHHHHHcCC
Confidence            5789999999999999887643

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.33  E-value=0.00079  Score=36.70  Aligned_cols=21  Identities=19%  Similarity=0.355  Sum_probs=17.9

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|.+|+||||++..+..
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            478899999999999988753

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=96.33  E-value=0.0019  Score=41.14  Aligned_cols=25  Identities=32%  Similarity=0.452  Sum_probs=20.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      .+.++|++|+||||+++.+.+-.++
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~~P   71 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVALP   71 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC--
T ss_pred             eEEEECCCCChHHHHHHHHhCCCCC
Confidence            4889999999999999999886544

>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=96.32  E-value=0.0023  Score=39.47  Aligned_cols=25  Identities=24%  Similarity=0.219  Sum_probs=22.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...++++++|..++|||||+.+++.
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            3568999999999999999999864

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.32  E-value=0.004  Score=37.07  Aligned_cols=23  Identities=22%  Similarity=0.247  Sum_probs=19.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+-+.++|++|+||||++..+..
T Consensus        92 p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           92 PYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999987653

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.31  E-value=0.0024  Score=37.26  Aligned_cols=20  Identities=30%  Similarity=0.499  Sum_probs=18.1

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|++|+|||++++.+..
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            89999999999999987765

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.30  E-value=0.0025  Score=37.38  Aligned_cols=21  Identities=24%  Similarity=0.569  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||++++.+..
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            688999999999999998764

>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=96.30  E-value=0.0058  Score=39.16  Aligned_cols=26  Identities=23%  Similarity=0.363  Sum_probs=22.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ....+.++|.+++|||+|++++.+..
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            35778999999999999999998765

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=96.30  E-value=0.00061  Score=40.37  Aligned_cols=22  Identities=36%  Similarity=0.545  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++.+...
T Consensus       175 ~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             EEEEECCCCCCHHHHHHHhccc
Confidence            5789999999999999998764

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.29  E-value=0.0028  Score=38.15  Aligned_cols=21  Identities=29%  Similarity=0.474  Sum_probs=18.3

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .++++|++|+||||++..+..
T Consensus       138 ~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          138 LILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            578999999999999987664

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.29  E-value=0.002  Score=33.65  Aligned_cols=23  Identities=13%  Similarity=0.203  Sum_probs=19.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..+++.|++|+|||.+++.+...
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            45899999999999998877643

>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=96.28  E-value=0.0038  Score=38.29  Aligned_cols=24  Identities=29%  Similarity=0.501  Sum_probs=21.2

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhh
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ....|++++|...+||||+++++.
T Consensus        38 ~~~~klLLLG~geSGKSTi~KQmk   61 (402)
T 1azs_C           38 RATHRLLLLGAGESGKSTIVKQMR   61 (402)
T ss_dssp             TTEEEEEEEESTTSSHHHHHHHHH
T ss_pred             hccceEEEecCCCCchhhHHHHHH
Confidence            347999999999999999999755

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=96.28  E-value=0.0031  Score=36.68  Aligned_cols=22  Identities=23%  Similarity=0.301  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
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            3589999999999999998764

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=96.27  E-value=0.0034  Score=35.99  Aligned_cols=22  Identities=32%  Similarity=0.320  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||++...+..
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            4588999999999999998875

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.27  E-value=0.0027  Score=37.10  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+.++|++|+||||++..+..
T Consensus        81 ~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           81 YIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5678999999999999987765

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.27  E-value=0.0027  Score=36.80  Aligned_cols=22  Identities=23%  Similarity=0.105  Sum_probs=18.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-+++.|++|+|||++++.+..
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4567779999999999987664

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.26  E-value=0.0033  Score=38.74  Aligned_cols=22  Identities=32%  Similarity=0.510  Sum_probs=18.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
T Consensus       202 ~~~LL~G~pG~GKT~la~~la~  223 (468)
T 3pxg_A          202 NNPVLIGEPGVGKTAIAEGLAQ  223 (468)
T ss_dssp             CEEEEESCTTTTTHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHH
Confidence            3679999999999999987654

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.26  E-value=0.0045  Score=33.03  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=18.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|.+|+|||+++..+..
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            4678999999999999887764

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=96.26  E-value=0.0029  Score=36.16  Aligned_cols=21  Identities=33%  Similarity=0.381  Sum_probs=18.1

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+.++|++|+|||+|+..+..
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            367889999999999998775

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=96.25  E-value=0.0032  Score=40.69  Aligned_cols=25  Identities=12%  Similarity=0.101  Sum_probs=22.6

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ....++.++|..++|||||+.+++.
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~   32 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILY   32 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999999984

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.24  E-value=0.0029  Score=38.56  Aligned_cols=21  Identities=38%  Similarity=0.578  Sum_probs=18.1

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.++|++|+|||++++.+.+
T Consensus        49 ~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHhC
Confidence            357899999999999988775

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.24  E-value=0.0035  Score=37.21  Aligned_cols=23  Identities=13%  Similarity=0.316  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||++++.+..-.
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999877643

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.22  E-value=0.0047  Score=34.89  Aligned_cols=23  Identities=22%  Similarity=0.366  Sum_probs=19.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.|.+.|.+|+|||++...+..
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            46788999999999999987754

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=96.22  E-value=0.0033  Score=36.45  Aligned_cols=22  Identities=27%  Similarity=0.378  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      --+++.|++|+|||++++.+..
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            3588999999999999987764

>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=96.22  E-value=0.003  Score=37.03  Aligned_cols=21  Identities=19%  Similarity=0.281  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||+++..+..
T Consensus        47 ~vll~G~~G~GKT~la~~l~~   67 (384)
T 2qby_B           47 SNLFLGLTGTGKTFVSKYIFN   67 (384)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999988765

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.21  E-value=0.0037  Score=34.36  Aligned_cols=21  Identities=33%  Similarity=0.493  Sum_probs=18.0

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ..+++.|.+|+|||+++..+.
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l~   46 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVELE   46 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            457889999999999998764

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.21  E-value=0.0035  Score=36.35  Aligned_cols=20  Identities=25%  Similarity=0.571  Sum_probs=17.7

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|++|+|||+++..+..
T Consensus        61 ~ll~G~~G~GKT~la~~la~   80 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTK   80 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999987654

>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=96.20  E-value=0.0038  Score=35.25  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=19.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..+++.|++|+|||.+++.+...
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCEEEECCCCCcHHHHHHHHHHh
Confidence            46889999999999999887654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.19  E-value=0.0036  Score=37.81  Aligned_cols=21  Identities=24%  Similarity=0.434  Sum_probs=18.0

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+.++|++|+||||++..+..
T Consensus       159 vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          159 VIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCChHHHHHHHHHh
Confidence            567999999999999987654

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.19  E-value=0.0035  Score=36.72  Aligned_cols=20  Identities=30%  Similarity=0.571  Sum_probs=17.9

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|++|+|||+++..+..
T Consensus        49 ~ll~Gp~G~GKTtla~~la~   68 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAR   68 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999987765

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.15  E-value=0.0046  Score=34.15  Aligned_cols=21  Identities=29%  Similarity=0.528  Sum_probs=17.6

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||+|+.++..
T Consensus        32 l~~i~G~pG~GKT~l~l~~~~   52 (251)
T 2zts_A           32 TVLLTGGTGTGKTTFAAQFIY   52 (251)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            357889999999999988753

>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=96.14  E-value=0.002  Score=39.53  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=20.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++++|||||++.+....
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~  181 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAH  181 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSC
T ss_pred             EEEEECCCCCcHHHHHHHHHcCC
Confidence            46899999999999999998763

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=96.14  E-value=0.0021  Score=38.66  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=18.9

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||||++.+.+-.
T Consensus        34 ~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           34 FGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5789999999999999887643

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.13  E-value=0.0057  Score=32.25  Aligned_cols=22  Identities=36%  Similarity=0.366  Sum_probs=18.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|.+|+|||++...+..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999987754

>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=96.11  E-value=0.0045  Score=36.74  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=19.5

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.|++|+|||++++.+..
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            34689999999999999987764

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.11  E-value=0.004  Score=39.32  Aligned_cols=21  Identities=29%  Similarity=0.542  Sum_probs=18.0

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+.++|.+|+||||++..+..
T Consensus       295 VI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          295 VILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCcccHHHHHHHHHH
Confidence            577999999999999987664

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.11  E-value=0.0041  Score=35.74  Aligned_cols=22  Identities=23%  Similarity=0.241  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.++++|.+|+|||++.+.+..
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            3689999999999999987754

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.10  E-value=0.0054  Score=35.06  Aligned_cols=22  Identities=23%  Similarity=0.262  Sum_probs=19.3

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .+.+.+.|++|+|||++...+.
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            4678999999999999998765

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=96.09  E-value=0.0031  Score=37.06  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -++++|..|+||||+++.+...
T Consensus         6 v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEEEecCCCCHHHHHHHHHhh
Confidence            3568899999999999998864

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=96.09  E-value=0.0066  Score=34.83  Aligned_cols=23  Identities=30%  Similarity=0.359  Sum_probs=19.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhh
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ..+++++.|.+|+|||+++.+..
T Consensus         5 g~l~I~~~~kgGvGKTt~a~~la   27 (228)
T 2r8r_A            5 GRLKVFLGAAPGVGKTYAMLQAA   27 (228)
T ss_dssp             CCEEEEEESSTTSSHHHHHHHHH
T ss_pred             ceEEEEEECCCCCcHHHHHHHHH
Confidence            46899999999999999976544

>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=96.09  E-value=0.0029  Score=36.41  Aligned_cols=22  Identities=36%  Similarity=0.481  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|++|+|||+++..+..
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            4588999999999999988754

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.08  E-value=0.0057  Score=34.17  Aligned_cols=26  Identities=23%  Similarity=0.185  Sum_probs=20.8

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhc
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.....+.++|.+|+|||++...+..
T Consensus        13 ~~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           13 KMKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             -CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            44556889999999999999887664

>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=96.06  E-value=0.0066  Score=36.35  Aligned_cols=22  Identities=23%  Similarity=0.528  Sum_probs=18.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-+++.|++|+|||++...+..
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            3467899999999999998764

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.06  E-value=0.0044  Score=36.40  Aligned_cols=22  Identities=36%  Similarity=0.430  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
T Consensus        46 ~~iLL~GppGtGKT~la~ala~   67 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVAT   67 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHH
Confidence            4688999999999999998775

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.06  E-value=0.0044  Score=38.07  Aligned_cols=21  Identities=29%  Similarity=0.332  Sum_probs=18.3

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -++++|+.|+||||+++.+..
T Consensus       169 ii~I~GpnGSGKTTlL~allg  189 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQ  189 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHh
Confidence            468999999999999998765

>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=96.05  E-value=0.0048  Score=37.51  Aligned_cols=22  Identities=18%  Similarity=0.211  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-++++|.+|+|||++++++..
T Consensus       259 ~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          259 EVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4577899999999999998764

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.05  E-value=0.0036  Score=38.82  Aligned_cols=22  Identities=23%  Similarity=0.492  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++-+.+-
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            5789999999999999976653

>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=96.04  E-value=0.0045  Score=36.15  Aligned_cols=22  Identities=36%  Similarity=0.410  Sum_probs=19.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
T Consensus        52 ~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           52 SGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             CEEEEECSSSSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4689999999999999988764

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.04  E-value=0.0045  Score=37.07  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=19.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ++.++|++|+|||+|++.+....
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            56799999999999998887653

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.04  E-value=0.0063  Score=34.25  Aligned_cols=23  Identities=13%  Similarity=0.143  Sum_probs=19.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.|.+|+|||+++..+..
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~   48 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYH   48 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            35688999999999999988764

>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=96.03  E-value=0.0059  Score=34.63  Aligned_cols=23  Identities=39%  Similarity=0.577  Sum_probs=19.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..+++.|++|+|||+++..+...
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999988754

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=96.02  E-value=0.0047  Score=37.11  Aligned_cols=23  Identities=26%  Similarity=0.505  Sum_probs=20.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .++.++|.+++|||||++.+...
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            57899999999999999998864

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.02  E-value=0.0058  Score=35.81  Aligned_cols=23  Identities=43%  Similarity=0.534  Sum_probs=19.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-.+++.|++|+|||.++..+..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            35788999999999999876654

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=96.02  E-value=0.0072  Score=38.11  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+||||+++-..+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            56799999999999999877543

>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=96.01  E-value=0.0043  Score=40.88  Aligned_cols=26  Identities=19%  Similarity=0.202  Sum_probs=22.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ....++.++|..++|||||+.+++..
T Consensus        17 ~~~rnI~IiG~~~~GKTTL~~~Ll~~   42 (842)
T 1n0u_A           17 TNVRNMSVIAHVDHGKSTLTDSLVQR   42 (842)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHH
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHh
Confidence            45689999999999999999998853

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.00  E-value=0.008  Score=37.82  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||||++.+.+-.
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46789999999999999887643

>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=95.99  E-value=0.006  Score=38.46  Aligned_cols=22  Identities=27%  Similarity=0.324  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+||||+++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhc
Confidence            5689999999999999987754

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.97  E-value=0.0053  Score=38.54  Aligned_cols=22  Identities=18%  Similarity=0.308  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .++++|++|+||||+++.+..-
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~  283 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMF  283 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4889999999999999987754

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.96  E-value=0.0063  Score=35.17  Aligned_cols=22  Identities=41%  Similarity=0.489  Sum_probs=19.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .+.|.+.|.+|+|||+++..+.
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            5678999999999999998876

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.95  E-value=0.0078  Score=36.00  Aligned_cols=22  Identities=32%  Similarity=0.575  Sum_probs=18.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..++++|++|+|||++...+..
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            3688999999999999887654

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=95.93  E-value=0.0038  Score=37.60  Aligned_cols=20  Identities=20%  Similarity=0.491  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      ++.++|..++|||||+.++.
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            89999999999999999998

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=95.93  E-value=0.006  Score=36.22  Aligned_cols=23  Identities=26%  Similarity=0.286  Sum_probs=19.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.|++|+|||+++..+..
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            34689999999999999988764

>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=95.92  E-value=0.0069  Score=39.25  Aligned_cols=26  Identities=12%  Similarity=-0.006  Sum_probs=22.9

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhc
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .....++.++|..++|||||+.+++.
T Consensus         7 ~~~~~~I~IiG~~~~GKTTL~~~Ll~   32 (704)
T 2rdo_7            7 IARYRNIGISAHIDAGKTTTTERILF   32 (704)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHH
Confidence            35578999999999999999999974

>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=95.92  E-value=0.0059  Score=35.63  Aligned_cols=21  Identities=29%  Similarity=0.438  Sum_probs=18.0

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||+++..+..
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            368999999999999987764

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=95.91  E-value=0.0019  Score=36.44  Aligned_cols=21  Identities=33%  Similarity=0.493  Sum_probs=18.1

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||+++..+..
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            378899999999999987764

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=95.91  E-value=0.015  Score=35.41  Aligned_cols=25  Identities=32%  Similarity=0.444  Sum_probs=21.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..++.++|.++||||||++.+....
T Consensus        72 ~a~V~ivG~PNvGKSTL~n~Lt~~~   96 (376)
T 4a9a_A           72 VASVGFVGFPSVGKSTLLSKLTGTE   96 (376)
T ss_dssp             SEEEEEECCCCHHHHHHHHHHHSBC
T ss_pred             CCeEEEECCCCCCHHHHHHHHhCCC
Confidence            3579999999999999999998743

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.90  E-value=0.0068  Score=36.56  Aligned_cols=21  Identities=38%  Similarity=0.583  Sum_probs=18.6

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -++++|++|+|||+|...+..
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~   62 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAA   62 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999988775

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=95.89  E-value=0.0055  Score=37.50  Aligned_cols=21  Identities=29%  Similarity=0.561  Sum_probs=18.4

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||++++.+..
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            578999999999999987764

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=95.89  E-value=0.0032  Score=36.55  Aligned_cols=21  Identities=33%  Similarity=0.515  Sum_probs=18.6

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||++++.+..
T Consensus        47 ~vLl~G~~GtGKT~la~~la~   67 (350)
T 1g8p_A           47 GVLVFGDRGTGKSTAVRALAA   67 (350)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            489999999999999988764

>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=95.88  E-value=0.0065  Score=34.76  Aligned_cols=22  Identities=36%  Similarity=0.584  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+++.|++|+|||+++..+...
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            3899999999999999877643

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.88  E-value=0.0057  Score=37.68  Aligned_cols=23  Identities=39%  Similarity=0.421  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ++.++|++|+|||+|++.+....
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            56789999999999998877643

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=95.87  E-value=0.007  Score=37.61  Aligned_cols=22  Identities=27%  Similarity=0.288  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+.+.|.+|+|||+++..+...
T Consensus       149 ~v~I~G~~GiGKTtLa~~~~~~  170 (591)
T 1z6t_A          149 WVTIHGMAGCGKSVLAAEAVRD  170 (591)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             eEEEEcCCCCCHHHHHHHHHhc
Confidence            4679999999999999988643

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=95.87  E-value=0.0067  Score=35.86  Aligned_cols=23  Identities=35%  Similarity=0.453  Sum_probs=19.5

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.|++|+|||++++.+..
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            35689999999999999987764

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=95.87  E-value=0.0071  Score=35.83  Aligned_cols=22  Identities=32%  Similarity=0.505  Sum_probs=19.3

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ...+.++|.+|+||||++..+.
T Consensus        56 ~~~i~i~G~~g~GKSTl~~~l~   77 (341)
T 2p67_A           56 TLRLGVTGTPGAGKSTFLEAFG   77 (341)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Confidence            4577899999999999999885

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=95.87  E-value=0.0083  Score=38.45  Aligned_cols=25  Identities=24%  Similarity=0.304  Sum_probs=20.3

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +...++.++|..++|||||+.+++.
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

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=95.86  E-value=0.0038  Score=36.29  Aligned_cols=21  Identities=24%  Similarity=0.320  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||++++.+..
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            588999999999999987764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=95.85  E-value=0.0061  Score=37.57  Aligned_cols=21  Identities=29%  Similarity=0.422  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||++++.+..
T Consensus        52 ~vLL~GppGtGKTtlAr~ia~   72 (447)
T 3pvs_A           52 SMILWGPPGTGKTTLAEVIAR   72 (447)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            589999999999999998764

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=95.84  E-value=0.0063  Score=36.18  Aligned_cols=22  Identities=36%  Similarity=0.410  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
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            3589999999999999987764

>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=95.84  E-value=0.007  Score=36.34  Aligned_cols=21  Identities=24%  Similarity=0.420  Sum_probs=18.3

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||++...+..
T Consensus         5 ~i~i~GptgsGKt~la~~La~   25 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAK   25 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHHH
Confidence            467899999999999998864

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=95.84  E-value=0.0062  Score=33.68  Aligned_cols=21  Identities=29%  Similarity=0.381  Sum_probs=18.9

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      ++++|.+++|||+++.++...
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            688999999999999998855

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=95.82  E-value=0.0066  Score=36.30  Aligned_cols=22  Identities=36%  Similarity=0.394  Sum_probs=19.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|++|+|||++++.+..
T Consensus       149 ~~vLL~GppGtGKT~la~aia~  170 (389)
T 3vfd_A          149 RGLLLFGPPGNGKTMLAKAVAA  170 (389)
T ss_dssp             SEEEEESSTTSCHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999998764

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=95.79  E-value=0.0079  Score=39.67  Aligned_cols=27  Identities=30%  Similarity=0.525  Sum_probs=24.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ...+++++|+.++||||+++.+.+..+
T Consensus        50 ~lp~I~vvG~~saGKSSllnaL~g~~~   76 (772)
T 3zvr_A           50 DLPQIAVVGGQSAGKSSVLENFVGRDF   76 (772)
T ss_dssp             CCSEEEEEECTTTCHHHHHHHHHSSCC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCc
Confidence            356999999999999999999999776

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.78  E-value=0.0074  Score=36.34  Aligned_cols=22  Identities=27%  Similarity=0.596  Sum_probs=18.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-+++.|++|+|||++...+..
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            3578999999999999987654

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.78  E-value=0.0066  Score=35.56  Aligned_cols=20  Identities=30%  Similarity=0.600  Sum_probs=17.4

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      .+.++|.+|+|||+++..+.
T Consensus       107 vi~lvG~~GsGKTTl~~~LA  126 (296)
T 2px0_A          107 YIVLFGSTGAGKTTTLAKLA  126 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            57789999999999988765

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=95.77  E-value=0.0052  Score=36.94  Aligned_cols=23  Identities=26%  Similarity=0.509  Sum_probs=20.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .++.++|.+++|||++++.+...
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            57899999999999999998864

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.76  E-value=0.0079  Score=31.80  Aligned_cols=19  Identities=42%  Similarity=0.543  Sum_probs=15.9

Q ss_pred             EEEECCCCCchHHHHHHhh
Q 035406           11 LLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~   29 (57)
                      .+++|+.|+|||+++..+.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            3678999999999988654

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.76  E-value=0.0083  Score=38.01  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+||||+++-...-
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRF  404 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            5689999999999999877654

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.75  E-value=0.01  Score=37.98  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+||||+++.+.+-.
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            35789999999999999887643

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=95.75  E-value=0.0051  Score=36.30  Aligned_cols=21  Identities=24%  Similarity=0.412  Sum_probs=17.3

Q ss_pred             eEEE--ECCCCCchHHHHHHhhc
Q 035406           10 KLLL--IGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~v--iG~~~vGKtsl~~~~~~   30 (57)
                      -+++  .|++|+|||+++..+..
T Consensus        52 ~~li~i~G~~G~GKT~L~~~~~~   74 (412)
T 1w5s_A           52 NMIYGSIGRVGIGKTTLAKFTVK   74 (412)
T ss_dssp             EEEEECTTCCSSSHHHHHHHHHH
T ss_pred             EEEEeCcCcCCCCHHHHHHHHHH
Confidence            3555  69999999999998764

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=95.74  E-value=0.0076  Score=34.36  Aligned_cols=21  Identities=29%  Similarity=0.495  Sum_probs=18.0

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||+++..+..
T Consensus        40 ~~ll~G~~G~GKt~la~~l~~   60 (319)
T 2chq_A           40 HLLFSGPPGTGKTATAIALAR   60 (319)
T ss_dssp             CEEEESSSSSSHHHHHHHHHH
T ss_pred             eEEEECcCCcCHHHHHHHHHH
Confidence            389999999999999987654

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.74  E-value=0.0077  Score=34.38  Aligned_cols=20  Identities=20%  Similarity=0.423  Sum_probs=17.7

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|++|+|||+++..+..
T Consensus        45 ~ll~G~~G~GKt~la~~l~~   64 (323)
T 1sxj_B           45 MIISGMPGIGKTTSVHCLAH   64 (323)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHH
Confidence            89999999999999887654

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.73  E-value=0.0066  Score=37.81  Aligned_cols=19  Identities=32%  Similarity=0.579  Sum_probs=16.9

Q ss_pred             eEEEECCCCCchHHHHHHh
Q 035406           10 KLLLIGDSSVGKSCLLLRF   28 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~   28 (57)
                      -+.++|++|+|||+|+..+
T Consensus        41 ~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           41 STLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            3678999999999999996

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=95.72  E-value=0.0069  Score=36.13  Aligned_cols=22  Identities=23%  Similarity=0.163  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+.++|++|+|||+|+..+...
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            3568899999999999988753

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=95.71  E-value=0.0072  Score=37.97  Aligned_cols=21  Identities=38%  Similarity=0.469  Sum_probs=18.0

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .++++|++|+|||++++.+..
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            478999999999999987653

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.71  E-value=0.0072  Score=38.11  Aligned_cols=22  Identities=27%  Similarity=0.279  Sum_probs=18.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+||||+++....-
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4679999999999999876643

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=95.70  E-value=0.0077  Score=37.75  Aligned_cols=21  Identities=29%  Similarity=0.381  Sum_probs=17.4

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.++|++|+|||||+..+..
T Consensus        31 ~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHhc
Confidence            356899999999999987654

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.68  E-value=0.008  Score=36.49  Aligned_cols=22  Identities=23%  Similarity=0.256  Sum_probs=18.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+.++|++|+|||+++..+..
T Consensus       170 ~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          170 RYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3578999999999999987663

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=95.67  E-value=0.0091  Score=35.23  Aligned_cols=21  Identities=19%  Similarity=0.385  Sum_probs=17.9

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+.++|++|+|||+++..+..
T Consensus       106 vi~ivG~~GsGKTTl~~~LA~  126 (306)
T 1vma_A          106 VIMVVGVNGTGKTTSCGKLAK  126 (306)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCChHHHHHHHHHH
Confidence            467999999999999987664

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.66  E-value=0.011  Score=37.24  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=18.7

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||||++.+.+-.
T Consensus        28 ~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           28 LGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            4689999999999999887643

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.66  E-value=0.0084  Score=38.72  Aligned_cols=22  Identities=32%  Similarity=0.510  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
T Consensus       202 ~~vLL~G~pGtGKT~la~~la~  223 (758)
T 3pxi_A          202 NNPVLIGEPGVGKTAIAEGLAQ  223 (758)
T ss_dssp             CEEEEESCTTTTTHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999887654

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.64  E-value=0.01  Score=32.02  Aligned_cols=21  Identities=33%  Similarity=0.366  Sum_probs=17.9

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.+.|.+|+|||++...+..
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            578999999999999887654

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.62  E-value=0.0084  Score=37.26  Aligned_cols=22  Identities=23%  Similarity=0.286  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      --+++.|++|+|||+++..+..
T Consensus        78 ~~lLL~GppGtGKTtla~~la~   99 (516)
T 1sxj_A           78 RAAMLYGPPGIGKTTAAHLVAQ   99 (516)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999988764

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.60  E-value=0.013  Score=37.41  Aligned_cols=23  Identities=17%  Similarity=0.277  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||||++.+.+-.
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            46789999999999999887643

>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=95.59  E-value=0.0092  Score=33.81  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=19.5

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...|++.|..|+||||++..+..
T Consensus        24 ~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           24 IKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999987664

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=95.59  E-value=0.0096  Score=38.33  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
T Consensus       208 ~~vlL~G~~GtGKT~la~~la~  229 (758)
T 1r6b_X          208 NNPLLVGESGVGKTAIAEGLAW  229 (758)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEcCCCCCHHHHHHHHHH
Confidence            4679999999999999887654

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.58  E-value=0.01  Score=34.78  Aligned_cols=20  Identities=30%  Similarity=0.531  Sum_probs=17.7

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|.+|+|||+|+.++..
T Consensus        71 ~li~G~pG~GKTtl~l~ia~   90 (315)
T 3bh0_A           71 VLIAARPSMGKTAFALKQAK   90 (315)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            67889999999999998874

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.58  E-value=0.0091  Score=33.30  Aligned_cols=22  Identities=36%  Similarity=0.625  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+++.|++|+|||+++..+...
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            4789999999999999988753

>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=95.57  E-value=0.0083  Score=36.63  Aligned_cols=20  Identities=35%  Similarity=0.326  Sum_probs=17.4

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      -+.++|++|+|||+|+..+.
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            35788999999999999775

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=95.56  E-value=0.01  Score=34.65  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|++|+|||.+++.+..
T Consensus        26 ~~vLi~Ge~GtGKt~lAr~i~~   47 (304)
T 1ojl_A           26 ATVLIHGDSGTGKELVARALHA   47 (304)
T ss_dssp             SCEEEESCTTSCHHHHHHHHHH
T ss_pred             CcEEEECCCCchHHHHHHHHHH
Confidence            4688999999999999987765

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=95.54  E-value=0.0095  Score=36.47  Aligned_cols=22  Identities=36%  Similarity=0.430  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
T Consensus       168 ~~vLL~GppGtGKT~lA~aia~  189 (444)
T 2zan_A          168 RGILLFGPPGTGKSYLAKAVAT  189 (444)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999988775

>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=95.51  E-value=0.012  Score=40.73  Aligned_cols=26  Identities=19%  Similarity=0.148  Sum_probs=22.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ...++++++|..++|||||+.++...
T Consensus       294 k~~lnIvIIGhvDvGKSTLInrLt~~  319 (1289)
T 3avx_A          294 KPHVNVGTIGHVDHGKTTLTAAITTV  319 (1289)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHHhh
Confidence            45689999999999999999998863

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.51  E-value=0.01  Score=37.55  Aligned_cols=22  Identities=23%  Similarity=0.356  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+||||+++....-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5689999999999999877653

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.51  E-value=0.013  Score=33.52  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=19.7

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhc
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -...+++-++|.+|+|||+++.++..
T Consensus         5 ~~~~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            5 HHHHMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             ----CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccccceeeECCCCCCHHHHHHHHHH
Confidence            34568899999999999999987754

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.47  E-value=0.013  Score=36.82  Aligned_cols=22  Identities=23%  Similarity=0.338  Sum_probs=19.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||.+++.+..
T Consensus        42 ~~VLL~GpPGtGKT~LAraLa~   63 (500)
T 3nbx_X           42 ESVFLLGPPGIAKSLIARRLKF   63 (500)
T ss_dssp             CEEEEECCSSSSHHHHHHHGGG
T ss_pred             CeeEeecCchHHHHHHHHHHHH
Confidence            3689999999999999998765

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.43  E-value=0.012  Score=35.22  Aligned_cols=19  Identities=26%  Similarity=0.417  Sum_probs=16.2

Q ss_pred             EEEECCCCCchHHHHHHhh
Q 035406           11 LLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~   29 (57)
                      .+++|+.|+||||++..+.
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            4589999999999998755

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.43  E-value=0.0063  Score=35.48  Aligned_cols=22  Identities=23%  Similarity=0.296  Sum_probs=15.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +-+.+.|.+|+|||+++..+..
T Consensus         6 ~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            6 PIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             CEEEEESCC---CCTHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999987764

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=95.39  E-value=0.0065  Score=38.87  Aligned_cols=24  Identities=25%  Similarity=0.259  Sum_probs=17.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...++.++|..++|||||+.+++.
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            357899999999999999999975

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.38  E-value=0.016  Score=36.51  Aligned_cols=22  Identities=14%  Similarity=0.371  Sum_probs=18.9

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||+|++.+.+-.
T Consensus       297 ~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          297 IGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5789999999999999887643

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.37  E-value=0.012  Score=37.33  Aligned_cols=22  Identities=41%  Similarity=0.542  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .++++|++|+|||++++.+...
T Consensus        62 ~vll~Gp~GtGKTtlar~ia~~   83 (604)
T 3k1j_A           62 HVLLIGEPGTGKSMLGQAMAEL   83 (604)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHhcc
Confidence            5789999999999999988764

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.37  E-value=0.017  Score=36.91  Aligned_cols=23  Identities=17%  Similarity=0.371  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|+.|+|||+|++.+.+-.
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            35799999999999999888643

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=95.37  E-value=0.012  Score=36.73  Aligned_cols=21  Identities=33%  Similarity=0.507  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||++++.+..
T Consensus        51 gvLL~GppGtGKT~Laraia~   71 (476)
T 2ce7_A           51 GILLVGPPGTGKTLLARAVAG   71 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999988764

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.35  E-value=0.013  Score=35.87  Aligned_cols=22  Identities=27%  Similarity=0.517  Sum_probs=18.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+++.|++|+|||+|+..+...
T Consensus       205 liiI~G~pG~GKTtl~l~ia~~  226 (454)
T 2r6a_A          205 LIIVAARPSVGKTAFALNIAQN  226 (454)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3678899999999999987754

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.31  E-value=0.021  Score=35.93  Aligned_cols=23  Identities=17%  Similarity=0.371  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|+.|+|||+|++.+.+-.
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999888653

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.30  E-value=0.013  Score=36.17  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      --+++.|++|+|||.++..+..
T Consensus       207 rGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          207 RGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999998764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=95.29  E-value=0.012  Score=36.88  Aligned_cols=21  Identities=38%  Similarity=0.548  Sum_probs=18.4

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||++++.+..
T Consensus        66 GvLL~GppGtGKTtLaraIa~   86 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAG   86 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            389999999999999987764

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.29  E-value=0.021  Score=31.43  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=20.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.+.+.|..|+|||++...+..
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            57788999999999999988764

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=95.25  E-value=0.014  Score=36.41  Aligned_cols=21  Identities=29%  Similarity=0.339  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+.++|.+|+|||+|+..+..
T Consensus       154 vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          154 FLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            456899999999999999885

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=95.24  E-value=0.013  Score=36.25  Aligned_cols=21  Identities=33%  Similarity=0.602  Sum_probs=17.7

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||++...+..
T Consensus         4 ~i~i~GptgsGKttla~~La~   24 (409)
T 3eph_A            4 VIVIAGTTGVGKSQLSIQLAQ   24 (409)
T ss_dssp             EEEEEECSSSSHHHHHHHHHH
T ss_pred             EEEEECcchhhHHHHHHHHHH
Confidence            467899999999999887653

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=95.18  E-value=0.014  Score=34.84  Aligned_cols=22  Identities=36%  Similarity=0.549  Sum_probs=19.4

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+++.|++|+|||+++..+...
T Consensus       146 ~vl~~G~sG~GKSt~a~~l~~~  167 (314)
T 1ko7_A          146 GVLITGDSGIGKSETALELIKR  167 (314)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHhc
Confidence            5789999999999999988864

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=95.17  E-value=0.01  Score=35.37  Aligned_cols=22  Identities=14%  Similarity=0.039  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++....
T Consensus        46 ~~lli~GpPGTGKT~~v~~v~~   67 (318)
T 3te6_A           46 KLFYITNADDSTKFQLVNDVMD   67 (318)
T ss_dssp             CEEEEECCCSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999987764

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.16  E-value=0.013  Score=36.49  Aligned_cols=22  Identities=32%  Similarity=0.626  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+.++|++|+|||+|+..+...
T Consensus       283 i~~i~G~~GsGKSTLl~~l~g~  304 (525)
T 1tf7_A          283 IILATGATGTGKTLLVSRFVEN  304 (525)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            3678899999999999988753

---

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	57
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	8e-17
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	5e-15
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	1e-14
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-14
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	2e-13
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	7e-13
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	1e-12
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	1e-12
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	1e-12
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	3e-12
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	4e-12
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	7e-12
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	7e-12
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	9e-12
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	1e-11
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-11
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	2e-11
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	2e-11
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	3e-11
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	3e-11
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	4e-11
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	4e-11
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	4e-11
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	4e-11
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	5e-11
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	6e-11
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	6e-11
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	6e-11
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	6e-11
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	1e-10
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	2e-10
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	2e-10
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	2e-10
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	3e-10
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	4e-10
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	5e-10
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	6e-10
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	2e-09
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	2e-09
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	4e-09
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	6e-09
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	8e-09
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	1e-08
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	1e-08
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	2e-08
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	2e-08
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	5e-08
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-07
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-07
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-07
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	2e-07
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	2e-07
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	3e-07
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	3e-07
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	3e-07
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	2e-06
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	2e-04
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	8e-04

>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 = 67.6 bits (164), Expect = 8e-17
 Identities = 36/55 (65%), Positives = 42/55 (76%)

Query: 3  NEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV 57
          +EYDYLFKLLLIG+S VGKSCLLLRF+DD+Y + YISTIGVDF   +       V
Sbjct: 1  SEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTV 55

>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 = 62.6 bits (151), Expect = 5e-15
 Identities = 22/54 (40%), Positives = 33/54 (61%)

Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV 57
          +YDYL KLL +GDS VGK+  L R+ D+ +   +I+T+G+DF     +Y     
Sbjct: 1  DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGP 54

>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 = 61.7 bits (149), Expect = 1e-14
 Identities = 28/42 (66%), Positives = 37/42 (88%)

Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           YDYLFKLLLIGDS VGK+C+L RF++D++  ++ISTIG+DF
Sbjct: 2  TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDF 43

>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 = 61.0 bits (147), Expect = 2e-14
 Identities = 21/44 (47%), Positives = 32/44 (72%)

Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          +YD+LFK++LIG++ VGK+CL+ RF    +     +TIGVDF+ 
Sbjct: 1  DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMI 44

>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 = 58.6 bits (140), Expect = 2e-13
 Identities = 15/38 (39%), Positives = 27/38 (71%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          L K++++GDS VGK+ L+ ++ +  + + Y +TIG DF
Sbjct: 2  LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADF 39

>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 = 56.9 bits (136), Expect = 7e-13
 Identities = 12/37 (32%), Positives = 25/37 (67%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           KL+++GD + GK+CLL+  + D + + Y+ T+  ++
Sbjct: 3  KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY 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 = 56.9 bits (136), Expect = 1e-12
 Identities = 14/42 (33%), Positives = 30/42 (71%), Gaps = 1/42 (2%)

Query: 1  MSN-EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          M++     + K +++GD +VGK+CLL+ +A+D++ + Y+ T+
Sbjct: 1  MAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV 42

>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 = 56.4 bits (135), Expect = 1e-12
 Identities = 25/41 (60%), Positives = 30/41 (73%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          YDYLFK++LIGDS VGKS LL RF  + +     STIGV+F
Sbjct: 1  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEF 41

>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 = 56.6 bits (135), Expect = 1e-12
 Identities = 11/37 (29%), Positives = 24/37 (64%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           K +++GD +VGK+CLL+ +  + +   Y+ T+  ++
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNY 40

>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 = 55.3 bits (132), Expect = 3e-12
 Identities = 24/55 (43%), Positives = 38/55 (69%), Gaps = 1/55 (1%)

Query: 4  EYDYLFKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDFVSLSSIYMYICV 57
           YD  FK++L+GDS VGK+CLL+RF D +++  ++IST+G+DF +       + V
Sbjct: 2  FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKV 56

>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 = 54.9 bits (131), Expect = 4e-12
 Identities = 23/53 (43%), Positives = 38/53 (71%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV 57
          +DY+FK+L+IG+SSVGK+  L R+ADDS+  +++ST+G+DF   +       +
Sbjct: 2  FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRI 54

>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 = 54.6 bits (130), Expect = 7e-12
 Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 2/49 (4%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV 57
           KLLL+G    GKS  + +        S + T G+         +   +
Sbjct: 3  LKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYPFDLQSVIFRM 49

>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 = 54.0 bits (129), Expect = 7e-12
 Identities = 24/38 (63%), Positives = 32/38 (84%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          + K+LLIGDS VGKSCLL+RF +D +  S+I+TIG+DF
Sbjct: 2  IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDF 39

>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 = 54.2 bits (129), Expect = 9e-12
 Identities = 22/43 (51%), Positives = 30/43 (69%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS 47
          YD+LFK L+IG++  GKSCLL +F +  + D    TIGV+F S
Sbjct: 2  YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGS 44

>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 = 53.7 bits (128), Expect = 1e-11
 Identities = 18/38 (47%), Positives = 25/38 (65%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIG 42
          Y Y+FK ++IGD  VGKSCLL +F +  ++     TIG
Sbjct: 1  YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIG 38

>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 = 53.3 bits (127), Expect = 2e-11
 Identities = 22/51 (43%), Positives = 31/51 (60%)

Query: 7  YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV 57
          YLFK ++IGD+ VGKSCLLL+F D  +   +  TIGV+F +         +
Sbjct: 2  YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQI 52

>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 = 2e-11
 Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 4/45 (8%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS 49
          Y    +LLL+G    GKS ++ +      V     T G+      
Sbjct: 3  YRATHRLLLLGAGESGKSTIVKQMRILHVV----LTSGIFETKFQ 43

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score = 53.0 bits (126), Expect = 2e-11
 Identities = 14/49 (28%), Positives = 23/49 (46%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
          L K++++G   VGKS L L+F  D +V+ Y  T    +     +     
Sbjct: 4  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEV 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 = 52.7 bits (125), Expect = 3e-11
 Identities = 11/33 (33%), Positives = 17/33 (51%)

Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYI 38
              KL+++G   VGKS L ++F    +V  Y 
Sbjct: 4  SETHKLVVVGGGGVGKSALTIQFIQSYFVSDYD 36

>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 = 52.8 bits (125), Expect = 3e-11
 Identities = 18/50 (36%), Positives = 30/50 (60%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV 57
          + K++++GDS VGK+ L+ R+ +D Y   Y +TIG DF++         V
Sbjct: 2  ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKV 51

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.3 bits (124), Expect = 4e-11
 Identities = 14/48 (29%), Positives = 23/48 (47%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
          FKL+L+GD   GK+  + R     +   Y++T+GV+   L        
Sbjct: 4  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP 51

>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 = 52.3 bits (124), Expect = 4e-11
 Identities = 16/48 (33%), Positives = 27/48 (56%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
          +++ + G   VGKS L+LRF   ++ +SYI T+   +  + S    IC
Sbjct: 3  YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSIC 50

>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 = 52.3 bits (124), Expect = 4e-11
 Identities = 17/40 (42%), Positives = 25/40 (62%)

Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
            LFK++L+GD  VGKS L+ R+  + +      TIGV+F
Sbjct: 4  SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEF 43

>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 = 52.3 bits (124), Expect = 4e-11
 Identities = 20/47 (42%), Positives = 29/47 (61%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMY 54
          +FK+++IGDS+VGK+CL  RF    + D   +TIGVDF   +     
Sbjct: 2  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDG 48

>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 = 51.9 bits (123), Expect = 5e-11
 Identities = 15/48 (31%), Positives = 24/48 (50%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
          +KL+++G   VGKS L ++   + +VD Y  TI   +     I    C
Sbjct: 4  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETC 51

>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 = 52.0 bits (123), Expect = 6e-11
 Identities = 14/47 (29%), Positives = 27/47 (57%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
          K++++GDS  GK+ LL  FA D + ++Y+ T+  ++ +   I     
Sbjct: 4  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRI 50

>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 = 52.0 bits (123), Expect = 6e-11
 Identities = 12/35 (34%), Positives = 20/35 (57%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGV 43
          ++L+++G   VGKS L ++F    +V  Y  TI  
Sbjct: 6  YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIED 40

>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 = 51.9 bits (123), Expect = 6e-11
 Identities = 12/48 (25%), Positives = 27/48 (56%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
           K +++GD +VGK+CLL+ +  +++   YI T+  ++ +   +     
Sbjct: 6  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPV 53

>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 = 52.2 bits (124), Expect = 6e-11
 Identities = 11/50 (22%), Positives = 17/50 (34%), Gaps = 3/50 (6%)

Query: 8  LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV 57
          L K+LL+G    GKS  L +            T G+         +   +
Sbjct: 2  LVKILLLGAGESGKSTFLKQMRII---HGQDPTKGIHEYDFEIKNVPFKM 48

>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 = 51.1 bits (121), Expect = 1e-10
 Identities = 14/49 (28%), Positives = 25/49 (51%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV 57
          +KL+++G   VGKS L ++F    +V+ Y  TI   +     +    C+
Sbjct: 4  YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCM 52

>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 = 50.3 bits (119), Expect = 2e-10
 Identities = 16/33 (48%), Positives = 25/33 (75%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
          FKL+ +G+ SVGK+ L+ RF  DS+ ++Y +TI
Sbjct: 1  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATI 33

>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 = 50.3 bits (119), Expect = 2e-10
 Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV 57
          +K++++G   VGKS L ++F   ++++ Y  TI  DF            
Sbjct: 4  YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPS 51

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 50.4 bits (119), Expect = 2e-10
 Identities = 14/37 (37%), Positives = 22/37 (59%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          +KL+++GD  VGKS L ++F    +V  Y  TI   +
Sbjct: 5  YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY 41

>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 = 50.0 bits (118), Expect = 3e-10
 Identities = 12/33 (36%), Positives = 19/33 (57%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
           KL + G + VGKS L++RF    ++  Y  T+
Sbjct: 3  VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTL 35

>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 = 49.8 bits (118), Expect = 4e-10
 Identities = 24/44 (54%), Positives = 31/44 (70%), Gaps = 2/44 (4%)

Query: 4  EYDYL--FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
          + D L   K+L+IG+S VGKS LLLRF DD++     +TIGVDF
Sbjct: 1  DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDF 44

>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 = 49.3 bits (116), Expect = 5e-10
 Identities = 20/49 (40%), Positives = 30/49 (61%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV 57
          FKL+L+G+S+VGKS L+LRF    + +   STIG  F++ +       V
Sbjct: 7  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTV 55

>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 = 49.0 bits (115), Expect = 6e-10
 Identities = 15/33 (45%), Positives = 22/33 (66%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTI 41
           K+ ++G  SVGKS L ++F +  +VDSY  TI
Sbjct: 5  RKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTI 37

>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 = 48.0 bits (113), Expect = 2e-09
 Identities = 13/33 (39%), Positives = 25/33 (75%)

Query: 7  YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYIS 39
          Y FK++L+G+  VGK+ L+LR+ ++ + D +I+
Sbjct: 2  YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHIT 34

>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 = 47.8 bits (112), Expect = 2e-09
 Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 2/48 (4%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
          +K+LL+G   VGKS L   F      D   +         S +     
Sbjct: 2  YKVLLLGAPGVGKSALARIFGGVE--DGPEAEAAGHTYDRSIVVDGEE 47

>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 = 46.9 bits (110), Expect = 4e-09
 Identities = 17/48 (35%), Positives = 28/48 (58%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
           K+ L+GD+ VGKS ++ RF +DS+  +   TIG  F++ +  Y    
Sbjct: 5  LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNEL 52

>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 = 46.9 bits (110), Expect = 6e-09
 Identities = 11/48 (22%), Positives = 17/48 (35%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
           KLLL+G    GKS ++ +        + I      F  L      + 
Sbjct: 3  VKLLLLGAGESGKSTIVKQMKIIHEAGTGIVETHFTFKDLHFKMFDVG 50

>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 = 46.3 bits (108), Expect = 8e-09
 Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 1/37 (2%)

Query: 6  DYLFKLLLIGDSSVGKSCLLLRFADDSY-VDSYISTI 41
          +  ++++LIG+  VGKS L   FA     +DS    +
Sbjct: 1  NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVL 37

>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 = 45.8 bits (107), Expect = 1e-08
 Identities = 10/49 (20%), Positives = 22/49 (44%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYICV 57
           +L L+G    GK+  +   A   + +  I T+G +   ++   + I +
Sbjct: 3  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKITKGNVTIKL 51

>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 = 45.8 bits (107), Expect = 1e-08
 Identities = 15/47 (31%), Positives = 28/47 (59%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
          KL+L+G+++VGKS ++LRF  + + ++   TIG  F++         
Sbjct: 5  KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHT 51

>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 = 45.4 bits (106), Expect = 2e-08
 Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 1/37 (2%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           +L ++GD+  GKS L+ RF   SY      T    +
Sbjct: 6  LRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQY 41

>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 = 45.4 bits (106), Expect = 2e-08
 Identities = 9/47 (19%), Positives = 16/47 (34%), Gaps = 1/47 (2%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
           +L +G    GK+ L +R     Y D+  ++I               
Sbjct: 2  AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVNNNRGN 47

>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 = 43.9 bits (102), Expect = 5e-08
 Identities = 9/48 (18%), Positives = 19/48 (39%), Gaps = 5/48 (10%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
           +LL++G  + GK+ +L +F  +      + TI            +  
Sbjct: 3  LRLLMLGLDNAGKTTILKKFNGE-----DVDTISPTLGFNIKTLEHRG 45

>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 = 43.2 bits (100), Expect = 1e-07
 Identities = 9/37 (24%), Positives = 17/37 (45%), Gaps = 4/37 (10%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSY 37
          M+ E     ++L++G    GK+ +L R      V + 
Sbjct: 2  MTREM----RILILGLDGAGKTTILYRLQVGEVVTTI 34

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score = 43.0 bits (100), Expect = 1e-07
 Identities = 6/32 (18%), Positives = 16/32 (50%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYIST 40
           ++L++G  + GK+ +L +      V +  + 
Sbjct: 13 MRILMLGLDAAGKTTILYKLKLGQSVTTIPTV 44

>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 = 42.7 bits (99), Expect = 2e-07
 Identities = 6/47 (12%), Positives = 17/47 (36%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
          ++L++G  + GK+ +L +      V +  +              +  
Sbjct: 2  RILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTV 48

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score = 42.7 bits (99), Expect = 2e-07
 Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 1/40 (2%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL 48
           ++L++G    GK+ +L R      V +   TIG +  +L
Sbjct: 18 LRILILGLDGAGKTTILYRLQIGEVVTTKP-TIGFNVETL 56

>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 = 42.4 bits (98), Expect = 2e-07
 Identities = 8/30 (26%), Positives = 18/30 (60%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYIS 39
          K++++G+ +VGKS ++ R+    +   Y  
Sbjct: 4  KMVVVGNGAVGKSSMIQRYCKGIFTKDYKK 33

>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 = 3e-07
 Identities = 7/37 (18%), Positives = 19/37 (51%)

Query: 9  FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF 45
           K++++G  + GK+ +L +F+ +  V +  +      
Sbjct: 16 HKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVE 52

>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 = 42.3 bits (98), Expect = 3e-07
 Identities = 9/40 (22%), Positives = 19/40 (47%)

Query: 1  MSNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYIST 40
          + +  D   ++LL+G  + GK+ LL + A +       + 
Sbjct: 9  LKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQ 48

>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 = 42.0 bits (97), Expect = 3e-07
 Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 1/37 (2%)

Query: 10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV 46
          KLL +G  + GK+ LL    +D  + +   T      
Sbjct: 2  KLLFLGLDNAGKTTLLHMLKND-RLATLQPTWHPTSE 37

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 39.7 bits (91), Expect = 2e-06
 Identities = 10/34 (29%), Positives = 14/34 (41%)

Query: 5  YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYI 38
          Y    KL+ +G  + GK+ LL    DD       
Sbjct: 10 YKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVP 43

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.6 bits (78), Expect = 2e-04
 Identities = 9/50 (18%), Positives = 19/50 (38%)

Query: 7  YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIYMYIC 56
          Y   +++ G  + GK+ LL     DS   + +S   +         + + 
Sbjct: 2  YQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLV 51

>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 = 32.8 bits (73), Expect = 8e-04
 Identities = 7/20 (35%), Positives = 11/20 (55%)

Query: 9  FKLLLIGDSSVGKSCLLLRF 28
           K+++ G  + GKS LL   
Sbjct: 2  MKVVIAGRPNAGKSSLLNAL 21

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	57
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.44
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.43
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.4
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.39
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.39
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.38
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.37
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.36
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.36
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.36
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.35
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.34
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.33
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.33
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.33
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.33
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.32
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.32
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.31
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.31
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.3
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.3
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.3
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.3
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.3
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.28
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.28
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.28
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.28
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.26
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.25
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.25
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.25
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.24
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.24
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.23
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.23
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.21
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.19
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.15
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.13
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.09
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.04
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.97
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.97
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	98.94
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.9
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	98.9
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	98.88
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.88
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.86
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.86
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	98.82
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	98.76
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.7
d2fh5b1	207	Signal recognition particle receptor beta-subunit	98.57
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	98.32
d1nrjb_	209	Signal recognition particle receptor beta-subunit	98.31
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.18
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.11
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.05
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	98.0
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	97.95
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	97.88
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	97.87
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	97.85
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.82
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	97.82
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.82
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.77
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	97.71
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	97.65
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.65
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	97.63
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.62
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.56
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.56
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.55
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.55
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.54
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	97.52
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.49
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.49
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.47
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.47
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.44
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.44
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.44
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	97.43
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.42
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.4
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.39
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.38
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.37
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.35
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.33
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.32
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.3
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.29
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.29
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.28
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.27
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.26
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	97.26
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.25
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.22
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.19
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.18
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.18
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.15
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.13
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.12
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	97.1
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.09
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.08
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.07
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.06
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.03
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.03
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.01
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	96.99
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.99
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.99
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.98
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.96
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.96
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.94
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.92
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.89
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.89
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.89
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.86
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.85
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	96.85
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.82
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.81
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.81
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.8
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.8
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.76
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	96.76
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.76
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.74
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	96.72
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.72
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.71
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.71
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.69
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.67
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.66
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.65
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.65
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.63
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.62
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.6
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.54
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.53
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	96.52
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.46
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.45
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.43
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.4
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.38
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.38
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	96.36
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.35
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.34
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.33
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.33
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.33
d1okkd2	207	GTPase domain of the signal recognition particle r	96.3
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.28
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.27
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.27
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.25
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.24
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.23
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.23
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.23
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.22
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.21
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.21
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.21
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.2
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	96.13
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.12
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.09
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	96.09
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	96.08
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	96.03
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.01
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.99
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.93
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.85
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.83
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.83
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.74
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.74
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	95.72
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.64
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	95.63
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.54
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.53
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	95.49
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	95.46
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.45
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.39
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.26
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.21
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.18
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.16
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.14
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.1
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	95.03
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.02
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.98
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	94.95
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.94
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	94.92
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	94.92
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.91
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.91
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	94.91
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	94.7
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.64
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.63
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.63
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.58
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.55
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.53
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.5
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.49
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	94.43
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.23
d1xpua3	289	Transcription termination factor Rho, ATPase domai	94.22
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	94.17
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.93
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.85
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	93.6
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	93.54
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	93.44
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.43
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.31
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	92.93
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	92.81
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	92.56
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	92.23
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	91.94
d1tuea_	205	Replication protein E1 helicase domain {Human papi	90.69
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	90.63
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	89.81
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	89.32
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	89.25
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	89.21
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	89.16
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	89.06
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	88.93
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	88.63
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	88.01
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	88.0
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	87.81
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	87.71
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	87.53
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	87.48
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	87.38
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	87.35
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	87.12
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	86.93
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	86.85
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	86.26
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	85.61
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	85.52
d1p3da1	96	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	84.33
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	83.25
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	81.49
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	80.25

>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=99.44  E-value=1.7e-13  Score=72.94  Aligned_cols=43  Identities=28%  Similarity=0.499  Sum_probs=39.3

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      .+|++++|+++||||+|+.||..++|.+.+.||++.+|.....
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~~~~   44 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQAT   44 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceecccccccc
Confidence            5899999999999999999999999999999999998876543

>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=99.43  E-value=2.3e-13  Score=72.19  Aligned_cols=46  Identities=35%  Similarity=0.743  Sum_probs=41.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .|.||++++|+++||||+|+.|+..+.|.+.+.||++.++..+...
T Consensus         1 ~y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~   46 (167)
T d1z08a1           1 AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLN   46 (167)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEE
T ss_pred             CceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeec
Confidence            3789999999999999999999999999999999999888776654

>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=99.40  E-value=5.8e-13  Score=70.81  Aligned_cols=49  Identities=47%  Similarity=0.953  Sum_probs=43.4

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      ++++.+|++++|++++|||+|+.++..++|.+.+.|+.+.++..+....
T Consensus         1 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~   49 (169)
T d3raba_           1 NFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYR   49 (169)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEE
T ss_pred             CCCeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEe
Confidence            4678999999999999999999999999999999999998877665543

>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=99.39  E-value=6.1e-13  Score=70.63  Aligned_cols=45  Identities=33%  Similarity=0.658  Sum_probs=41.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      .+|++++|+++||||||+.+|..++|.+.+.||+|.++..+.+..
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~   47 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTI   47 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeecccccc
Confidence            589999999999999999999999999999999999988776644

>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=99.39  E-value=7.2e-13  Score=70.47  Aligned_cols=49  Identities=43%  Similarity=0.811  Sum_probs=44.0

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      ++++.+|++++|+++||||||++++..++|+..+.++.+.++..+.+..
T Consensus         1 ~~~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~   49 (171)
T d2ew1a1           1 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI   49 (171)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEE
Confidence            3678899999999999999999999999999999999999888776643

>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=99.38  E-value=6.1e-13  Score=70.54  Aligned_cols=42  Identities=31%  Similarity=0.563  Sum_probs=38.1

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      .+||++++|+++||||||+.|+..++|.+.+.||++.++...
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~~~   43 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQ   43 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccccee
Confidence            368999999999999999999999999999999999777544

>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=99.37  E-value=1e-12  Score=69.67  Aligned_cols=41  Identities=32%  Similarity=0.656  Sum_probs=37.3

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      +||++++|+++||||||+.|+..+.|.+.+.||++..+...
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~~~~   42 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQV   42 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeeccccc
Confidence            58999999999999999999999999999999999776543

>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=99.36  E-value=2.1e-13  Score=72.78  Aligned_cols=43  Identities=33%  Similarity=0.638  Sum_probs=35.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +||++++|+++||||+|+.++..++|.+.+.||+|.++..+..
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~   45 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVF   45 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccceecccccccc
Confidence            6899999999999999999999999999999999999877654

>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=99.36  E-value=1.3e-12  Score=69.21  Aligned_cols=47  Identities=43%  Similarity=0.808  Sum_probs=41.8

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +++.||++++|+++||||||+.|+..++|...+.++.+.++......
T Consensus         1 ~~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~   47 (166)
T d1z0fa1           1 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIE   47 (166)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEE
T ss_pred             CcEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEE
Confidence            46789999999999999999999999999999999998888766553

>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=99.36  E-value=1.2e-12  Score=69.65  Aligned_cols=42  Identities=33%  Similarity=0.577  Sum_probs=38.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ..+|++++|+++||||||+.++..++|.+++.||++.+|...
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~~~   44 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK   44 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCccccccccc
Confidence            468999999999999999999999999999999999887543

>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=99.35  E-value=1.6e-12  Score=68.84  Aligned_cols=43  Identities=30%  Similarity=0.544  Sum_probs=38.9

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS   49 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~   49 (57)
                      .+||++++|+++||||||+.++..+.|+..+.||++.++....
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~   44 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQV   44 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeeccce
Confidence            4699999999999999999999999999999999998876543

>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=99.34  E-value=1.8e-12  Score=69.53  Aligned_cols=49  Identities=45%  Similarity=0.938  Sum_probs=44.1

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSIY   52 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~~   52 (57)
                      ++++.+|++++|+++||||+|+.++..+.|.+.+.++.+.++..+.+.+
T Consensus         1 ~~d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~   49 (186)
T d2f7sa1           1 DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVY   49 (186)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEE
Confidence            3678899999999999999999999999999999999999987776654

>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=99.33  E-value=2.3e-12  Score=68.17  Aligned_cols=41  Identities=39%  Similarity=0.584  Sum_probs=37.9

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      +.+|++++|+++||||+|+.++..+.|.+.+.||++.+|..
T Consensus         3 k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~~~   43 (167)
T d1xtqa1           3 KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTK   43 (167)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEEEE
T ss_pred             cceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceecccce
Confidence            56899999999999999999999999999999999988753

>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=99.33  E-value=1.8e-12  Score=68.53  Aligned_cols=44  Identities=32%  Similarity=0.665  Sum_probs=40.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .+|++++|+++||||||+.|+..++|...+.||++.++......
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~   45 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQ   45 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeee
Confidence            47999999999999999999999999999999999888776654

>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=99.33  E-value=2.5e-12  Score=68.99  Aligned_cols=42  Identities=29%  Similarity=0.652  Sum_probs=37.5

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ....+|++++|+++||||||+.+|..++|.+.+.||++..+.
T Consensus         2 ~p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~~   43 (183)
T d1mh1a_           2 SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS   43 (183)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEE
T ss_pred             CceeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceeecee
Confidence            346799999999999999999999999999999999985443

>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=99.33  E-value=3e-12  Score=67.82  Aligned_cols=45  Identities=36%  Similarity=0.610  Sum_probs=40.6

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .++|++++|+++||||||+.|+..++|.+.+.||.+.++......
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~   47 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQ   47 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCccccccccccccccccc
Confidence            579999999999999999999999999999999999888766553

>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=99.32  E-value=2.4e-12  Score=69.77  Aligned_cols=47  Identities=74%  Similarity=1.244  Sum_probs=42.5

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +.++.||++++|+++||||||+.++..+.|...+.||++..+....+
T Consensus         2 ~~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i   48 (194)
T d2bcgy1           2 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTV   48 (194)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEE
Confidence            46789999999999999999999999999999999999988776554

>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=99.32  E-value=2.8e-12  Score=68.08  Aligned_cols=45  Identities=42%  Similarity=0.689  Sum_probs=40.6

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      -+||++++|+++||||||+.++..++|.+.+.||.+.++....+.
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~   49 (170)
T d1r2qa_           5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVC   49 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceee
Confidence            478999999999999999999999999999999999888766553

>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=99.31  E-value=2.4e-12  Score=69.33  Aligned_cols=45  Identities=31%  Similarity=0.750  Sum_probs=38.7

Q ss_pred             CCCcc-ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            1 MSNEY-DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         1 m~~~~-~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      |.+.+ ...+|++++|+++||||||+.|+..+.|.+++.||++..+
T Consensus         1 m~~~~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~~~   46 (185)
T d2atxa1           1 MAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY   46 (185)
T ss_dssp             CSSCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE
T ss_pred             CCCCCCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceeeee
Confidence            44443 5689999999999999999999999999999999998443

>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=99.31  E-value=4.5e-12  Score=67.38  Aligned_cols=46  Identities=48%  Similarity=0.852  Sum_probs=40.8

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +++.+|++++|+++||||+|+.++..++|.+.+.||.+.+......
T Consensus         2 ~~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~   47 (174)
T d2bmea1           2 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKII   47 (174)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEE
Confidence            5788999999999999999999999999999999999987665443

>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=99.30  E-value=4.5e-12  Score=67.02  Aligned_cols=39  Identities=28%  Similarity=0.592  Sum_probs=35.6

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      .+||++++|+++||||||+.|+..++|.+.+.||++..+
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~   40 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY   40 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeeee
Confidence            469999999999999999999999999999999998543

>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=99.30  E-value=1.3e-12  Score=69.93  Aligned_cols=39  Identities=28%  Similarity=0.302  Sum_probs=34.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ++|++++|+++||||||+.||..++|  .+.||+|+++...
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~~~~   40 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYPF   40 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEEEEE
Confidence            68999999999999999999999888  4789999887653

>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=99.30  E-value=4.6e-12  Score=67.41  Aligned_cols=42  Identities=33%  Similarity=0.596  Sum_probs=37.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      +.||++++|++++|||+|+.++..++|.+.+.||++.++...
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~   44 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKH   44 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEEEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeeccccc
Confidence            469999999999999999999999999999999998776443

>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=99.30  E-value=4.1e-12  Score=68.14  Aligned_cols=43  Identities=35%  Similarity=0.775  Sum_probs=39.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      .+|++++|+++||||||+.++.+++|...+.||++.++..+..
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~   44 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEV   44 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeee
Confidence            4899999999999999999999999999999999988766654

>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=99.30  E-value=4.6e-12  Score=68.40  Aligned_cols=42  Identities=26%  Similarity=0.650  Sum_probs=37.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ..+|++++|+++||||||+.||..++|..++.||++..+...
T Consensus         2 ~~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~~~~~   43 (191)
T d2ngra_           2 QTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT   43 (191)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEE
T ss_pred             CceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeeccee
Confidence            368999999999999999999999999999999999655433

>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=99.28  E-value=5.4e-12  Score=67.01  Aligned_cols=38  Identities=32%  Similarity=0.652  Sum_probs=35.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      +||++++|+++||||+|+.|+..++|.+.+.||.+..+
T Consensus         5 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~   42 (171)
T d2erya1           5 KYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY   42 (171)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccccce
Confidence            58999999999999999999999999999999998544

>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=99.28  E-value=2.9e-12  Score=67.72  Aligned_cols=44  Identities=55%  Similarity=0.956  Sum_probs=33.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .+|++++|++++|||||+.+++.++|+..+.||++.++..+.+.
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~   45 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVD   45 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEE
Confidence            48999999999999999999999999999999999999877764

>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=99.28  E-value=4e-12  Score=66.97  Aligned_cols=42  Identities=48%  Similarity=0.878  Sum_probs=38.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      ||++++|+++||||||++|+..++|+..+.|+++.+......
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~   42 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTM   42 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceee
Confidence            699999999999999999999999999999999987765554

>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=99.28  E-value=6.9e-12  Score=66.86  Aligned_cols=46  Identities=57%  Similarity=0.849  Sum_probs=37.8

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      +++.+|++++|+++||||||+.++..+.|...+.++.+.+.....+
T Consensus         1 ~~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~   46 (175)
T d2f9la1           1 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSI   46 (175)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEE
Confidence            4678999999999999999999999999999999988877665554

>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=99.26  E-value=8.9e-12  Score=66.29  Aligned_cols=46  Identities=37%  Similarity=0.678  Sum_probs=36.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      ...||++++|+++||||||+.++..++|.+.+.+|++..+..+...
T Consensus         4 ~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~   49 (174)
T d1wmsa_           4 SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLE   49 (174)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeee
Confidence            4578999999999999999999999999999999999887665543

>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=99.25  E-value=8.3e-12  Score=67.04  Aligned_cols=39  Identities=33%  Similarity=0.668  Sum_probs=35.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ++|++++|+++||||+|+.|+..++|++.+.||++..+.
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~   40 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT   40 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeeccc
Confidence            589999999999999999999999999999999985444

>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=99.25  E-value=9.8e-12  Score=65.40  Aligned_cols=44  Identities=45%  Similarity=0.790  Sum_probs=39.5

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .||++++|+++||||+|+.++..++|+..+.++.+.++..+...
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~   45 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVD   45 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeee
Confidence            58999999999999999999999999999999999887766543

>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=99.25  E-value=6.5e-12  Score=66.30  Aligned_cols=42  Identities=21%  Similarity=0.383  Sum_probs=37.9

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      .++|++++|++++|||+|+.++..+++.+++.||+|.++...
T Consensus         1 ~e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~~~   42 (164)
T d1zd9a1           1 EEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKI   42 (164)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeeeee
Confidence            368999999999999999999999999999999999777643

>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=99.24  E-value=1.1e-11  Score=66.01  Aligned_cols=39  Identities=33%  Similarity=0.707  Sum_probs=35.5

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +.|++++|+++||||+|+.++..+.|++.+.||++..+.
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~   40 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYV   40 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeecc
Confidence            579999999999999999999999999999999985543

>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=99.24  E-value=9.8e-12  Score=66.15  Aligned_cols=44  Identities=50%  Similarity=0.841  Sum_probs=34.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      |.+|++++|+++||||||+.|+..++|...+.++.+.+......
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~   45 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMV   45 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeee
Confidence            67999999999999999999999999999888888776655543

>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=99.23  E-value=1.8e-11  Score=65.18  Aligned_cols=44  Identities=32%  Similarity=0.465  Sum_probs=37.6

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS   49 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~   49 (57)
                      +...+|++++|+++||||||+.|+..++|.+.+.||.. ++..+.
T Consensus         3 ~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~   46 (173)
T d2fn4a1           3 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKI   46 (173)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEE
T ss_pred             CCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeE
Confidence            45689999999999999999999999999999999876 443433

>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=99.23  E-value=3.4e-12  Score=67.97  Aligned_cols=47  Identities=60%  Similarity=1.099  Sum_probs=26.7

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      .++.|||+++|+++||||||+.++..+.|...+.||++.++..+...
T Consensus         3 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~   49 (173)
T d2fu5c1           3 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIE   49 (173)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEE
Confidence            56789999999999999999999999999999999999888776654

>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=99.21  E-value=3e-11  Score=63.96  Aligned_cols=46  Identities=50%  Similarity=1.008  Sum_probs=38.5

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCC-cccCCeeeeEEEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVD-SYISTIGVDFVSLSS   50 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~-~~~~tig~~~~~~~~   50 (57)
                      ++..||++++|+++||||+|+.++..++|.. .+.++++.++....+
T Consensus         3 ~d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~   49 (170)
T d2g6ba1           3 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVL   49 (170)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEE
T ss_pred             CceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEE
Confidence            4678999999999999999999999999864 456778888776554

>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=99.19  E-value=4.8e-11  Score=63.59  Aligned_cols=48  Identities=46%  Similarity=0.688  Sum_probs=41.6

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEEE
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSSI   51 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~~   51 (57)
                      +....+|++++|+++||||+|++++..++|..++.++.+.++..+.+.
T Consensus         3 ~~~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~   50 (177)
T d1x3sa1           3 DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTIS   50 (177)
T ss_dssp             TEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEE
T ss_pred             cccceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEE
Confidence            345679999999999999999999999999999999998877766543

>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=99.15  E-value=1.2e-11  Score=66.38  Aligned_cols=37  Identities=30%  Similarity=0.441  Sum_probs=31.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      .+|++++|+++||||||+.|+.   |...+.||+|+++..
T Consensus         2 ~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~~~~   38 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHEYD   38 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeEEEE
Confidence            4799999999999999999994   677789999976543

>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=99.13  E-value=3.7e-11  Score=63.64  Aligned_cols=43  Identities=40%  Similarity=0.842  Sum_probs=35.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLSS   50 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~~   50 (57)
                      .+|++++|+++||||||+.++..++|.+.+.||.+.+......
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~   44 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEV   44 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeee
Confidence            4899999999999999999999999999999998877655443

>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=99.09  E-value=5.1e-11  Score=63.34  Aligned_cols=41  Identities=27%  Similarity=0.293  Sum_probs=34.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ++|++++|+.|||||||+.||..+++++.+.++..+++...
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~~~~t~~~~~~~~~~~~~   42 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKIIHEAGTGIVETHFTFKDL   42 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHSCCCSEEEEEEEETTE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCCCCccEEEEEEEeeee
Confidence            68999999999999999999999888877766666554433

>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=99.04  E-value=2.3e-10  Score=60.76  Aligned_cols=43  Identities=33%  Similarity=0.417  Sum_probs=33.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCC-CcccCCeeeeEEEEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYV-DSYISTIGVDFVSLSS   50 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~-~~~~~tig~~~~~~~~   50 (57)
                      -||++++|+++||||+|+.++....+. ....+|.+.++..+.+
T Consensus         3 ~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~   46 (172)
T d2g3ya1           3 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTL   46 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeee
Confidence            489999999999999999999987764 3456778877776654

>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=98.97  E-value=2e-10  Score=60.68  Aligned_cols=44  Identities=25%  Similarity=0.391  Sum_probs=35.8

Q ss_pred             CCccceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            2 SNEYDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         2 ~~~~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +..++.++|++++|++++|||||++++..++|.. +.|+.|.++.
T Consensus        10 ~~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~-~~~~~~~~~~   53 (176)
T d1fzqa_          10 KSAPDQEVRILLLGLDNAGKTTLLKQLASEDISH-ITPTQGFNIK   53 (176)
T ss_dssp             SSCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEE-EEEETTEEEE
T ss_pred             hCCCCCEEEEEEECCCCCCHHHHHHHHhcCCCCc-ceeeeeeeEE
Confidence            3455678999999999999999999999999864 4577775544

>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=98.97  E-value=5.4e-10  Score=58.53  Aligned_cols=39  Identities=23%  Similarity=0.498  Sum_probs=33.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      ++|++++|++++|||||++++....+. ++.||+|.....
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~~-~~~~t~~~~~~~   40 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGFNIKT   40 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCCS-SCCCCSSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCCC-cccceEeeeeee
Confidence            589999999999999999999988774 578999865543

>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=98.94  E-value=1.6e-09  Score=57.90  Aligned_cols=39  Identities=31%  Similarity=0.406  Sum_probs=33.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      +.+|++++|+++||||+|+.+|..++|.. +.+|.+..|.
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~~~~   42 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQYK   42 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccceeEE
Confidence            47999999999999999999999999965 5677776664

>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=98.90  E-value=2.3e-09  Score=55.41  Aligned_cols=38  Identities=29%  Similarity=0.504  Sum_probs=31.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ++|++++|+++||||||++++..++|.. ..+|.+....
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~~~~~~~~-~~~~~~~~~~   42 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRLQVGEVVT-TIPTIGFNVE   42 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSSEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCcc-eecccceeee
Confidence            5899999999999999999999999975 4577765443

>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=98.90  E-value=3.4e-10  Score=62.44  Aligned_cols=39  Identities=26%  Similarity=0.324  Sum_probs=31.9

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVS   47 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~   47 (57)
                      +++.+|++++|+++||||+|+.|+..+++    .||+|++...
T Consensus         3 ~k~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~~~~~   41 (221)
T d1azta2           3 YRATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGIFETK   41 (221)
T ss_dssp             HHHSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSCEEEE
T ss_pred             chhcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCeEEEE
Confidence            35679999999999999999999986654    5899966433

>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=98.88  E-value=2.2e-09  Score=56.59  Aligned_cols=38  Identities=29%  Similarity=0.399  Sum_probs=25.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      .||++++|+++||||||++++....+.. +.++.+..|.
T Consensus         1 ifKi~lvG~~~vGKTsLi~~~~~~~~~~-~~~~~~~~~~   38 (168)
T d2gjsa1           1 VYKVLLLGAPGVGKSALARIFGGVEDGP-EAEAAGHTYD   38 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHTC----------CEEEE
T ss_pred             CeEEEEECCCCcCHHHHHHHHhCCccCC-cCCeeeeeec
Confidence            3899999999999999999999887754 4567766554

>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=98.88  E-value=1.3e-09  Score=56.07  Aligned_cols=34  Identities=18%  Similarity=0.311  Sum_probs=28.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCCCcccCCee
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIG   42 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig   42 (57)
                      +|++++|+++||||||++++..+++...+..+..
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~   34 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGF   34 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceee
Confidence            5899999999999999999999998776554443

>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=98.86  E-value=4.9e-10  Score=59.32  Aligned_cols=43  Identities=21%  Similarity=0.451  Sum_probs=35.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEEE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSLS   49 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~~   49 (57)
                      .+.+|++++|+++||||||+.|+..+.+.. ..+|.+..+....
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~~~~~~   52 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNVETVT   52 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETTEEEEEEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceeeeeEEEee
Confidence            457999999999999999999999988865 4577776665443

>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=98.86  E-value=2.3e-09  Score=55.00  Aligned_cols=36  Identities=28%  Similarity=0.339  Sum_probs=30.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      ||+++|+++||||||+.++..+++. .+.||++....
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~~   37 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTSE   37 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeEE
Confidence            7999999999999999999999886 46788885543

>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=98.82  E-value=7.8e-10  Score=58.84  Aligned_cols=43  Identities=26%  Similarity=0.424  Sum_probs=35.2

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      ...++|++++|+++||||||+.++..+++.. ..||.+......
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~~~~~   56 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNVETL   56 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTCCEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceEEEEE
Confidence            3468999999999999999999999988864 558888665443

>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=98.76  E-value=3.7e-09  Score=55.30  Aligned_cols=39  Identities=26%  Similarity=0.309  Sum_probs=28.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeE
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDF   45 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~   45 (57)
                      ++..|++++|+++||||||+.++..+.+... .|+.+...
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~~   49 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTS   49 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcce-ecccccce
Confidence            4578999999999999999999999988654 46655443

>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=98.70  E-value=8.3e-09  Score=54.05  Aligned_cols=38  Identities=26%  Similarity=0.474  Sum_probs=30.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCCCcccCCeeee
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVD   44 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~   44 (57)
                      ++++|++++|++++|||||+.|+..+++.. ..++.+..
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~-~~~~~~~~   50 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVH-TSPTIGSN   50 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEE-EECCSCSS
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCc-ccccccee
Confidence            457999999999999999999999998864 34555533

>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=98.57  E-value=6.3e-08  Score=52.12  Aligned_cols=38  Identities=24%  Similarity=0.398  Sum_probs=31.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEEEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFVSL   48 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~~~   48 (57)
                      +|+++|++++|||||++++..+++... .||++.++...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~~~   39 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSAIY   39 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEEEE
Confidence            689999999999999999999988764 57887665543

>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=98.32  E-value=8.3e-07  Score=45.67  Aligned_cols=25  Identities=32%  Similarity=0.492  Sum_probs=22.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      +|++++|++++|||||++++.+.+.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~   26 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREA   26 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc
Confidence            7899999999999999999987654

>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=98.31  E-value=3.1e-07  Score=48.93  Aligned_cols=29  Identities=28%  Similarity=0.434  Sum_probs=25.4

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcCCC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSYVD   35 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~~~   35 (57)
                      |+..++++|++++|||||++++.++++..
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~~   30 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVRP   30 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            56689999999999999999999887653

>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=98.18  E-value=8.9e-07  Score=46.02  Aligned_cols=29  Identities=24%  Similarity=0.338  Sum_probs=23.6

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      +..++|+++|.+++|||||++++...+..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~~~~   42 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQKSL   42 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC---
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCCCce
Confidence            45799999999999999999999876543

>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=98.11  E-value=1.7e-06  Score=45.42  Aligned_cols=26  Identities=27%  Similarity=0.441  Sum_probs=23.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..+|+.++|.+++|||||++++.+.+
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~~~   32 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILNKE   32 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCC
Confidence            46999999999999999999998654

>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=98.05  E-value=1.5e-06  Score=45.11  Aligned_cols=22  Identities=27%  Similarity=0.714  Sum_probs=19.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +|++++|++|+|||+|++.+..
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHh
Confidence            5899999999999999998775

>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=98.00  E-value=4.2e-06  Score=43.85  Aligned_cols=27  Identities=30%  Similarity=0.363  Sum_probs=23.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      +.-+|+++|.+++|||||++++.+.+.
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~~~   30 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGVKV   30 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCC
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCc
Confidence            455799999999999999999997653

>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=97.95  E-value=6e-07  Score=46.19  Aligned_cols=24  Identities=33%  Similarity=0.755  Sum_probs=21.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +|++++|.+++|||||++++.+.+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            589999999999999999998654

>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=97.88  E-value=5.2e-06  Score=43.18  Aligned_cols=24  Identities=29%  Similarity=0.571  Sum_probs=19.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .|+++|++++|||||++++.+...
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            588999999999999999986544

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.87  E-value=7.5e-06  Score=42.66  Aligned_cols=25  Identities=32%  Similarity=0.573  Sum_probs=21.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      .|+++|.+++|||||++++.+....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~   26 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVR   26 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCce
Confidence            4789999999999999999876543

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.85  E-value=1.1e-05  Score=41.86  Aligned_cols=26  Identities=31%  Similarity=0.480  Sum_probs=21.9

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      |.=.|.++|.++||||||++++.+.+
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~~   29 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQK   29 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCS
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCCC
Confidence            34458899999999999999998654

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.82  E-value=5.9e-06  Score=42.42  Aligned_cols=23  Identities=30%  Similarity=0.457  Sum_probs=20.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-+|++.|.+|+||||+++.+..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999998764

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=97.82  E-value=5.9e-06  Score=43.75  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=21.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+|.++|.+++|||||++++.+.+
T Consensus        24 ~~I~lvG~~n~GKSTLin~L~g~~   47 (195)
T d1svia_          24 PEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CEEEEECCCCCCHHHHHHHhcCCC
Confidence            389999999999999999998754

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.82  E-value=6.2e-06  Score=42.25  Aligned_cols=23  Identities=39%  Similarity=0.517  Sum_probs=20.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+|++.|.+|+||||+++.+..
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            46899999999999999987754

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.77  E-value=1.1e-05  Score=41.52  Aligned_cols=25  Identities=20%  Similarity=0.303  Sum_probs=21.4

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...++|++.|.+|+||||++..+..
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            3468999999999999999987764

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=97.71  E-value=1.4e-05  Score=41.76  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=20.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .|.++|.++||||||++++.+..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~   25 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAH   25 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987654

>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=97.65  E-value=1.1e-05  Score=45.07  Aligned_cols=27  Identities=22%  Similarity=0.375  Sum_probs=23.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ...++|+++|.+|+||||+++.+.+.+
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            457999999999999999999998754

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.65  E-value=1.8e-05  Score=39.80  Aligned_cols=21  Identities=29%  Similarity=0.512  Sum_probs=18.4

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .|+++|.+|+||||+.+.+..
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            689999999999999987764

>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=97.63  E-value=1.8e-05  Score=41.40  Aligned_cols=23  Identities=39%  Similarity=0.436  Sum_probs=20.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .|.++|.++||||||++++....
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~   25 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAK   25 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEEC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999987643

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.62  E-value=2.2e-05  Score=40.80  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++|+++|++|+||||++..+..
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            5799999999999999987653

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.56  E-value=3e-05  Score=40.53  Aligned_cols=22  Identities=27%  Similarity=0.640  Sum_probs=19.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++++|++|+||||++.++..
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            5899999999999999988664

>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=97.56  E-value=3e-05  Score=39.17  Aligned_cols=20  Identities=35%  Similarity=0.441  Sum_probs=17.6

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|.+|+|||+++.++..
T Consensus         5 Iii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999998754

>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=97.55  E-value=3.1e-05  Score=40.58  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++|+++|++|+|||+++..+..
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVE   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999987664

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.55  E-value=3e-05  Score=39.52  Aligned_cols=20  Identities=30%  Similarity=0.365  Sum_probs=17.9

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+.|.+|+|||||+.++..
T Consensus         5 i~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            67899999999999999874

>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=97.54  E-value=3e-05  Score=39.38  Aligned_cols=20  Identities=35%  Similarity=0.521  Sum_probs=17.6

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|++|+||||++.++..
T Consensus         5 I~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77899999999999987764

>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=97.52  E-value=5.6e-05  Score=44.53  Aligned_cols=26  Identities=15%  Similarity=0.341  Sum_probs=23.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      ..++|.++|.+|+|||||++.+.+..
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~   80 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIG   80 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            36899999999999999999998743

>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=97.49  E-value=4.2e-05  Score=40.08  Aligned_cols=23  Identities=22%  Similarity=0.442  Sum_probs=20.3

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .++++++|++|+|||+++..+..
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            47899999999999999988764

>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=97.49  E-value=4e-05  Score=39.13  Aligned_cols=21  Identities=29%  Similarity=0.601  Sum_probs=18.3

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||+++..+..
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999998764

>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=97.47  E-value=4.2e-05  Score=40.49  Aligned_cols=20  Identities=35%  Similarity=0.561  Sum_probs=18.0

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      |+++|++|+||++|+.++..
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~   23 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998764

>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=97.47  E-value=3.9e-05  Score=40.00  Aligned_cols=22  Identities=18%  Similarity=0.419  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++++|++|+|||+.+.++..
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            5899999999999999887753

>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=97.44  E-value=3.5e-05  Score=40.57  Aligned_cols=23  Identities=17%  Similarity=0.255  Sum_probs=19.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .++|++.|++|+|||+++..+..
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999987653

>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=97.44  E-value=4.8e-05  Score=39.31  Aligned_cols=22  Identities=18%  Similarity=0.486  Sum_probs=18.2

Q ss_pred             eeEE-EECCCCCchHHHHHHhhc
Q 035406            9 FKLL-LIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~-viG~~~vGKtsl~~~~~~   30 (57)
                      +|++ ++|.+|+|||||+.++..
T Consensus         1 Mkii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           1 MNVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHH
Confidence            3554 999999999999998764

>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=97.44  E-value=5.4e-05  Score=40.27  Aligned_cols=25  Identities=20%  Similarity=0.397  Sum_probs=21.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...++++++|++|+|||++..++..
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999999988775

>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=97.43  E-value=6.5e-05  Score=39.40  Aligned_cols=24  Identities=21%  Similarity=0.248  Sum_probs=22.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+++.++|.+++|||||++++..
T Consensus         4 k~inIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           4 KNINLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCcHHHHHHHHHH
Confidence            567999999999999999999985

>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=97.42  E-value=6.3e-05  Score=39.51  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=20.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -++++++|++|+|||+.+..+..
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            47899999999999999987764

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.40  E-value=5.4e-05  Score=42.02  Aligned_cols=22  Identities=36%  Similarity=0.330  Sum_probs=19.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..+++|.+|||||||++.+...
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTT
T ss_pred             eEEEECCCCCCHHHHHHhhcch
Confidence            4578999999999999998764

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.39  E-value=6.1e-05  Score=39.89  Aligned_cols=20  Identities=25%  Similarity=0.484  Sum_probs=18.0

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++|++|+||++|+.++..
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            78899999999999998774

>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=97.38  E-value=6.3e-05  Score=39.98  Aligned_cols=20  Identities=40%  Similarity=0.586  Sum_probs=17.7

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      |+++|++|+||++++.++..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68999999999999988754

>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=97.37  E-value=6.4e-05  Score=39.41  Aligned_cols=20  Identities=35%  Similarity=0.554  Sum_probs=17.4

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++|++|+||++++..+..
T Consensus         5 ivl~GpsG~GK~tl~~~L~~   24 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRE   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            56889999999999988764

>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=97.35  E-value=8e-05  Score=40.56  Aligned_cols=23  Identities=30%  Similarity=0.501  Sum_probs=18.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +-+++++|++|||||+++..+..
T Consensus        43 k~n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          43 KNNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEecCCcccHHHHHHHHH
Confidence            34689999999999999876554

>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=97.33  E-value=7.7e-05  Score=40.39  Aligned_cols=21  Identities=24%  Similarity=0.371  Sum_probs=18.1

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      ++++|++|+||++|+.++...
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            578899999999999988753

>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=97.32  E-value=8.4e-05  Score=42.07  Aligned_cols=23  Identities=35%  Similarity=0.414  Sum_probs=18.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +-+++++|++|||||+++..+..
T Consensus        39 k~n~lLVG~~GvGKTalv~~la~   61 (268)
T d1r6bx2          39 KNNPLLVGESGVGKTAIAEGLAW   61 (268)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCCcEEECCCCCcHHHHHHHHHH
Confidence            34789999999999988886654

>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=97.30  E-value=0.00011  Score=38.68  Aligned_cols=22  Identities=14%  Similarity=0.253  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-|+++|++|+|||+++.++..
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            4678899999999999988764

>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=97.29  E-value=9.1e-05  Score=38.88  Aligned_cols=20  Identities=15%  Similarity=0.421  Sum_probs=17.5

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      =++++|.+|+|||++++++.
T Consensus         4 li~l~GlpgsGKSTla~~L~   23 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLT   23 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47889999999999998766

>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=97.29  E-value=7.8e-05  Score=38.51  Aligned_cols=20  Identities=40%  Similarity=0.503  Sum_probs=17.2

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      +++++|.+|+||||+.+.+.
T Consensus         3 ~IvliG~~G~GKSTig~~La   22 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLA   22 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            68899999999999877654

>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=97.28  E-value=9.5e-05  Score=38.02  Aligned_cols=21  Identities=33%  Similarity=0.476  Sum_probs=16.9

Q ss_pred             eeEE-EECCCCCchHHHHHHhh
Q 035406            9 FKLL-LIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~-viG~~~vGKtsl~~~~~   29 (57)
                      +|++ +.|.+|+||||++..+.
T Consensus         1 mkiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4665 56999999999998764

>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=97.27  E-value=0.0001  Score=38.78  Aligned_cols=22  Identities=18%  Similarity=0.211  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .=++++|.+|+|||+++.++..
T Consensus        15 ~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4578899999999999998864

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.26  E-value=0.00013  Score=38.24  Aligned_cols=22  Identities=18%  Similarity=0.459  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.|+++|++|+||||.+.++..
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            6789999999999999987764

>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=97.26  E-value=0.00015  Score=40.49  Aligned_cols=34  Identities=24%  Similarity=0.343  Sum_probs=27.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCcC-CCcccCCe
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDSY-VDSYISTI   41 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~~-~~~~~~ti   41 (57)
                      ..+++++|+.++|||||++.+++..+ +....|+-
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            34799999999999999999999886 55444443

>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=97.25  E-value=0.00011  Score=37.47  Aligned_cols=21  Identities=33%  Similarity=0.411  Sum_probs=17.4

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      =+++.|.+|+||||+.+.+..
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            356789999999999998654

>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=97.22  E-value=0.00016  Score=36.77  Aligned_cols=21  Identities=24%  Similarity=0.461  Sum_probs=17.7

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      +-|++.|.+|+||||+...+.
T Consensus         7 ~~I~l~G~~GsGKTTia~~La   27 (183)
T d1m8pa3           7 FTIFLTGYMNSGKDAIARALQ   27 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            567899999999999887654

>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=97.19  E-value=0.00011  Score=39.56  Aligned_cols=21  Identities=24%  Similarity=0.268  Sum_probs=18.1

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||+++.++..
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            467889999999999998764

>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=97.18  E-value=0.00012  Score=39.74  Aligned_cols=21  Identities=29%  Similarity=0.387  Sum_probs=18.5

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||+++..+..
T Consensus        34 ~ilL~GpPGtGKT~la~~la~   54 (273)
T d1gvnb_          34 AFLLGGQPGSGKTSLRSAIFE   54 (273)
T ss_dssp             EEEEECCTTSCTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999998765

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.18  E-value=0.00014  Score=38.96  Aligned_cols=20  Identities=25%  Similarity=0.542  Sum_probs=18.1

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      ++++|..|+|||||+.++..
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            67899999999999999874

>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=97.15  E-value=0.00015  Score=37.41  Aligned_cols=20  Identities=35%  Similarity=0.458  Sum_probs=17.2

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      +|+++|.+|+|||++.+.+.
T Consensus         2 ~I~liG~~GsGKsTi~k~La   21 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALA   21 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            47899999999999887764

>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=97.13  E-value=0.00016  Score=36.81  Aligned_cols=20  Identities=40%  Similarity=0.556  Sum_probs=16.9

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      |++.|.+|+||||++..+..
T Consensus         7 I~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56889999999999877754

>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=97.12  E-value=0.00019  Score=36.45  Aligned_cols=20  Identities=35%  Similarity=0.509  Sum_probs=16.3

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      |++.|.+|+|||+++..+..
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            44569999999999987664

>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=97.10  E-value=0.00022  Score=39.95  Aligned_cols=25  Identities=24%  Similarity=0.502  Sum_probs=23.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      .+++|+|+.++|||||++.+++..+
T Consensus        25 P~ivVvG~~ssGKSSliNaLlG~~~   49 (306)
T d1jwyb_          25 PQIVVVGSQSSGKSSVLENIVGRDF   49 (306)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHTSCC
T ss_pred             CeEEEEeCCCCCHHHHHHHHhCCCC
Confidence            4799999999999999999998876

>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=97.09  E-value=0.0002  Score=36.54  Aligned_cols=19  Identities=16%  Similarity=0.167  Sum_probs=16.2

Q ss_pred             EEEECCCCCchHHHHHHhh
Q 035406           11 LLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~   29 (57)
                      |++.|.+|+||||++.++.
T Consensus         4 I~i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5678999999999998764

>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=97.08  E-value=0.0002  Score=37.09  Aligned_cols=25  Identities=24%  Similarity=0.163  Sum_probs=20.2

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+-|.+-|.+|+|||+++.++..
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3456677999999999999998763

>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=97.07  E-value=0.00019  Score=38.76  Aligned_cols=22  Identities=36%  Similarity=0.481  Sum_probs=19.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
T Consensus        36 ~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999987764

>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=97.06  E-value=0.00021  Score=38.52  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+++.|++|+|||++++.+..
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHh
Confidence            3589999999999999988764

>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=97.03  E-value=0.00024  Score=37.39  Aligned_cols=22  Identities=14%  Similarity=0.329  Sum_probs=18.6

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      --++++|++|+|||+++..+..
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3477899999999999988765

>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=97.03  E-value=4.9e-05  Score=42.36  Aligned_cols=22  Identities=36%  Similarity=0.545  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ..+++|.+|||||||++.+...
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            4578899999999999998865

>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=97.01  E-value=0.00027  Score=36.54  Aligned_cols=19  Identities=16%  Similarity=0.412  Sum_probs=16.7

Q ss_pred             EEEECCCCCchHHHHHHhh
Q 035406           11 LLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~   29 (57)
                      |+++|.+|+|||++.+.+.
T Consensus         5 Iil~G~~GsGKSTia~~LA   23 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELA   23 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6788999999999988764

>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=96.99  E-value=0.00039  Score=38.78  Aligned_cols=27  Identities=37%  Similarity=0.536  Sum_probs=23.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhcCcC
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      ..+++.++|-++|||||+++.+...+-
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~~  137 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKNI  137 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSCC
T ss_pred             CceEEEEEecCccchhhhhhhhhccce
Confidence            468899999999999999999997543

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.99  E-value=0.00035  Score=38.82  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ++.++|++|+|||||++-+..-
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5789999999999999887754

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.99  E-value=0.0002  Score=42.21  Aligned_cols=26  Identities=27%  Similarity=0.466  Sum_probs=19.5

Q ss_pred             eeEEEECCCCCchHHHHH----HhhcCcCC
Q 035406            9 FKLLLIGDSSVGKSCLLL----RFADDSYV   34 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~----~~~~~~~~   34 (57)
                      -+++++|++|||||+++.    ++..+.-+
T Consensus        44 ~n~llvG~~GvGKtaiv~~la~~i~~~~vp   73 (387)
T d1qvra2          44 NNPVLIGEPGVGKTAIVEGLAQRIVKGDVP   73 (387)
T ss_dssp             CCCEEEECTTSCHHHHHHHHHHHHHHTCSC
T ss_pred             CCCeEECCCCCCHHHHHHHHHHHHHhCCCC
Confidence            357899999999999875    55555544

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.98  E-value=0.00028  Score=37.94  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.0

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~   65 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWE   65 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999987764

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.96  E-value=0.00012  Score=38.64  Aligned_cols=21  Identities=14%  Similarity=0.360  Sum_probs=18.2

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -++++|++|+||++++.++..
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            477899999999999998765

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.96  E-value=0.00035  Score=38.69  Aligned_cols=21  Identities=29%  Similarity=0.314  Sum_probs=17.7

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.++|++|+|||||++.+.+-
T Consensus        34 ~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          34 VSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCcchhhHhccCC
Confidence            578999999999999866653

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.94  E-value=0.00039  Score=37.48  Aligned_cols=21  Identities=24%  Similarity=0.393  Sum_probs=18.3

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.++|++|+|||||++-+.+-
T Consensus        30 ~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          30 VNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCChHHHHHHHHhcc
Confidence            568999999999999988754

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.92  E-value=0.00051  Score=38.12  Aligned_cols=22  Identities=23%  Similarity=0.230  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++-+..-
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5679999999999999887653

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.89  E-value=0.00046  Score=38.48  Aligned_cols=22  Identities=32%  Similarity=0.406  Sum_probs=18.7

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||++++.+.+-.
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            4688999999999999887643

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.89  E-value=0.00047  Score=38.23  Aligned_cols=21  Identities=38%  Similarity=0.513  Sum_probs=17.9

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.++|++|+|||++++.+.+-
T Consensus        29 ~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          29 VVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCChHHHHHHHHhcC
Confidence            578999999999999977654

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.89  E-value=0.00047  Score=38.42  Aligned_cols=22  Identities=23%  Similarity=0.271  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||||++-+..-
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcc
Confidence            5689999999999999987653

>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=96.86  E-value=0.00046  Score=36.59  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=19.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++.|.+-|++|+||||.+.++..
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46677889999999999987664

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.85  E-value=0.00018  Score=37.26  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=18.4

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +-|++.|.+|+||||+.+.+..
T Consensus        20 ~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4577889999999999987753

>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=96.85  E-value=0.00038  Score=39.24  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=20.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      +|+-++|.++||||||++.+...
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCC
Confidence            57899999999999999999764

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.82  E-value=0.00051  Score=38.32  Aligned_cols=22  Identities=27%  Similarity=0.324  Sum_probs=18.8

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ++.++|++|+|||||+.-+..-
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCChHHHHHHHHhcc
Confidence            5789999999999999887643

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.81  E-value=0.00042  Score=37.40  Aligned_cols=22  Identities=23%  Similarity=0.286  Sum_probs=19.2

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||+++..+..
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~   74 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQ   74 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999998775

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.81  E-value=0.00041  Score=39.34  Aligned_cols=22  Identities=36%  Similarity=0.600  Sum_probs=18.8

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.++++|++|+|||.+++.+..
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhh
Confidence            4578999999999999987664

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.80  E-value=0.0006  Score=37.94  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=18.7

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||++++.+.+-.
T Consensus        35 ~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          35 LVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            5789999999999999877643

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.80  E-value=0.00042  Score=37.38  Aligned_cols=21  Identities=24%  Similarity=0.203  Sum_probs=16.9

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.|++|+|||++++.+...
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            345699999999999887653

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.76  E-value=0.00054  Score=36.71  Aligned_cols=21  Identities=38%  Similarity=0.569  Sum_probs=18.4

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||++++.+..
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            478999999999999987764

>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=96.76  E-value=0.00065  Score=37.85  Aligned_cols=25  Identities=32%  Similarity=0.404  Sum_probs=21.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcCc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+|+-++|.++||||||+.......
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCC
Confidence            4789999999999999999888643

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.76  E-value=0.00062  Score=38.49  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+.++|++|+|||+|++.+.+-
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            4679999999999999988753

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.74  E-value=0.00071  Score=37.65  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||++++.+.+-.
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            35789999999999999877543

>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=96.72  E-value=0.0012  Score=37.08  Aligned_cols=26  Identities=23%  Similarity=0.318  Sum_probs=22.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      ...+|+-++|.++||||||++.....
T Consensus         8 ~~~~kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1           8 GNNLKTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHCC
Confidence            35689999999999999999999864

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.72  E-value=0.00049  Score=41.10  Aligned_cols=22  Identities=36%  Similarity=0.600  Sum_probs=19.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++++|++|+|||-|++++..
T Consensus        50 sNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998764

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.71  E-value=0.00099  Score=36.41  Aligned_cols=25  Identities=20%  Similarity=0.333  Sum_probs=19.4

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhh
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      +....-++++|+.|+|||+.+.++.
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLA   32 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLA   32 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHH
Confidence            3445667899999999998876655

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.71  E-value=0.00061  Score=37.91  Aligned_cols=21  Identities=33%  Similarity=0.257  Sum_probs=18.2

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.++|++|+|||++++.+.+-
T Consensus        34 ~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          34 YGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            478999999999999888764

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.69  E-value=0.00068  Score=34.79  Aligned_cols=21  Identities=19%  Similarity=0.249  Sum_probs=18.1

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.+.|++|+|||+|+.++..+
T Consensus        26 ~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          26 TEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            468899999999999988754

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.67  E-value=0.00059  Score=38.18  Aligned_cols=21  Identities=29%  Similarity=0.363  Sum_probs=18.1

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++.++|++|+|||||++-+..
T Consensus        46 ~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCCcHHHHHHHHHh
Confidence            678999999999999986664

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.66  E-value=0.00075  Score=36.29  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+++.|++|+|||+++..+...
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            5889999999999999887653

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.65  E-value=0.0006  Score=36.48  Aligned_cols=21  Identities=24%  Similarity=0.203  Sum_probs=18.2

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.|++|+|||+|+.+|..+
T Consensus        39 ~li~G~pGsGKT~~~lq~~~~   59 (254)
T d1pzna2          39 TEVFGEFGSGKTQLAHTLAVM   59 (254)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            578899999999999998743

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.65  E-value=0.00082  Score=37.07  Aligned_cols=23  Identities=35%  Similarity=0.560  Sum_probs=19.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.|++|+|||++++.+..
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHhh
Confidence            45699999999999999998764

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.63  E-value=0.00054  Score=37.94  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=19.4

Q ss_pred             EEEECCCCCchHHHHHHhhcCcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      +.++|++|+|||++++.+.+-..
T Consensus        29 ~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          29 FVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCcC
Confidence            57899999999999998886543

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.62  E-value=0.00076  Score=35.94  Aligned_cols=21  Identities=24%  Similarity=0.553  Sum_probs=18.1

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||++++.+..
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            478999999999998887764

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.60  E-value=0.001  Score=34.66  Aligned_cols=25  Identities=28%  Similarity=0.472  Sum_probs=20.9

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+-|++-|..|+||||+++.+..
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            3457788999999999999998764

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.54  E-value=0.00093  Score=35.71  Aligned_cols=20  Identities=20%  Similarity=0.426  Sum_probs=17.3

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      .+++.|++|+|||+++..+.
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la   57 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLA   57 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHH
Confidence            47899999999999988665

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.53  E-value=0.00093  Score=38.46  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=20.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+.|-+.|.+|+|||||+.++..
T Consensus        54 ~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          54 TLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHH
T ss_pred             ceEEEeeCCCCCCHHHHHHHHHH
Confidence            57888999999999999998863

>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=96.52  E-value=0.0014  Score=35.15  Aligned_cols=23  Identities=22%  Similarity=0.216  Sum_probs=20.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhh
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      +.+++.++|..++|||||+.+++
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHH
Confidence            45899999999999999999985

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.46  E-value=0.001  Score=35.46  Aligned_cols=22  Identities=27%  Similarity=0.569  Sum_probs=19.0

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .+++.|++|+|||+++..+...
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            4789999999999999988753

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.45  E-value=0.0009  Score=38.40  Aligned_cols=26  Identities=12%  Similarity=0.176  Sum_probs=21.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhcCcCC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADDSYV   34 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~~~~   34 (57)
                      .++++.|+.|+|||++++.+.....+
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~  192 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPK  192 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCT
T ss_pred             CCEEEEeeccccchHHHHHHhhhccc
Confidence            46899999999999999988764433

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.43  E-value=0.0014  Score=36.25  Aligned_cols=22  Identities=32%  Similarity=0.388  Sum_probs=18.6

Q ss_pred             EEEECCCCCchHHHHHHhhcCc
Q 035406           11 LLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~   32 (57)
                      +.++|++|+|||++++.+.+-.
T Consensus        35 ~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          35 VTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            4689999999999999887643

>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=96.40  E-value=0.001  Score=35.16  Aligned_cols=21  Identities=33%  Similarity=0.298  Sum_probs=18.1

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.|++|+|||+|+.++...
T Consensus        37 ~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          37 TELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             EEEEESTTSSHHHHHHHHTTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            568899999999999988753

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.38  E-value=0.0016  Score=35.99  Aligned_cols=23  Identities=26%  Similarity=0.234  Sum_probs=18.9

Q ss_pred             EEEECCCCCchHHHHHHhhcCcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      +.++|+.|+|||+|++.+.+-.-
T Consensus        31 ~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          31 FGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            45899999999999998876543

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.38  E-value=0.00081  Score=36.95  Aligned_cols=20  Identities=50%  Similarity=0.727  Sum_probs=17.6

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +.++|++|+|||++++.+.+
T Consensus        28 ~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          28 LHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EECBCCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHhC
Confidence            56899999999999988775

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=96.36  E-value=0.0024  Score=33.51  Aligned_cols=25  Identities=16%  Similarity=0.256  Sum_probs=22.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +...++.++|....|||||+.++..
T Consensus         3 ~~~inIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           3 QAEVNIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCcEEEEEEeccCCcHHHHHHHHHh
Confidence            4567999999999999999999975

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.35  E-value=0.00068  Score=37.82  Aligned_cols=23  Identities=22%  Similarity=0.371  Sum_probs=19.3

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      .+.++|++|+|||++++.+..-.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            35789999999999999887643

>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=96.34  E-value=0.0012  Score=34.74  Aligned_cols=21  Identities=14%  Similarity=0.137  Sum_probs=18.2

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.|++|+|||.|+.++..+
T Consensus        37 ~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          37 TEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            468899999999999998754

>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=96.33  E-value=0.0015  Score=35.21  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=18.7

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .+=|++.|.+|+|||++...+.
T Consensus        24 g~vIwltGlsGsGKTTia~~L~   45 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELE   45 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4568899999999999998765

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.33  E-value=0.0014  Score=36.24  Aligned_cols=22  Identities=36%  Similarity=0.474  Sum_probs=19.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
T Consensus        43 ~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHH
Confidence            3589999999999999998874

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.33  E-value=0.0018  Score=36.22  Aligned_cols=21  Identities=33%  Similarity=0.343  Sum_probs=18.1

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.++|++|+|||++++.+.+-
T Consensus        31 ~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          31 ISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHHcC
Confidence            568999999999999988753

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.30  E-value=0.0015  Score=35.55  Aligned_cols=20  Identities=25%  Similarity=0.562  Sum_probs=16.4

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      -++++|+.|+|||+.+.++.
T Consensus         8 vi~lvGptGvGKTTTiaKLA   27 (207)
T d1okkd2           8 VVLVVGVNGVGKTTTIAKLG   27 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            45789999999999877654

>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=96.28  E-value=0.0017  Score=34.51  Aligned_cols=21  Identities=19%  Similarity=0.132  Sum_probs=18.3

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -+++.|++|+|||+|+.++..
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            357889999999999999974

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.27  E-value=0.0016  Score=34.11  Aligned_cols=20  Identities=30%  Similarity=0.423  Sum_probs=16.2

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      |++.|++|+||+|....+..
T Consensus         6 I~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            45669999999998887664

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.25  E-value=0.0022  Score=33.92  Aligned_cols=22  Identities=23%  Similarity=0.418  Sum_probs=18.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +-|.+-|.+|+||||+...+..
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5567889999999999987643

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.24  E-value=0.0021  Score=35.75  Aligned_cols=21  Identities=33%  Similarity=0.417  Sum_probs=18.3

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +.++|++|+|||++++.+.+-
T Consensus        33 ~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             EEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHHCC
Confidence            468999999999999988765

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.23  E-value=0.0013  Score=35.88  Aligned_cols=21  Identities=24%  Similarity=0.493  Sum_probs=12.7

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .-++++|+.|+|||+.+.++.
T Consensus        13 ~vi~lvGptGvGKTTTiAKLA   33 (211)
T d1j8yf2          13 YVIMLVGVQGTGKATTAGKLA   33 (211)
T ss_dssp             EEEEEECSCCC----HHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            346678999999999877655

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=96.23  E-value=0.0017  Score=35.44  Aligned_cols=21  Identities=33%  Similarity=0.657  Sum_probs=17.3

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .-++++|+.|+|||+.+.++.
T Consensus        10 ~vi~lvGptGvGKTTTiAKLA   30 (211)
T d2qy9a2          10 FVILMVGVNGVGKTTTIGKLA   30 (211)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            446689999999999888765

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.23  E-value=0.0017  Score=35.20  Aligned_cols=19  Identities=26%  Similarity=0.436  Sum_probs=15.7

Q ss_pred             EEEECCCCCchHHHHHHhh
Q 035406           11 LLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~   29 (57)
                      ++++|+.|||||+.+.++.
T Consensus        13 i~lvGp~GvGKTTTiaKLA   31 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLA   31 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4678999999998877654

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.22  E-value=0.0021  Score=36.85  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=20.9

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+.+-+.|.+|+|||||+.++..
T Consensus        50 ~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          50 RAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CceEEeeeCCCCCCHHHHHHHHHH
Confidence            357788999999999999998874

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.21  E-value=0.0029  Score=35.93  Aligned_cols=22  Identities=23%  Similarity=0.440  Sum_probs=18.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.++++|++|+|||.++..+..
T Consensus        53 ~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          53 GSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCcchhHHHHHHHHh
Confidence            3578999999999999987653

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=96.21  E-value=0.0016  Score=37.91  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=19.1

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .-.++++|++|||||-+++++.
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA   89 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLA   89 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHH
T ss_pred             CcceeeeCCCCccHHHHHHHHH
Confidence            4568999999999999998765

>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=96.21  E-value=0.0016  Score=34.77  Aligned_cols=22  Identities=32%  Similarity=0.626  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -.++.|++|+|||.|+.++..+
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            3578899999999999988765

>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=96.20  E-value=0.00087  Score=37.91  Aligned_cols=20  Identities=35%  Similarity=0.546  Sum_probs=18.1

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      .+++.|++|+|||++++++.
T Consensus        30 ~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHH
Confidence            58999999999999999875

>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=96.13  E-value=0.0034  Score=33.26  Aligned_cols=25  Identities=16%  Similarity=0.266  Sum_probs=22.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ++.+++.++|....|||||+.+++.
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHS
T ss_pred             CCCeEEEEEEccCCcHHHHHHHHHh
Confidence            4568999999888899999999975

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.12  E-value=0.0024  Score=33.36  Aligned_cols=20  Identities=20%  Similarity=0.371  Sum_probs=17.0

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      -|++-|..|+||||++..+.
T Consensus         2 lI~ieG~dGsGKST~~~~L~   21 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLS   21 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47888999999999888654

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.09  E-value=0.0021  Score=35.40  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=19.6

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++.|++|+|||.++..+..
T Consensus        38 ~~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          38 PRGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceeEEecCCCCCchHHHHHHHH
Confidence            34689999999999999987765

>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=96.09  E-value=0.0046  Score=33.61  Aligned_cols=26  Identities=31%  Similarity=0.456  Sum_probs=23.0

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhh
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      +.+..++++++|....|||||+.+++
T Consensus         5 ~~~~~~~i~viGHVd~GKSTL~~~Ll   30 (222)
T d1zunb3           5 ERKEMLRFLTCGNVDDGKSTLIGRLL   30 (222)
T ss_dssp             TSCEEEEEEEECCTTSSHHHHHHHHH
T ss_pred             ccCCcceEEEEcCCCCCHHHHHHHHH
Confidence            45568899999999999999999986

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=96.08  E-value=0.0028  Score=33.76  Aligned_cols=23  Identities=39%  Similarity=0.554  Sum_probs=19.5

Q ss_pred             eEEEECCCCCchHHHHHHhhcCc
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDS   32 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~   32 (57)
                      -+++.|++|+|||+++..+...-
T Consensus        16 gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          16 GVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHcC
Confidence            47889999999999999887643

>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=96.03  E-value=0.0024  Score=34.49  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=18.9

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      |.++|..++|||||+.++...
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCccHHHHHHHHHhh
Confidence            889999999999999988753

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=96.01  E-value=0.0026  Score=35.31  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -.+++.|++|+|||++++.+..
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHH
Confidence            3589999999999999987764

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=95.99  E-value=0.0024  Score=35.45  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=18.3

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .-+.+.|.+|+|||+|+..+..
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~   66 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALS   66 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999988653

>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=95.93  E-value=0.0026  Score=33.32  Aligned_cols=20  Identities=30%  Similarity=0.483  Sum_probs=16.7

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|++|+|||+|+.++..
T Consensus        29 ~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          29 TLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            56789999999999987653

>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=95.83  E-value=0.005  Score=31.89  Aligned_cols=23  Identities=17%  Similarity=0.208  Sum_probs=18.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+-+.+.|..|+|||+++..+..
T Consensus         3 p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45677889999999999987754

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.83  E-value=0.0037  Score=33.31  Aligned_cols=32  Identities=31%  Similarity=0.425  Sum_probs=23.6

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcCCCcccCCeeeeEE
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSYVDSYISTIGVDFV   46 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~~~~~~~tig~~~~   46 (57)
                      -+++.|++|+|||+++..+...-+     .-+.+|..
T Consensus        17 gvli~G~sG~GKS~lal~l~~~G~-----~lvaDD~v   48 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINKNH-----LFVGDDAI   48 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTTTC-----EEEEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHcCC-----ceecCCeE
Confidence            468899999999999998876433     34555543

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.74  E-value=0.0054  Score=35.05  Aligned_cols=25  Identities=20%  Similarity=0.259  Sum_probs=20.1

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+=|.+.|.+|+|||+++..+..
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            3457778999999999999887653

>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=95.74  E-value=0.0031  Score=34.92  Aligned_cols=23  Identities=26%  Similarity=0.332  Sum_probs=19.5

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..-+++.|++|+|||+++..+..
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~   63 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIAN   63 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcchhHHHHHHH
Confidence            34688999999999999998764

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.72  E-value=0.0037  Score=33.65  Aligned_cols=21  Identities=24%  Similarity=0.513  Sum_probs=17.9

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      +++.|++|+|||.|++.+...
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            678899999999999877653

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=95.64  E-value=0.0046  Score=32.64  Aligned_cols=23  Identities=35%  Similarity=0.527  Sum_probs=19.1

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .-+++.|++|+|||+++..+...
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            35789999999999999877654

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=95.63  E-value=0.007  Score=32.24  Aligned_cols=24  Identities=21%  Similarity=0.200  Sum_probs=21.0

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +.+++.++|....|||||+.++..
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~   25 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITK   25 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHH
Confidence            357899999999999999998863

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.54  E-value=0.0043  Score=32.91  Aligned_cols=21  Identities=24%  Similarity=0.392  Sum_probs=17.9

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .|++-|..|+||||++..+..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467889999999999997764

>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=95.53  E-value=0.0057  Score=32.03  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=18.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      -+++-|+-|+|||+|++.+...
T Consensus        35 ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          35 MVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEecCCCccHHHHHHHHHhh
Confidence            4678899999999999988753

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.46  E-value=0.0038  Score=34.32  Aligned_cols=17  Identities=24%  Similarity=0.454  Sum_probs=14.7

Q ss_pred             EEECCCCCchHHHHHHh
Q 035406           12 LLIGDSSVGKSCLLLRF   28 (57)
Q Consensus        12 ~viG~~~vGKtsl~~~~   28 (57)
                      +++|+.|+|||+++..+
T Consensus        28 vlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEECCTTTCSTHHHHHH
T ss_pred             EEECCCCCcHHHHHHHH
Confidence            57799999999998754

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=95.45  E-value=0.0058  Score=33.28  Aligned_cols=20  Identities=25%  Similarity=0.366  Sum_probs=17.0

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|.+|+|||+|+.++..
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            56889999999999887764

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=95.39  E-value=0.00068  Score=34.53  Aligned_cols=18  Identities=33%  Similarity=0.506  Sum_probs=15.3

Q ss_pred             EEECCCCCchHHHHHHhh
Q 035406           12 LLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        12 ~viG~~~vGKtsl~~~~~   29 (57)
                      +++|+.|+|||+++..+.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            457999999999999765

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=95.26  E-value=0.0077  Score=32.07  Aligned_cols=21  Identities=19%  Similarity=0.390  Sum_probs=18.0

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+++.|++|+|||+++..+..
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            378999999999999997654

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=95.21  E-value=0.0073  Score=32.57  Aligned_cols=20  Identities=30%  Similarity=0.466  Sum_probs=16.9

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++-|++|+|||+++..+..
T Consensus        37 ~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          37 YLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            67889999999999887643

>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=95.18  E-value=0.0093  Score=32.44  Aligned_cols=19  Identities=26%  Similarity=0.429  Sum_probs=14.9

Q ss_pred             eEEEECCCCCchHHHHHHh
Q 035406           10 KLLLIGDSSVGKSCLLLRF   28 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~   28 (57)
                      -+++.|..|||||++...+
T Consensus        10 ~i~~sGKGGVGKTTvaa~l   28 (296)
T d1ihua1          10 YLFFTGKGGVGKTSISCAT   28 (296)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCcChHHHHHHHH
Confidence            4568999999999866543

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=95.16  E-value=0.0069  Score=32.79  Aligned_cols=19  Identities=37%  Similarity=0.455  Sum_probs=16.1

Q ss_pred             EEEECCCCCchHHHHHHhh
Q 035406           11 LLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~   29 (57)
                      .++.|++|+|||+|+..+.
T Consensus        32 ~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHH
Confidence            4578999999999998765

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.14  E-value=0.0075  Score=31.73  Aligned_cols=19  Identities=16%  Similarity=0.188  Sum_probs=16.1

Q ss_pred             EEEECCCCCchHHHHHHhh
Q 035406           11 LLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~   29 (57)
                      |++-|..|+||||++..+.
T Consensus         5 IviEG~dGsGKsT~~~~L~   23 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVV   23 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5677999999999888765

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=95.10  E-value=0.0075  Score=34.67  Aligned_cols=20  Identities=20%  Similarity=0.499  Sum_probs=16.2

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|++|+|||.+++.+..
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            34569999999999987664

>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=95.03  E-value=0.013  Score=33.00  Aligned_cols=25  Identities=16%  Similarity=0.102  Sum_probs=21.0

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhhc
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +...++.++|..++|||+|+.+++.
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHH
Confidence            3445799999999999999998863

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.02  E-value=0.0067  Score=32.75  Aligned_cols=21  Identities=33%  Similarity=0.453  Sum_probs=18.4

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      .++.|--|+|||||+++++..
T Consensus         6 ~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEeeCCCCCHHHHHHHHHhc
Confidence            567899999999999999875

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.98  E-value=0.014  Score=30.87  Aligned_cols=23  Identities=35%  Similarity=0.434  Sum_probs=18.7

Q ss_pred             eeEEEECCCCCchHHHHHHhhcC
Q 035406            9 FKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      |-|.+.|..|+|||+++..+...
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~   26 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADL   26 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEECCCcCCHHHHHHHHHHC
Confidence            44668999999999999877644

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.95  E-value=0.0085  Score=33.86  Aligned_cols=18  Identities=28%  Similarity=0.449  Sum_probs=15.4

Q ss_pred             EEECCCCCchHHHHHHhh
Q 035406           12 LLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        12 ~viG~~~vGKtsl~~~~~   29 (57)
                      +++|+.|+|||+++..+.
T Consensus        29 ~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          29 SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEECSTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            577999999999988763

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=94.94  E-value=0.009  Score=34.63  Aligned_cols=22  Identities=23%  Similarity=0.184  Sum_probs=18.0

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .--+++.|++|+|||+++..+.
T Consensus       154 ~~~~~~~g~~~~gk~~~~~~~~  175 (362)
T d1svma_         154 KRYWLFKGPIDSGKTTLAAALL  175 (362)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHH
T ss_pred             cCeEEEECCCCCCHHHHHHHHH
Confidence            3457899999999999988654

>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=94.92  E-value=0.016  Score=31.74  Aligned_cols=25  Identities=20%  Similarity=0.228  Sum_probs=21.8

Q ss_pred             cceeeeEEEECCCCCchHHHHHHhh
Q 035406            5 YDYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         5 ~~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .+..+++.++|....|||||+.+++
T Consensus         3 ~k~~iNi~iiGHvD~GKsTl~~~ll   27 (239)
T d1f60a3           3 EKSHINVVVIGHVDSGKSTTTGHLI   27 (239)
T ss_dssp             CCEEEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCccEEEEEeCCCCCHHHHHHHHH
Confidence            3456899999999999999999885

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=94.92  E-value=0.013  Score=31.43  Aligned_cols=23  Identities=35%  Similarity=0.483  Sum_probs=20.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhh
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      +.+++.++|.-+.|||+|+.+++
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll   24 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLL   24 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHH
T ss_pred             CccEEEEEecCCCCHHHHHHHHH
Confidence            36799999999999999998875

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=94.91  E-value=0.0097  Score=32.30  Aligned_cols=20  Identities=20%  Similarity=0.424  Sum_probs=16.4

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      +|.+.|..|||||++...+.
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA   22 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLT   22 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            56688999999999987644

>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=94.91  E-value=0.018  Score=30.34  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=18.5

Q ss_pred             eeEEEECCCCCchHHHHHHhhc
Q 035406            9 FKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      +-+.+.|..|+|||+++..+..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5567899999999999987764

>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=94.91  E-value=0.014  Score=32.64  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=20.2

Q ss_pred             eEEEECCCCCchHHHHHHhhcCcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADDSY   33 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~~~   33 (57)
                      =|.++|+.++|||+|++++.+..+
T Consensus        34 vvsi~G~~~sGKS~llN~l~~~~~   57 (277)
T d1f5na2          34 VVAIVGLYRTGKSYLMNKLAGKKK   57 (277)
T ss_dssp             EEEEEEBTTSSHHHHHHHHTTCSS
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCC
Confidence            455899999999999999987653

>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=94.70  E-value=0.012  Score=32.86  Aligned_cols=21  Identities=24%  Similarity=0.366  Sum_probs=18.9

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .++.++|..++|||+|+.+++
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            468899999999999999885

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=94.64  E-value=0.011  Score=33.97  Aligned_cols=24  Identities=38%  Similarity=0.419  Sum_probs=19.2

Q ss_pred             eeeEEEECCCCCchHHHHHHhhcC
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .-.++++|.+|+|||.++..+...
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHH
Confidence            346899999999999988766543

>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=94.63  E-value=0.0057  Score=34.75  Aligned_cols=20  Identities=25%  Similarity=0.423  Sum_probs=14.0

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      |.+.|.+|+|||++.+.+..
T Consensus         7 IgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             EEEESCC---CCTHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            67899999999999986543

>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=94.63  E-value=0.019  Score=32.56  Aligned_cols=20  Identities=35%  Similarity=0.589  Sum_probs=16.6

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      -++++|++|+|||.++..+.
T Consensus        55 ~~lf~Gp~G~GKt~lak~la   74 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLA   74 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHH
Confidence            46788999999998888654

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.58  E-value=0.022  Score=32.16  Aligned_cols=23  Identities=17%  Similarity=0.252  Sum_probs=18.2

Q ss_pred             eeeeEEEECCCCCchHHHHHHhh
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ..+-|-+.|.+|+|||++...+.
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHH
Confidence            35667788999999999887553

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=94.55  E-value=0.011  Score=32.54  Aligned_cols=16  Identities=31%  Similarity=0.584  Sum_probs=13.6

Q ss_pred             EEEECCCCCchHHHHH
Q 035406           11 LLLIGDSSVGKSCLLL   26 (57)
Q Consensus        11 i~viG~~~vGKtsl~~   26 (57)
                      ++|.|.+|+|||+.+.
T Consensus        27 ~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             EEEEECTTSCHHHHHH
T ss_pred             EEEEecCCccHHHHHH
Confidence            6788999999997654

>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=94.53  E-value=0.012  Score=31.33  Aligned_cols=19  Identities=26%  Similarity=0.359  Sum_probs=14.9

Q ss_pred             EEEECCCCCchHHHHHHhh
Q 035406           11 LLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~   29 (57)
                      |++-|..|+||||.+..+.
T Consensus         6 I~ieG~dGsGKsT~~~~L~   24 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLV   24 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5566999999999776643

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=94.50  E-value=0.0092  Score=32.50  Aligned_cols=16  Identities=19%  Similarity=0.430  Sum_probs=13.3

Q ss_pred             EEEECCCCCchHHHHH
Q 035406           11 LLLIGDSSVGKSCLLL   26 (57)
Q Consensus        11 i~viG~~~vGKtsl~~   26 (57)
                      ++++|.+|+|||+.+.
T Consensus        17 ~lI~g~aGTGKTt~l~   32 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVIT   32 (306)
T ss_dssp             EEECCCTTSCHHHHHH
T ss_pred             EEEEeeCCccHHHHHH
Confidence            6788999999997653

>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=94.49  E-value=0.014  Score=31.59  Aligned_cols=20  Identities=30%  Similarity=0.584  Sum_probs=14.5

Q ss_pred             eeE-EEECCCCCchHHHHHHh
Q 035406            9 FKL-LLIGDSSVGKSCLLLRF   28 (57)
Q Consensus         9 ~ki-~viG~~~vGKtsl~~~~   28 (57)
                      .++ ++.|..|||||++...+
T Consensus        20 ~~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            344 45599999999976544

>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=94.43  E-value=0.015  Score=31.95  Aligned_cols=20  Identities=20%  Similarity=0.361  Sum_probs=15.9

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      +|++-|..|||||++...+.
T Consensus         4 ~IaisgKGGVGKTT~a~NLA   23 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLV   23 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            46677999999999877653

>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=94.23  E-value=0.017  Score=30.66  Aligned_cols=21  Identities=29%  Similarity=0.482  Sum_probs=17.4

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      -|++=|..|+||||+++.+..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            466779999999999987764

>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=94.22  E-value=0.018  Score=32.71  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=18.9

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      |+.++|++|+|||+|+..+..+
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            6789999999999999877653

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=94.17  E-value=0.02  Score=29.60  Aligned_cols=20  Identities=20%  Similarity=0.389  Sum_probs=15.9

Q ss_pred             eEEEECCC-CCchHHHHHHhh
Q 035406           10 KLLLIGDS-SVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~-~vGKtsl~~~~~   29 (57)
                      |+++.|-. |||||++...+.
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHH
Confidence            67888985 999998777544

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=93.93  E-value=0.02  Score=33.32  Aligned_cols=20  Identities=30%  Similarity=0.383  Sum_probs=18.0

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++.|+.|+|||+.+..++.
T Consensus       161 iLvtGpTGSGKSTTl~~~l~  180 (401)
T d1p9ra_         161 ILVTGPTGSGKSTTLYAGLQ  180 (401)
T ss_dssp             EEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEcCCCCCccHHHHHHhh
Confidence            78999999999999998775

>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=93.85  E-value=0.03  Score=32.17  Aligned_cols=24  Identities=25%  Similarity=0.253  Sum_probs=20.6

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..++|.+=|.-|+||||++..+..
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~   28 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMAS   28 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHS
T ss_pred             ceEEEEEECCccCCHHHHHHHHHH
Confidence            357899999999999999987764

>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=93.60  E-value=0.024  Score=31.00  Aligned_cols=23  Identities=26%  Similarity=0.296  Sum_probs=20.3

Q ss_pred             eeeeEEEECCCCCchHHHHHHhh
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ..+++.++|....|||+|+.+++
T Consensus        23 ~~iNi~iiGHVD~GKSTL~~~Ll   45 (245)
T d1r5ba3          23 EHVNIVFIGHVDAGKSTLGGNIL   45 (245)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHH
T ss_pred             CceEEEEEeeCCCCHHHHHHHHH
Confidence            35689999999999999999884

>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=93.54  E-value=0.013  Score=33.88  Aligned_cols=24  Identities=21%  Similarity=0.210  Sum_probs=20.6

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhh
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      +...++.++|..+.|||+|+.+++
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            344569999999999999999886

>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=93.44  E-value=0.03  Score=32.16  Aligned_cols=23  Identities=17%  Similarity=0.341  Sum_probs=19.8

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .++|.+=|.-|+||||+++.+..
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC
T ss_pred             ceEEEEECCcCCCHHHHHHHHHH
Confidence            46788999999999999988764

>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=93.43  E-value=0.031  Score=32.04  Aligned_cols=24  Identities=21%  Similarity=0.357  Sum_probs=20.8

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ..++|.+=|.-|+||||+++.+..
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~   27 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLH   27 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999988764

>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=93.31  E-value=0.03  Score=29.73  Aligned_cols=19  Identities=21%  Similarity=0.211  Sum_probs=16.0

Q ss_pred             EEEECCCCCchHHHHHHhh
Q 035406           11 LLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~   29 (57)
                      |++=|..|+||||.+..+.
T Consensus         6 I~iEG~DGsGKST~~~~L~   24 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILY   24 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            6788999999999887654

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=92.93  E-value=0.04  Score=30.05  Aligned_cols=21  Identities=29%  Similarity=0.450  Sum_probs=17.3

Q ss_pred             eeEEEECCCCCchHHHHHHhh
Q 035406            9 FKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~~   29 (57)
                      .-+++.|+.|+||+.+++.+-
T Consensus        24 ~pvlI~Ge~GtGK~~~A~~ih   44 (247)
T d1ny5a2          24 CPVLITGESGVGKEVVARLIH   44 (247)
T ss_dssp             SCEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEECCCCcCHHHHHHHHH
Confidence            457899999999998887654

>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=92.81  E-value=0.044  Score=30.83  Aligned_cols=22  Identities=32%  Similarity=0.684  Sum_probs=19.1

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      |+.++|++++|||+|+..+..+
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            6789999999999999888643

>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=92.56  E-value=0.045  Score=28.95  Aligned_cols=21  Identities=29%  Similarity=0.381  Sum_probs=18.2

Q ss_pred             EEEECCCCCchHHHHHHhhcC
Q 035406           11 LLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~~   31 (57)
                      ++++|-+.+|||.++.+....
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            578999999999999988754

>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=92.23  E-value=0.059  Score=29.83  Aligned_cols=20  Identities=30%  Similarity=0.441  Sum_probs=16.6

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+.|++++|||+|+.+...
T Consensus        57 tei~G~~gsGKTtl~l~~~~   76 (263)
T d1u94a1          57 VEIYGPESSGKTTLTLQVIA   76 (263)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHHHH
Confidence            35789999999999987664

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=91.94  E-value=0.065  Score=30.80  Aligned_cols=18  Identities=17%  Similarity=0.351  Sum_probs=14.5

Q ss_pred             eEEEECCCCCchHHHHHH
Q 035406           10 KLLLIGDSSVGKSCLLLR   27 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~   27 (57)
                      -.++.|.+|+|||+++..
T Consensus       165 ~~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             EEEEECCTTSTHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHH
Confidence            356789999999987754

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=90.69  E-value=0.065  Score=29.04  Aligned_cols=22  Identities=27%  Similarity=0.372  Sum_probs=17.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      +--+++.|+++.|||.++..+.
T Consensus        53 kn~i~~~GP~~TGKS~f~~sl~   74 (205)
T d1tuea_          53 KNCLVFCGPANTGKSYFGMSFI   74 (205)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHH
Confidence            4456789999999998887544

>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=90.63  E-value=0.11  Score=27.42  Aligned_cols=20  Identities=20%  Similarity=0.177  Sum_probs=16.8

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      |.+.|..|+|||+.+..+..
T Consensus         4 IgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56789999999999887754

>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=89.81  E-value=0.083  Score=30.27  Aligned_cols=15  Identities=33%  Similarity=0.476  Sum_probs=13.2

Q ss_pred             EEECCCCCchHHHHH
Q 035406           12 LLIGDSSVGKSCLLL   26 (57)
Q Consensus        12 ~viG~~~vGKtsl~~   26 (57)
                      ++.|.+|.|||+|..
T Consensus        18 lfFGLSGTGKTTLs~   32 (313)
T d2olra1          18 VFFGLSGTGKTTLST   32 (313)
T ss_dssp             EEECSTTSSHHHHHC
T ss_pred             EEEccCCCCccccee
Confidence            678999999999874

>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=89.32  E-value=0.1  Score=29.38  Aligned_cols=21  Identities=29%  Similarity=0.488  Sum_probs=17.5

Q ss_pred             eEEEECCCCCchHHHHHHhhc
Q 035406           10 KLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~   30 (57)
                      |+.++|.+|+|||+++.....
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            678889999999999876653

>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=89.25  E-value=0.22  Score=27.49  Aligned_cols=24  Identities=21%  Similarity=0.277  Sum_probs=18.7

Q ss_pred             eeeeEEEECCCCCchHHHHHHhhc
Q 035406            7 YLFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         7 ~~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      .+--+++.|+++.|||.|+..+..
T Consensus       103 k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         103 KRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccEEEEEEcCCCCCHHHHHHHHHH
Confidence            345567889999999999876553

>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=89.21  E-value=0.085  Score=30.25  Aligned_cols=17  Identities=29%  Similarity=0.391  Sum_probs=14.0

Q ss_pred             EEEECCCCCchHHHHHH
Q 035406           11 LLLIGDSSVGKSCLLLR   27 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~   27 (57)
                      -++.|.+|.|||+|...
T Consensus        17 alffGLSGTGKTTLs~~   33 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLSTD   33 (318)
T ss_dssp             EEEEECTTSCHHHHTCB
T ss_pred             EEEEccCCCCccccccC
Confidence            37789999999997653

>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=89.06  E-value=0.14  Score=31.72  Aligned_cols=19  Identities=21%  Similarity=0.377  Sum_probs=15.6

Q ss_pred             eEEEECCCCCchHHHHHHh
Q 035406           10 KLLLIGDSSVGKSCLLLRF   28 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~   28 (57)
                      -|++.|++|+|||.-.+.+
T Consensus        88 sIiisGeSGsGKTe~~k~i  106 (684)
T d1lkxa_          88 CVIISGESGAGKTEASKKI  106 (684)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            5899999999999666544

>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=88.93  E-value=0.11  Score=29.90  Aligned_cols=15  Identities=33%  Similarity=0.479  Sum_probs=13.4

Q ss_pred             EEECCCCCchHHHHH
Q 035406           12 LLIGDSSVGKSCLLL   26 (57)
Q Consensus        12 ~viG~~~vGKtsl~~   26 (57)
                      ++.|.+|.|||+|..
T Consensus        18 lfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          18 VFFGLSGTGKTTLSA   32 (323)
T ss_dssp             EEECCTTSSHHHHHC
T ss_pred             EEEccCCCCccccee
Confidence            688999999999884

>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=88.63  E-value=0.23  Score=24.79  Aligned_cols=24  Identities=17%  Similarity=0.211  Sum_probs=19.8

Q ss_pred             ceeeeEEEECCCCCchHHHHHHhh
Q 035406            6 DYLFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         6 ~~~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      +.=|-+++-|.+++||+++...+.
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            345789999999999999987654

>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=88.01  E-value=0.21  Score=27.66  Aligned_cols=20  Identities=25%  Similarity=0.383  Sum_probs=16.0

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+.|++++|||+++.....
T Consensus        63 ~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          63 IEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             EEEECSSSSSHHHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHHHH
Confidence            35779999999999876553

>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=88.00  E-value=0.18  Score=31.43  Aligned_cols=21  Identities=29%  Similarity=0.341  Sum_probs=16.1

Q ss_pred             eeeEEEECCCCCchHHHHHHh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRF   28 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~   28 (57)
                      .--|++.|++|+|||--.+.+
T Consensus       125 nQsIiisGeSGaGKTe~~k~i  145 (712)
T d1d0xa2         125 NQSLLITGESGAGKTENTKKV  145 (712)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             CceEEEeCCCCCCHHHHHHHH
Confidence            346889999999999655543

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=87.81  E-value=0.19  Score=31.23  Aligned_cols=20  Identities=25%  Similarity=0.317  Sum_probs=15.7

Q ss_pred             eeEEEECCCCCchHHHHHHh
Q 035406            9 FKLLLIGDSSVGKSCLLLRF   28 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~   28 (57)
                      --|++.|++|+|||.-.+.+
T Consensus        92 Q~IiisGeSGaGKTe~~k~i  111 (710)
T d1br2a2          92 QSILCTGESGAGKTENTKKV  111 (710)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHH
Confidence            35899999999999655543

>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=87.71  E-value=0.24  Score=25.66  Aligned_cols=16  Identities=19%  Similarity=0.418  Sum_probs=12.5

Q ss_pred             ECCCCCchHHHHHHhh
Q 035406           14 IGDSSVGKSCLLLRFA   29 (57)
Q Consensus        14 iG~~~vGKtsl~~~~~   29 (57)
                      -+..|+|||++...+.
T Consensus         8 s~KGGvGKTtia~nlA   23 (232)
T d1hyqa_           8 SGKGGTGKTTITANLG   23 (232)
T ss_dssp             ESSSCSCHHHHHHHHH
T ss_pred             CCCCCChHHHHHHHHH
Confidence            3788999999887543

>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=87.53  E-value=0.26  Score=25.46  Aligned_cols=19  Identities=16%  Similarity=0.492  Sum_probs=14.0

Q ss_pred             EEEE-CCCCCchHHHHHHhh
Q 035406           11 LLLI-GDSSVGKSCLLLRFA   29 (57)
Q Consensus        11 i~vi-G~~~vGKtsl~~~~~   29 (57)
                      |.+. +..|+|||++...+.
T Consensus         5 Iav~~~kGGvGKTtia~nLA   24 (237)
T d1g3qa_           5 ISIVSGKGGTGKTTVTANLS   24 (237)
T ss_dssp             EEEECSSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCcHHHHHHHHH
Confidence            3344 677999999888754

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=87.48  E-value=0.18  Score=24.35  Aligned_cols=20  Identities=20%  Similarity=0.028  Sum_probs=15.3

Q ss_pred             eEEEECCCCCchHHHHHHhh
Q 035406           10 KLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~   29 (57)
                      ..++.++.|+|||.++..+.
T Consensus        10 ~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            34678999999998776544

>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=87.38  E-value=0.22  Score=27.57  Aligned_cols=20  Identities=30%  Similarity=0.348  Sum_probs=16.3

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      ..+.|++++|||+|+..+.-
T Consensus        60 tei~G~~~sGKT~l~l~~~~   79 (268)
T d1xp8a1          60 TEIYGPESGGKTTLALAIVA   79 (268)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEecCCccchHHHHHHHHH
Confidence            34779999999999987654

>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=87.35  E-value=0.27  Score=26.55  Aligned_cols=20  Identities=30%  Similarity=0.350  Sum_probs=16.8

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      .++-|+...|||++++.+.-
T Consensus        44 ~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHHH
Confidence            57889999999999997543

>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=87.12  E-value=0.17  Score=28.31  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=17.7

Q ss_pred             eEEEECCCCCchHHHHHHhhcC
Q 035406           10 KLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      |+.++|.+|+|||.++.....+
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            5678899999999998765443

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=86.93  E-value=0.2  Score=31.56  Aligned_cols=18  Identities=28%  Similarity=0.434  Sum_probs=14.4

Q ss_pred             eeEEEECCCCCchHHHHH
Q 035406            9 FKLLLIGDSSVGKSCLLL   26 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~   26 (57)
                      --|++.|++|+|||--.+
T Consensus       124 QsIiisGeSGaGKTe~~K  141 (794)
T d2mysa2         124 QSILITGESGAGKTVNTK  141 (794)
T ss_dssp             EEEEEEECTTSCHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHH
Confidence            358899999999995444

>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=86.85  E-value=0.23  Score=31.26  Aligned_cols=19  Identities=26%  Similarity=0.232  Sum_probs=14.9

Q ss_pred             eeeEEEECCCCCchHHHHH
Q 035406            8 LFKLLLIGDSSVGKSCLLL   26 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~   26 (57)
                      .--|++.|++|+|||--.+
T Consensus       121 nQ~IiisGESGaGKTe~~K  139 (789)
T d1kk8a2         121 NQSCLITGESGAGKTENTK  139 (789)
T ss_dssp             EEEEEEECSTTSSHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHH
Confidence            3468899999999995544

>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=86.26  E-value=0.33  Score=26.06  Aligned_cols=20  Identities=35%  Similarity=0.443  Sum_probs=16.9

Q ss_pred             EEEECCCCCchHHHHHHhhc
Q 035406           11 LLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus        11 i~viG~~~vGKtsl~~~~~~   30 (57)
                      +++-|+...|||++++...-
T Consensus        38 ~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhHH
Confidence            67899999999999997544

>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=85.61  E-value=0.3  Score=30.41  Aligned_cols=20  Identities=20%  Similarity=0.283  Sum_probs=15.5

Q ss_pred             eeEEEECCCCCchHHHHHHh
Q 035406            9 FKLLLIGDSSVGKSCLLLRF   28 (57)
Q Consensus         9 ~ki~viG~~~vGKtsl~~~~   28 (57)
                      -.|++.|++|+|||--...+
T Consensus        95 Q~IiisGeSGsGKTe~~k~i  114 (730)
T d1w7ja2          95 QSIIVSGESGAGKTVSAKYA  114 (730)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHH
Confidence            46889999999999655443

>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=85.52  E-value=0.39  Score=24.36  Aligned_cols=17  Identities=18%  Similarity=0.432  Sum_probs=13.5

Q ss_pred             eEEEECCCCCchHHHHH
Q 035406           10 KLLLIGDSSVGKSCLLL   26 (57)
Q Consensus        10 ki~viG~~~vGKtsl~~   26 (57)
                      ++++.++.|+|||.++.
T Consensus        25 n~lv~~pTGsGKT~i~~   41 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAM   41 (200)
T ss_dssp             CEEEECCTTSCHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHH
Confidence            57888999999996433

>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=84.33  E-value=0.61  Score=21.80  Aligned_cols=28  Identities=18%  Similarity=0.241  Sum_probs=22.1

Q ss_pred             ccceeeeEEEECCCCCchHHHHHHhhcC
Q 035406            4 EYDYLFKLLLIGDSSVGKSCLLLRFADD   31 (57)
Q Consensus         4 ~~~~~~ki~viG~~~vGKtsl~~~~~~~   31 (57)
                      .-...-++.++|-.|+|.++|+.-+...
T Consensus         4 ~~~~~~~ihfiGigG~GMs~LA~~L~~~   31 (96)
T d1p3da1           4 EMRRVQQIHFIGIGGAGMSGIAEILLNE   31 (96)
T ss_dssp             CCTTCCEEEEETTTSTTHHHHHHHHHHH
T ss_pred             cchhCCEEEEEEECHHHHHHHHHHHHhC
Confidence            3345678999999999999998876653

>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=83.25  E-value=0.45  Score=24.85  Aligned_cols=23  Identities=13%  Similarity=0.169  Sum_probs=19.4

Q ss_pred             eeeEEEECCCCCchHHHHHHhhc
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFAD   30 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~~   30 (57)
                      ...+++-|++|+||++++..+..
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            45789999999999999887654

>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=81.49  E-value=0.31  Score=22.90  Aligned_cols=15  Identities=20%  Similarity=0.171  Sum_probs=11.8

Q ss_pred             eeEEEECCCCCchHH
Q 035406            9 FKLLLIGDSSVGKSC   23 (57)
Q Consensus         9 ~ki~viG~~~vGKts   23 (57)
                      -.+++..+.|+|||.
T Consensus         8 ~~~il~~~tGsGKT~   22 (140)
T d1yksa1           8 MTTVLDFHPGAGKTR   22 (140)
T ss_dssp             CEEEECCCTTSSTTT
T ss_pred             CcEEEEcCCCCChhH
Confidence            356777899999993

>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=80.25  E-value=0.73  Score=24.93  Aligned_cols=22  Identities=32%  Similarity=0.466  Sum_probs=16.9

Q ss_pred             eeeEEEECCCCCchHHHHHHhh
Q 035406            8 LFKLLLIGDSSVGKSCLLLRFA   29 (57)
Q Consensus         8 ~~ki~viG~~~vGKtsl~~~~~   29 (57)
                      ....++.|+.|+|||-.+.+..
T Consensus        76 ~~~~LL~GdvGsGKT~V~~~a~   97 (233)
T d2eyqa3          76 AMDRLVCGDVGFGKTEVAMRAA   97 (233)
T ss_dssp             CCEEEEECCCCTTTHHHHHHHH
T ss_pred             ccCeEEEcCCCCCcHHHHHHHH
Confidence            3567888999999997666544