Citrus Sinensis ID: 031411

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160
Protein Sequence
MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVILKV
Secondary Structure (PSIPRED)
cccccccccccccEEEEEEEEccccccccEEEEEEcccccccccEEEEcEEEEEEEEEEccEEEEEEEEEcccccHHHHHHHHHcccccEEEEEEEccccHHHHHHHHHHHHHHHHccccccEEEEEEccccccccccccccHHHHHHHHHccccEEEEc
Secondary Structure Prediction (SSPRO)
cccccccccccccEEEEEEEEccccccHHHHHHHHHHccccccccccccEEEEEEEEEEccEEEEEEEEEEcccHHHHHHHHcccccccEEEEEEEcccHHHHHcHHHHHHHHHHHcccccEEEEEEEccccHHHcccccHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
maappararADYDYLIKLLLIgdsgvgksCLLLrfsdgsfttsfITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYdvtdessfNNIRNWIRNIEQHASDNVNKILVgnkadmdeskreapfclhETILLTVQVHLVILKV
Flexible Loop (DISEMBL)
maappararADYDYLIKLLLIGDSGVGKSCLLLRFsdgsfttsfittigidfkirtieldgkriklqiwdtagqerFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVILKV
Low Complexity Region (SEG)
MaappararadydyLIKLLLIGDSGVGKSCLLLRfsdgsfttsfittigidfKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVILKV
Disordered region (IsUnstruct)
**********DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGN**********APFCLHETILLTVQVHLVIL**
Disordered Region (DISOPRED)
*************YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR***********LTVQVHLVILKV
Disordered Region (DISEMBL)
********RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVILKV
Disordered Region (DISPRO)
*********ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVILKV
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVILKV
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	160	2.2.26 [Sep-21-2011]
P28186	216	Ras-related protein RABE1	yes	no	0.875	0.648	0.985	9e-78
Q39433	215	Ras-related protein RAB1B	N/A	no	0.875	0.651	0.985	1e-77
O24466	216	Ras-related protein RABE1	yes	no	0.812	0.601	0.976	2e-70
Q9LZD4	216	Ras-related protein RABE1	no	no	0.875	0.648	0.928	6e-68
Q9SF91	218	Ras-related protein RABE1	no	no	0.875	0.642	0.921	2e-67
P20790	208	Ras-related protein Rab-8	yes	no	0.85	0.653	0.845	1e-63
P20791	203	Ras-related protein Rab-8	no	no	0.85	0.669	0.838	3e-63
P36861	217	GTP-binding protein yptV2	N/A	no	0.843	0.622	0.781	3e-59
P17609	200	GTP-binding protein ypt2	yes	no	0.806	0.645	0.823	3e-58
Q92930	207	Ras-related protein Rab-8	yes	no	0.787	0.608	0.761	9e-56

>sp|P28186|RAE1C_ARATH Ras-related protein RABE1c OS=Arabidopsis thaliana GN=RABE1C PE=1 SV=1

 Score =  288 bits (737), Expect = 9e-78,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Involved in membrane trafficking from the Golgi to the plasma membrane.
Arabidopsis thaliana (taxid: 3702)

>sp|Q39433|RB1BV_BETVU Ras-related protein RAB1BV OS=Beta vulgaris GN=RAB1BV PE=2 SV=1

 Score =  288 bits (737), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Beta vulgaris (taxid: 161934)

>sp|O24466|RAE1A_ARATH Ras-related protein RABE1a OS=Arabidopsis thaliana GN=RABE1A PE=1 SV=1

 Score =  264 bits (675), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 127/130 (97%), Positives = 128/130 (98%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
           DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD
Sbjct: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD+VNKILVGNKA
Sbjct: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDSVNKILVGNKA 130

Query: 131 DMDESKREAP 140
           DMDESKR  P
Sbjct: 131 DMDESKRAVP 140

Involved in membrane trafficking from the Golgi to the plasma membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LZD4|RAE1D_ARATH Ras-related protein RABE1d OS=Arabidopsis thaliana GN=RABE1D PE=1 SV=1

 Score =  256 bits (653), Expect = 6e-68,   Method: Compositional matrix adjust.
 Identities = 130/140 (92%), Positives = 135/140 (96%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MA  PARAR+DYDYLIKLLLIGDSGVGKSCLLLRFSD +FTTSFITTIGIDFKIRT+ELD
Sbjct: 1   MAVAPARARSDYDYLIKLLLIGDSGVGKSCLLLRFSDDTFTTSFITTIGIDFKIRTVELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNW++NIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWMKNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Involved in membrane trafficking from the Golgi to the plasma membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SF91|RAE1E_ARATH Ras-related protein RABE1e OS=Arabidopsis thaliana GN=RABE1E PE=1 SV=1

 Score =  253 bits (647), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 129/140 (92%), Positives = 135/140 (96%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MA  PARAR+DYDYLIKLLLIGDSGVGKSCLLLRFSD +FTTSFITTIGIDFKIRT+ELD
Sbjct: 1   MAVAPARARSDYDYLIKLLLIGDSGVGKSCLLLRFSDDTFTTSFITTIGIDFKIRTVELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNW++NIEQHASD+
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWMKNIEQHASDS 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Involved in membrane trafficking from the Golgi to the plasma membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|P20790|RAB8A_DICDI Ras-related protein Rab-8A OS=Dictyostelium discoideum GN=rab8A PE=3 SV=1

 Score =  241 bits (615), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 115/136 (84%), Positives = 122/136 (89%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           M +P     A YDYLIKLLLIGDSGVGKSCLLLRFS+ SFT SFITTIGIDFKIRTIEL+
Sbjct: 1   MTSPATNKSAAYDYLIKLLLIGDSGVGKSCLLLRFSEDSFTPSFITTIGIDFKIRTIELE 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDE SF NIRNWIRNIEQHA+D+
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDEKSFGNIRNWIRNIEQHATDS 120

Query: 121 VNKILVGNKADMDESK 136
           VNK+L+GNK DM E K
Sbjct: 121 VNKMLIGNKCDMAEKK 136

Protein transport. Probably involved in vesicular traffic.

Dictyostelium discoideum (taxid: 44689)

>sp|P20791|RAB8B_DICDI Ras-related protein Rab-8B OS=Dictyostelium discoideum GN=rab8B PE=2 SV=1

 Score =  240 bits (612), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 114/136 (83%), Positives = 122/136 (89%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           M +P     A YD+L+KLLLIGDSGVGKSCLLLRFSDGSFT SFI TIGIDFKIRTIEL+
Sbjct: 1   MTSPATNKPAAYDFLVKLLLIGDSGVGKSCLLLRFSDGSFTPSFIATIGIDFKIRTIELE 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDE SF +IRNWIRNIEQHASD+
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDEKSFGSIRNWIRNIEQHASDS 120

Query: 121 VNKILVGNKADMDESK 136
           VNK+L+GNK DM E K
Sbjct: 121 VNKMLIGNKCDMTEKK 136

Protein transport. Probably involved in vesicular traffic.

Dictyostelium discoideum (taxid: 44689)

>sp|P36861|YPTV2_VOLCA GTP-binding protein yptV2 OS=Volvox carteri GN=YPTV2 PE=3 SV=1

 Score =  227 bits (578), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 107/137 (78%), Positives = 122/137 (89%), Gaps = 2/137 (1%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MA  P R   DYD LIKLLL+GDSGVGKSCLLLRF+D  FT+SFITTIGIDFKI+ +++D
Sbjct: 1   MARIPGRP--DYDALIKLLLVGDSGVGKSCLLLRFTDDMFTSSFITTIGIDFKIKKVDVD 58

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GK +KLQIWDTAGQERFRTIT+AYYRGA GI+LVYD+TDE+SFNN+RNW+RNIEQHASDN
Sbjct: 59  GKLVKLQIWDTAGQERFRTITSAYYRGAQGIILVYDITDEASFNNVRNWMRNIEQHASDN 118

Query: 121 VNKILVGNKADMDESKR 137
           VNKILVGNK D+ E KR
Sbjct: 119 VNKILVGNKLDLAEDKR 135

Protein transport. Probably involved in vesicular traffic.

Volvox carteri (taxid: 3067)

>sp|P17609|YPT2_SCHPO GTP-binding protein ypt2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ypt2 PE=3 SV=1

 Score =  223 bits (569), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 107/130 (82%), Positives = 117/130 (90%), Gaps = 1/130 (0%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           YDYLIKLLLIGDSGVGKSCLLLRFS+ SFT SFITTIGIDFKIRTIELDGKRIKLQIWDT
Sbjct: 6   YDYLIKLLLIGDSGVGKSCLLLRFSEDSFTPSFITTIGIDFKIRTIELDGKRIKLQIWDT 65

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           AGQERFRTITTAYYRGAMGILL+YDVTD+ SF+N+R W  N+EQHAS+NV KIL+GNK D
Sbjct: 66  AGQERFRTITTAYYRGAMGILLLYDVTDKKSFDNVRTWFSNVEQHASENVYKILIGNKCD 125

Query: 132 MDESKREAPF 141
             E +R+  F
Sbjct: 126 C-EDQRQVSF 134

Protein transport. Probably involved in vesicular traffic.

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

>sp|Q92930|RAB8B_HUMAN Ras-related protein Rab-8B OS=Homo sapiens GN=RAB8B PE=1 SV=2

 Score =  215 bits (548), Expect = 9e-56,   Method: Compositional matrix adjust.
 Identities = 96/126 (76%), Positives = 117/126 (92%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           YDYL KLLLIGDSGVGK+CLL RFS+ +F T+FI+TIGIDFKIRTIELDGK+IKLQIWDT
Sbjct: 5   YDYLFKLLLIGDSGVGKTCLLFRFSEDAFNTTFISTIGIDFKIRTIELDGKKIKLQIWDT 64

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           AGQERFRTITTAYYRGAMGI+LVYD+T+E SF+NI+NWIRNIE+HAS +V ++++GNK D
Sbjct: 65  AGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEHASSDVERMILGNKCD 124

Query: 132 MDESKR 137
           M++ ++
Sbjct: 125 MNDKRQ 130

May be involved in vesicular trafficking and neurotransmitter release (By similarity). May participate in cell junction dynamics in Sertoli cells.

Homo sapiens (taxid: 9606)

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	160
18447915	216	ras-related protein RAB8-2 [Nicotiana ta	0.875	0.648	0.985	3e-76
15238542	216	Ras-related protein Rab-8A [Arabidopsis	0.875	0.648	0.985	3e-76
449440016	216	PREDICTED: ras-related protein RABE1a-li	0.875	0.648	0.985	4e-76
297796937	216	hypothetical protein ARALYDRAFT_496120 [	0.875	0.648	0.985	4e-76
18447917	216	ras-related protein RAB8-3 [Nicotiana ta	0.875	0.648	0.985	4e-76
255584780	216	protein with unknown function [Ricinus c	0.875	0.648	0.985	5e-76
224104483	215	predicted protein [Populus trichocarpa]	0.875	0.651	0.985	5e-76
15231322	216	Ras-related protein ARA-3 [Arabidopsis t	0.875	0.648	0.985	5e-76
327505559	216	Rab3 [Hevea brasiliensis]	0.875	0.648	0.985	5e-76
385888878	216	RabE1 [Nicotiana benthamiana]	0.875	0.648	0.985	5e-76

>gi|18447915|dbj|BAB84323.1| ras-related protein RAB8-2 [Nicotiana tabacum] gi|18447919|dbj|BAB84325.1| ras-related protein RAB8-4 [Nicotiana tabacum]

 Score =  289 bits (739), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15238542|ref|NP_200792.1| Ras-related protein Rab-8A [Arabidopsis thaliana] gi|9757904|dbj|BAB08351.1| Rab-type small GTP-binding protein-like [Arabidopsis thaliana] gi|28393504|gb|AAO42173.1| putative GTP-binding protein ara-3 [Arabidopsis thaliana] gi|28973447|gb|AAO64048.1| putative GTP-binding protein ara-3 [Arabidopsis thaliana] gi|332009857|gb|AED97240.1| Ras-related protein Rab-8A [Arabidopsis thaliana]

 Score =  289 bits (739), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440016|ref|XP_004137781.1| PREDICTED: ras-related protein RABE1a-like [Cucumis sativus]

 Score =  288 bits (738), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297796937|ref|XP_002866353.1| hypothetical protein ARALYDRAFT_496120 [Arabidopsis lyrata subsp. lyrata] gi|297312188|gb|EFH42612.1| hypothetical protein ARALYDRAFT_496120 [Arabidopsis lyrata subsp. lyrata]

 Score =  288 bits (738), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18447917|dbj|BAB84324.1| ras-related protein RAB8-3 [Nicotiana tabacum]

 Score =  288 bits (738), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255584780|ref|XP_002533108.1| protein with unknown function [Ricinus communis] gi|223527099|gb|EEF29280.1| protein with unknown function [Ricinus communis]

 Score =  288 bits (737), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224104483|ref|XP_002313450.1| predicted protein [Populus trichocarpa] gi|222849858|gb|EEE87405.1| predicted protein [Populus trichocarpa]

 Score =  288 bits (737), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15231322|ref|NP_190192.1| Ras-related protein ARA-3 [Arabidopsis thaliana] gi|145332765|ref|NP_001078248.1| Ras-related protein ARA-3 [Arabidopsis thaliana] gi|186510716|ref|NP_001118780.1| Ras-related protein ARA-3 [Arabidopsis thaliana] gi|297815758|ref|XP_002875762.1| hypothetical protein ARALYDRAFT_484985 [Arabidopsis lyrata subsp. lyrata] gi|114088|sp|P28186.1|RAE1C_ARATH RecName: Full=Ras-related protein RABE1c; Short=AtRABE1c; AltName: Full=Ras-related protein Ara-3; AltName: Full=Ras-related protein Rab8A; Short=AtRab8A gi|217837|dbj|BAA00830.1| small GTP-binding protein [Arabidopsis thaliana] gi|7798994|emb|CAB90933.1| GTP-binding protein ara-3 [Arabidopsis thaliana] gi|14334918|gb|AAK59637.1| putative GTP-binding protein ara-3 [Arabidopsis thaliana] gi|14596015|gb|AAK68735.1| GTP-binding protein ara-3 [Arabidopsis thaliana] gi|25054949|gb|AAN71951.1| putative GTP-binding protein ara-3 [Arabidopsis thaliana] gi|25084212|gb|AAN72197.1| GTP-binding protein ara-3 [Arabidopsis thaliana] gi|297321600|gb|EFH52021.1| hypothetical protein ARALYDRAFT_484985 [Arabidopsis lyrata subsp. lyrata] gi|332644585|gb|AEE78106.1| Ras-related protein ARA-3 [Arabidopsis thaliana] gi|332644586|gb|AEE78107.1| Ras-related protein ARA-3 [Arabidopsis thaliana] gi|332644587|gb|AEE78108.1| Ras-related protein ARA-3 [Arabidopsis thaliana]

 Score =  288 bits (737), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|327505559|gb|AEA92307.1| Rab3 [Hevea brasiliensis]

 Score =  288 bits (737), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|385888878|gb|AFI98561.1| RabE1 [Nicotiana benthamiana]

 Score =  288 bits (737), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 138/140 (98%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD
Sbjct: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN
Sbjct: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120

Query: 121 VNKILVGNKADMDESKREAP 140
           VNKILVGNKADMDESKR  P
Sbjct: 121 VNKILVGNKADMDESKRAVP 140

Source: Nicotiana benthamiana

Species: Nicotiana benthamiana

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	160
TAIR|locus:2075251	216	RABE1c [Arabidopsis thaliana (	0.787	0.583	0.841	5.1e-51
TAIR|locus:2168103	216	AT5G59840 [Arabidopsis thalian	0.787	0.583	0.841	5.1e-51
TAIR|locus:2084056	216	RAB8 "RAB GTPase homolog 8" [A	0.787	0.583	0.833	1.7e-50
TAIR|locus:2142684	216	RAB8C "RAB GTPase homolog 8C"	0.787	0.583	0.817	2.8e-50
TAIR|locus:2085089	218	RABE1e "RAB GTPase homolog E1E	0.787	0.577	0.809	9.5e-50
DICTYBASE|DDB_G0280043	208	rab8A "Rab GTPase" [Dictyostel	0.762	0.586	0.770	3.4e-45
DICTYBASE|DDB_G0276399	203	rab8B "Rab GTPase" [Dictyostel	0.762	0.600	0.762	5.6e-45
POMBASE|SPAC9E9.07c	200	ypt2 "GTPase Ypt2" [Schizosacc	0.787	0.63	0.700	1.9e-42
ASPGD|ASPL0000069804	206	srgA [Emericella nidulans (tax	0.762	0.592	0.713	4e-42
UNIPROTKB|E1C080	178	RAB8B "Uncharacterized protein	0.768	0.691	0.666	2.8e-41

TAIR|locus:2075251 RABE1c [Arabidopsis thaliana (taxid:3702)]

 Score = 530 (191.6 bits), Expect = 5.1e-51, P = 5.1e-51
 Identities = 106/126 (84%), Positives = 106/126 (84%)

Query:    15 LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
             LIKLLLIGDSGVGKSCLLLR                  KIRTIELDGKRIKLQIWDTAGQ
Sbjct:    15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74

Query:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
             ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE
Sbjct:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134

Query:   135 SKREAP 140
             SKR  P
Sbjct:   135 SKRAVP 140

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:0009873 "ethylene mediated signaling pathway" evidence=IEP

GO:0005886 "plasma membrane" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0006007 "glucose catabolic process" evidence=RCA

GO:0042732 "D-xylose metabolic process" evidence=RCA

TAIR|locus:2168103 AT5G59840 [Arabidopsis thaliana (taxid:3702)]

 Score = 530 (191.6 bits), Expect = 5.1e-51, P = 5.1e-51
 Identities = 106/126 (84%), Positives = 106/126 (84%)

Query:    15 LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
             LIKLLLIGDSGVGKSCLLLR                  KIRTIELDGKRIKLQIWDTAGQ
Sbjct:    15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74

Query:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
             ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE
Sbjct:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134

Query:   135 SKREAP 140
             SKR  P
Sbjct:   135 SKRAVP 140

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:0005829 "cytosol" evidence=RCA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2084056 RAB8 "RAB GTPase homolog 8" [Arabidopsis thaliana (taxid:3702)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 105/126 (83%), Positives = 106/126 (84%)

Query:    15 LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
             LIKLLLIGDSGVGKSCLLLR                  KIRTIELDGKRIKLQIWDTAGQ
Sbjct:    15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74

Query:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
             ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD+VNKILVGNKADMDE
Sbjct:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDSVNKILVGNKADMDE 134

Query:   135 SKREAP 140
             SKR  P
Sbjct:   135 SKRAVP 140

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:0005515 "protein binding" evidence=IPI

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2142684 RAB8C "RAB GTPase homolog 8C" [Arabidopsis thaliana (taxid:3702)]

 Score = 523 (189.2 bits), Expect = 2.8e-50, P = 2.8e-50
 Identities = 103/126 (81%), Positives = 106/126 (84%)

Query:    15 LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
             LIKLLLIGDSGVGKSCLLLR                  KIRT+ELDGKRIKLQIWDTAGQ
Sbjct:    15 LIKLLLIGDSGVGKSCLLLRFSDDTFTTSFITTIGIDFKIRTVELDGKRIKLQIWDTAGQ 74

Query:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
             ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNW++NIEQHASDNVNKILVGNKADMDE
Sbjct:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWMKNIEQHASDNVNKILVGNKADMDE 134

Query:   135 SKREAP 140
             SKR  P
Sbjct:   135 SKRAVP 140

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2085089 RABE1e "RAB GTPase homolog E1E" [Arabidopsis thaliana (taxid:3702)]

 Score = 518 (187.4 bits), Expect = 9.5e-50, P = 9.5e-50
 Identities = 102/126 (80%), Positives = 106/126 (84%)

Query:    15 LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
             LIKLLLIGDSGVGKSCLLLR                  KIRT+ELDGKRIKLQIWDTAGQ
Sbjct:    15 LIKLLLIGDSGVGKSCLLLRFSDDTFTTSFITTIGIDFKIRTVELDGKRIKLQIWDTAGQ 74

Query:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
             ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNW++NIEQHASD+VNKILVGNKADMDE
Sbjct:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWMKNIEQHASDSVNKILVGNKADMDE 134

Query:   135 SKREAP 140
             SKR  P
Sbjct:   135 SKRAVP 140

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:0005515 "protein binding" evidence=IPI

GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA

GO:0009086 "methionine biosynthetic process" evidence=RCA

DICTYBASE|DDB_G0280043 rab8A "Rab GTPase" [Dictyostelium discoideum (taxid:44689)]

 Score = 475 (172.3 bits), Expect = 3.4e-45, P = 3.4e-45
 Identities = 94/122 (77%), Positives = 99/122 (81%)

Query:    15 LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
             LIKLLLIGDSGVGKSCLLLR                  KIRTIEL+GKRIKLQIWDTAGQ
Sbjct:    15 LIKLLLIGDSGVGKSCLLLRFSEDSFTPSFITTIGIDFKIRTIELEGKRIKLQIWDTAGQ 74

Query:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
             ERFRTITTAYYRGAMGILLVYDVTDE SF NIRNWIRNIEQHA+D+VNK+L+GNK DM E
Sbjct:    75 ERFRTITTAYYRGAMGILLVYDVTDEKSFGNIRNWIRNIEQHATDSVNKMLIGNKCDMAE 134

Query:   135 SK 136
              K
Sbjct:   135 KK 136

GO:0033298 "contractile vacuole organization" evidence=IGI

GO:0032794 "GTPase activating protein binding" evidence=IPI

GO:0000331 "contractile vacuole" evidence=IDA

GO:0050708 "regulation of protein secretion" evidence=IMP

GO:0031157 "regulation of aggregate size involved in sorocarp development" evidence=IMP

GO:0030036 "actin cytoskeleton organization" evidence=IMP

GO:0016339 "calcium-dependent cell-cell adhesion" evidence=IMP

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

GO:0015031 "protein transport" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

DICTYBASE|DDB_G0276399 rab8B "Rab GTPase" [Dictyostelium discoideum (taxid:44689)]

 Score = 473 (171.6 bits), Expect = 5.6e-45, P = 5.6e-45
 Identities = 93/122 (76%), Positives = 99/122 (81%)

Query:    15 LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
             L+KLLLIGDSGVGKSCLLLR                  KIRTIEL+GKRIKLQIWDTAGQ
Sbjct:    15 LVKLLLIGDSGVGKSCLLLRFSDGSFTPSFIATIGIDFKIRTIELEGKRIKLQIWDTAGQ 74

Query:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
             ERFRTITTAYYRGAMGILLVYDVTDE SF +IRNWIRNIEQHASD+VNK+L+GNK DM E
Sbjct:    75 ERFRTITTAYYRGAMGILLVYDVTDEKSFGSIRNWIRNIEQHASDSVNKMLIGNKCDMTE 134

Query:   135 SK 136
              K
Sbjct:   135 KK 136

GO:0031157 "regulation of aggregate size involved in sorocarp development" evidence=IMP

GO:0016339 "calcium-dependent cell-cell adhesion" evidence=IMP

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

GO:0015031 "protein transport" evidence=IEA

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

GO:0005575 "cellular_component" evidence=ND

GO:0016020 "membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

POMBASE|SPAC9E9.07c ypt2 "GTPase Ypt2" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 449 (163.1 bits), Expect = 1.9e-42, P = 1.9e-42
 Identities = 89/127 (70%), Positives = 98/127 (77%)

Query:    15 LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
             LIKLLLIGDSGVGKSCLLLR                  KIRTIELDGKRIKLQIWDTAGQ
Sbjct:     9 LIKLLLIGDSGVGKSCLLLRFSEDSFTPSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 68

Query:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
             ERFRTITTAYYRGAMGILL+YDVTD+ SF+N+R W  N+EQHAS+NV KIL+GNK D  E
Sbjct:    69 ERFRTITTAYYRGAMGILLLYDVTDKKSFDNVRTWFSNVEQHASENVYKILIGNKCDC-E 127

Query:   135 SKREAPF 141
              +R+  F
Sbjct:   128 DQRQVSF 134

GO:0003924 "GTPase activity" evidence=TAS

GO:0005525 "GTP binding" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005886 "plasma membrane" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IC

GO:0006887 "exocytosis" evidence=IMP

GO:0006893 "Golgi to plasma membrane transport" evidence=ISO

GO:0006906 "vesicle fusion" evidence=ISO

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

ASPGD|ASPL0000069804 srgA [Emericella nidulans (taxid:162425)]

 Score = 446 (162.1 bits), Expect = 4.0e-42, P = 4.0e-42
 Identities = 87/122 (71%), Positives = 94/122 (77%)

Query:    15 LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
             LIKLLLIGDSGVGKSC LLR                  KIRTIELDGKR+KLQIWDTAGQ
Sbjct:    10 LIKLLLIGDSGVGKSCCLLRFSEDSFTPSFITTIGIDFKIRTIELDGKRVKLQIWDTAGQ 69

Query:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
             ERFRTITTAYYRGAMGILLVYDVTDE SF NIR W  N+EQHAS+ V+KIL+GNK D +E
Sbjct:    70 ERFRTITTAYYRGAMGILLVYDVTDERSFQNIRTWFSNVEQHASEGVHKILIGNKCDWEE 129

Query:   135 SK 136
              +
Sbjct:   130 KR 131

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006906 "vesicle fusion" evidence=IEA

GO:0006887 "exocytosis" evidence=IEA

GO:0006893 "Golgi to plasma membrane transport" evidence=IEA

UNIPROTKB|E1C080 RAB8B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 438 (159.2 bits), Expect = 2.8e-41, P = 2.8e-41
 Identities = 82/123 (66%), Positives = 98/123 (79%)

Query:    15 LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
             L KLLLIGDSGVGK+CLL R                  KIRTIELDGK+IKLQIWDTAGQ
Sbjct:     8 LFKLLLIGDSGVGKTCLLFRFSEDAFNTTFISTIGIDFKIRTIELDGKKIKLQIWDTAGQ 67

Query:    75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
             ERFRTITTAYYRGAMGI+LVYD+T+E SF+NI+NWIRNIE+HAS +V ++++GNK DM+E
Sbjct:    68 ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEHASSDVERMILGNKCDMNE 127

Query:   135 SKR 137
              ++
Sbjct:   128 KRQ 130

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

GO:0005525 "GTP binding" evidence=IEA

GO:0005102 "receptor binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005778 "peroxisomal membrane" evidence=IEA

GO:0045046 "protein import into peroxisome membrane" 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)
P61007	RAB8A_CANFA	No assigned EC number	0.7619	0.7875	0.6086	yes	no
Q05974	RAB1A_LYMST	No assigned EC number	0.7380	0.7875	0.6146	N/A	no
P70550	RAB8B_RAT	No assigned EC number	0.7619	0.7875	0.6086	yes	no
P61028	RAB8B_MOUSE	No assigned EC number	0.7619	0.7875	0.6086	yes	no
P41924	RYL1_YARLI	No assigned EC number	0.7251	0.8187	0.6453	yes	no
Q5REC9	RAB8B_PONAB	No assigned EC number	0.7619	0.7875	0.6086	yes	no
Q05737	YPTM2_MAIZE	No assigned EC number	0.7222	0.7875	0.6206	N/A	no
P20790	RAB8A_DICDI	No assigned EC number	0.8455	0.85	0.6538	yes	no
Q2HJI8	RAB8B_BOVIN	No assigned EC number	0.7619	0.7875	0.6086	yes	no
Q01890	YPT1_PHYIN	No assigned EC number	0.7377	0.7625	0.6069	N/A	no
Q9SF91	RAE1E_ARATH	No assigned EC number	0.9214	0.875	0.6422	no	no
P28186	RAE1C_ARATH	No assigned EC number	0.9857	0.875	0.6481	yes	no
P17609	YPT2_SCHPO	No assigned EC number	0.8230	0.8062	0.645	yes	no
P36861	YPTV2_VOLCA	No assigned EC number	0.7810	0.8437	0.6221	N/A	no
P33723	YPT1_NEUCR	No assigned EC number	0.7142	0.7875	0.6206	N/A	no
O24466	RAE1A_ARATH	No assigned EC number	0.9769	0.8125	0.6018	yes	no
Q4R5P1	RAB8A_MACFA	No assigned EC number	0.7619	0.7875	0.6086	N/A	no
Q4R8X3	RAB1B_MACFA	No assigned EC number	0.7142	0.7875	0.6268	N/A	no
P22125	RAB1_DIPOM	No assigned EC number	0.7301	0.7875	0.6237	N/A	no
Q39571	YPTC1_CHLRE	No assigned EC number	0.7222	0.7875	0.6206	N/A	no
Q9LZD4	RAE1D_ARATH	No assigned EC number	0.9285	0.875	0.6481	no	no
Q92930	RAB8B_HUMAN	No assigned EC number	0.7619	0.7875	0.6086	yes	no
P31584	YPTV1_VOLCA	No assigned EC number	0.7222	0.7875	0.6206	N/A	no
Q39433	RB1BV_BETVU	No assigned EC number	0.9857	0.875	0.6511	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:
	AT5G59840	Ras-related GTP-binding family protein; Ras-related GTP-binding family protein; FUNCTIONS IN- GTP binding; INVOLVED IN- protein transport, small GTPase mediated signal transduction; LOCATED IN- plasma membrane; EXPRESSED IN- 23 plant structures; EXPRESSED DURING- 15 growth stages; CONTAINS InterPro DOMAIN/s- Ras GTPase (InterPro-IPR001806), Small GTP-binding protein (InterPro-IPR005225), Ras (InterPro-IPR013753), Ras small GTPase, Rab type (InterPro-IPR003579); BEST Arabidopsis thaliana protein match is- ATRAB8; GTP binding (TAIR-AT3G53610.3); Has 23810 Blast hits to 23756 proteins in [...] (216 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	ARO4	ARO4 (ARMADILLO REPEAT ONLY 4); binding; Armadillo repeat protein. One of a family of four in A [...] (615 aa)							•		0.919
	BPA1	BPA1 (BINDINGPARTNEROFACD11 1); nucleic acid binding / nucleotide binding / oxidoreductase; BIN [...] (260 aa)				•			•		0.872
	AT4G11890	protein kinase family protein; protein kinase family protein; FUNCTIONS IN- protein serine/thre [...] (354 aa)							•		0.829
	AT5G53880	unknown protein; unknown protein; FUNCTIONS IN- molecular_function unknown; INVOLVED IN- biolog [...] (66 aa)							•		0.534
	AT1G80180	unknown protein; unknown protein; FUNCTIONS IN- molecular_function unknown; INVOLVED IN- biolog [...] (138 aa)							•		0.534
	APT2	APT2 (ADENINE PHOSPHORIBOSYL TRANSFERASE 2); adenine phosphoribosyltransferase/ phosphate trans [...] (192 aa)							•		0.534
	AT3G01850	ribulose-phosphate 3-epimerase, cytosolic, putative / pentose-5-phosphate 3-epimerase, putative [...] (225 aa)							•		0.407
	LPP3	LPP3 (LIPID PHOSPHATE PHOSPHATASE 3); phosphatidate phosphatase; Encodes phosphatidic acid phos [...] (364 aa)							•		0.406

---

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	160
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	3e-95
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	4e-80
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	4e-76
pfam00071	162	pfam00071, Ras, Ras family	5e-75
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	6e-72
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	2e-64
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	2e-60
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	2e-58
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	4e-57
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	1e-55
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	2e-55
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	3e-54
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	3e-54
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	2e-53
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	6e-51
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	2e-50
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	1e-48
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	2e-48
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	2e-47
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	3e-47
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	7e-47
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	1e-46
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	1e-43
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	1e-43
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	1e-43
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	4e-43
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	1e-41
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	2e-41
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	2e-39
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	2e-35
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	9e-35
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	4e-33
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	1e-32
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	2e-32
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	2e-31
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	2e-31
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	2e-28
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	1e-27
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	3e-26
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	5e-26
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	1e-25
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	8e-25
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	1e-24
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	1e-24
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	1e-24
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	2e-24
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	4e-24
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	1e-23
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	2e-23
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	6e-23
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	9e-23
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	1e-22
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	1e-22
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	2e-22
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	2e-22
pfam08477	116	pfam08477, Miro, Miro-like protein	3e-22
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	1e-21
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	4e-21
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	6e-21
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	1e-20
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	3e-20
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	8e-20
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	2e-19
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	3e-19
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	3e-19
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	7e-19
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	1e-18
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	2e-18
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	2e-18
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	1e-17
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	1e-17
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	1e-17
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	2e-17
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	1e-16
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	1e-15
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	8e-15
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	1e-14
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	2e-14
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	6e-14
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	2e-13
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	2e-13
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	4e-12
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	1e-11
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	1e-10
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	1e-10
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	1e-10
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	2e-10
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	2e-10
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	3e-10
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	7e-10
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	8e-10
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	1e-09
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	3e-09
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	6e-09
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	3e-08
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	3e-08
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	2e-07
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	2e-07
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	3e-07
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	5e-07
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	5e-07
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	5e-07
cd01892	180	cd01892, Miro2, Mitochondrial Rho family 2 (Miro2)	1e-06
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	4e-06
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	5e-06
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	2e-05
cd04154	173	cd04154, Arl2, Arf-like 2 (Arl2) GTPase	2e-05
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	6e-05
cd04162	164	cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp	0.002
cd04161	167	cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (A	0.002
cd04105	202	cd04105, SR_beta, Signal recognition particle rece	0.004

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

 Score =  272 bits (697), Expect = 3e-95
 Identities = 101/129 (78%), Positives = 116/129 (89%), Gaps = 1/129 (0%)

Query: 13  DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTA 72
           DYL KLLLIGDSGVGKSCLLLRFS+ SF  SFI+TIGIDFKIRTIELDGK+IKLQIWDTA
Sbjct: 1   DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTA 60

Query: 73  GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           GQERFRTITT+YYRGAMGI+LVYD+TDE SF NI+NW+RNI++HAS++V ++LVGNK DM
Sbjct: 61  GQERFRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDM 120

Query: 133 DESKREAPF 141
           +E KR    
Sbjct: 121 EE-KRVVSK 128

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

 Score =  234 bits (598), Expect = 4e-80
 Identities = 89/123 (72%), Positives = 112/123 (91%)

Query: 14  YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG 73
           YL KLLLIGDSGVGKSCLLLRF+D ++T S+I+TIG+DFKIRTIELDGK +KLQIWDTAG
Sbjct: 1   YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAG 60

Query: 74  QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD 133
           QERFRTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+NVNK+LVGNK D+ 
Sbjct: 61  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 120

Query: 134 ESK 136
           + K
Sbjct: 121 DKK 123

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score =  223 bits (572), Expect = 4e-76
 Identities = 76/126 (60%), Positives = 103/126 (81%), Gaps = 1/126 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            K++LIGDSGVGKS LL RF+DG F+  + +TIG+DFK +TIE+DGKR+KLQIWDTAGQE
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQE 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RFR+IT++YYRGA+G LLVYD+T+  SF N+ NW++ + ++AS NV  +LVGNK+D+ E 
Sbjct: 61  RFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDL-EE 119

Query: 136 KREAPF 141
           +R+   
Sbjct: 120 QRQVSR 125

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  220 bits (564), Expect = 5e-75
 Identities = 70/125 (56%), Positives = 89/125 (71%), Gaps = 1/125 (0%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+L+GD GVGKS LL+RF+   F   +I TIG+DF  +TIE+DGK +KLQIWDTAGQER
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQER 60

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK 136
           FR +   YYRGA G LLVYD+T   SF N++ W+  I +HA +NV  +LVGNK D+ E +
Sbjct: 61  FRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDL-EDQ 119

Query: 137 REAPF 141
           R    
Sbjct: 120 RVVST 124

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 =  213 bits (544), Expect = 6e-72
 Identities = 72/123 (58%), Positives = 100/123 (81%), Gaps = 1/123 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            K++LIGDSGVGK+ LLLRF D  F+ ++ +TIG+DFK +TIE+DGK++KLQIWDTAGQE
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQE 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RFR+IT++YYRGA G +LVYDVT+  SF N+  W+  ++++A  N+  ILVGNK+D+ E 
Sbjct: 61  RFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDL-ED 119

Query: 136 KRE 138
           +R+
Sbjct: 120 ERQ 122

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

 Score =  195 bits (497), Expect = 2e-64
 Identities = 83/126 (65%), Positives = 107/126 (84%), Gaps = 1/126 (0%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
           DYD+L KLL+IGDSGVGKS LLLRF+D +F+ S+ITTIG+DFKIRT+E++G+R+KLQIWD
Sbjct: 2   DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWD 61

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           TAGQERFRTIT+ YYRG  G+++VYDVT+  SF N++ W++ IEQ+  D+V K+LVGNK 
Sbjct: 62  TAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNC-DDVCKVLVGNKN 120

Query: 131 DMDESK 136
           D  E K
Sbjct: 121 DDPERK 126

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

 Score =  184 bits (469), Expect = 2e-60
 Identities = 72/128 (56%), Positives = 94/128 (73%), Gaps = 1/128 (0%)

Query: 13  DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTA 72
           DYL K++LIGDSGVGKS LL RF+   F     +TIG++F  RTI++DGK IK QIWDTA
Sbjct: 1   DYLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTA 60

Query: 73  GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           GQER+R IT+AYYRGA+G LLVYD+T +S+F N+  W++ +  HA  N+  +LVGNK+D+
Sbjct: 61  GQERYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDL 120

Query: 133 DESKREAP 140
               R  P
Sbjct: 121 -RHLRAVP 127

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

 Score =  179 bits (455), Expect = 2e-58
 Identities = 68/126 (53%), Positives = 98/126 (77%), Gaps = 3/126 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +K+LLIGDSGVGKS LLLRF+D +F     +TIG+DFK++T+ +DGK++KL IWDTAGQE
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQE 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE 134
           RFRT+T++YYRGA G++LVYDVT   +F+N+  W+  ++ ++ + +  K+LVGNK  +D+
Sbjct: 61  RFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNK--IDK 118

Query: 135 SKREAP 140
             RE  
Sbjct: 119 ENREVT 124

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

 Score =  175 bits (446), Expect = 4e-57
 Identities = 68/129 (52%), Positives = 98/129 (75%), Gaps = 1/129 (0%)

Query: 13  DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTA 72
           D+L K++LIGDS VGK+C++ RF  G+F+     TIG+DF ++T+E+ GKR+KLQIWDTA
Sbjct: 1   DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTA 60

Query: 73  GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           GQERFRTIT +YYR A G ++ YD+T  SSF ++ +WI  +E++ + NV  +L+GNK D+
Sbjct: 61  GQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDL 120

Query: 133 DESKREAPF 141
           +E +RE  F
Sbjct: 121 EE-QREVLF 128

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

 Score =  172 bits (437), Expect = 1e-55
 Identities = 71/127 (55%), Positives = 96/127 (75%), Gaps = 1/127 (0%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           Y YL K ++IGD+GVGKSCLLL+F+D  F      TIG++F  R I +DGK+IKLQIWDT
Sbjct: 1   YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDT 60

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           AGQE FR+IT +YYRGA G LLVYD+T   +FN++ +W+ +  QH++ N+  +L+GNK D
Sbjct: 61  AGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCD 120

Query: 132 MDESKRE 138
           + ES+RE
Sbjct: 121 L-ESRRE 126

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

 Score =  171 bits (435), Expect = 2e-55
 Identities = 71/122 (58%), Positives = 100/122 (81%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           + KLL+IG+S VGK+  L R++D SFT++F++T+GIDFK++T+  + KRIKLQIWDTAGQ
Sbjct: 1   MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQ 60

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ER+RTITTAYYRGAMG +L+YD+T+E SFN +++W   I+ ++ DN   ILVGNK DM++
Sbjct: 61  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMED 120

Query: 135 SK 136
            +
Sbjct: 121 ER 122

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

 Score =  168 bits (427), Expect = 3e-54
 Identities = 71/124 (57%), Positives = 100/124 (80%), Gaps = 1/124 (0%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           +LLLIGDSGVGK+CLL RF+D  F +S I+TIG+DFK++TIE+DG ++++QIWDTAGQER
Sbjct: 2   RLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQER 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK 136
           ++TIT  YYR A GI LVYD++ E S+ +I  W+ +++++A + V KIL+GNKAD +E K
Sbjct: 62  YQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKAD-EEQK 120

Query: 137 REAP 140
           R+  
Sbjct: 121 RQVG 124

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

 Score =  168 bits (427), Expect = 3e-54
 Identities = 72/130 (55%), Positives = 98/130 (75%), Gaps = 1/130 (0%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
           DYD+L K++LIG++GVGK+CL+ RF+ G F      TIG+DF I+T+E+ G++IKLQIWD
Sbjct: 3   DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWD 62

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           TAGQERFR+IT +YYR A  ++L YD+T E SF  +  W+R IEQ+A++ V  ILVGNK 
Sbjct: 63  TAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKI 122

Query: 131 DMDESKREAP 140
           D+ E +RE  
Sbjct: 123 DLAE-RREVS 131

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

 Score =  166 bits (423), Expect = 2e-53
 Identities = 67/136 (49%), Positives = 96/136 (70%), Gaps = 11/136 (8%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD----------G 61
           YDYLIKLL +GDSGVGK+  L R++D  F   FITT+GIDF+ + +  +           
Sbjct: 1   YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKA 60

Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDN 120
            R+ LQ+WDTAGQERFR++TTA++R AMG LL++D+T E SF N+RNW+  ++ HA  +N
Sbjct: 61  FRVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCEN 120

Query: 121 VNKILVGNKADMDESK 136
            + +L+GNKAD+ + +
Sbjct: 121 PDIVLIGNKADLPDQR 136

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score =  161 bits (409), Expect = 6e-51
 Identities = 66/127 (51%), Positives = 95/127 (74%)

Query: 7   RARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKL 66
           R   +YDYL K++LIGDSGVGKS +L RF+   F     +TIG++F  RT++++GK +K 
Sbjct: 4   RVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKA 63

Query: 67  QIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV 126
           QIWDTAGQER+R IT+AYYRGA+G LLVYD+T   +F+N++ W+R +  HA  N+  ++ 
Sbjct: 64  QIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMA 123

Query: 127 GNKADMD 133
           GNK+D++
Sbjct: 124 GNKSDLN 130

Length = 216

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

 Score =  160 bits (406), Expect = 2e-50
 Identities = 67/121 (55%), Positives = 89/121 (73%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           Y YL K ++IGD+GVGKSCLLL+F+D  F      TIG++F  R I +D K IKLQIWDT
Sbjct: 3   YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDT 62

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           AGQE FR+IT +YYRGA G LLVYD+T   +FN++ +W+ +  QHA+ N+  +L+GNK D
Sbjct: 63  AGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCD 122

Query: 132 M 132
           +
Sbjct: 123 L 123

Length = 210

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

 Score =  154 bits (390), Expect = 1e-48
 Identities = 64/125 (51%), Positives = 85/125 (68%), Gaps = 1/125 (0%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K L+IG +G GKSCLL +F +  F      TIG++F  R + + GK +KLQIWDTAGQER
Sbjct: 2   KFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQER 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK 136
           FR++T +YYRGA G LLVYD+T   SFN + NW+ +    AS ++  ILVGNK D+++  
Sbjct: 62  FRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLED-D 120

Query: 137 REAPF 141
           RE  F
Sbjct: 121 REVTF 125

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

 Score =  154 bits (391), Expect = 2e-48
 Identities = 69/117 (58%), Positives = 94/117 (80%), Gaps = 1/117 (0%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           K++L+GDSGVGK+CLL+RF DG+F   SFI T+GI F  + + +DG ++KLQIWDTAGQE
Sbjct: 2   KVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQE 61

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           RFR++T AYYR A  +LL+YDVT++SSF+NIR W+  I ++A  +V  +L+GNKADM
Sbjct: 62  RFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADM 118

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

 Score =  152 bits (387), Expect = 2e-47
 Identities = 63/130 (48%), Positives = 91/130 (70%), Gaps = 9/130 (6%)

Query: 14  YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL-DGKRIKLQIWDTA 72
           Y  +L++IGDS VGKS LL RF++G F      T+G+DF  R IE+  G RIKLQ+WDTA
Sbjct: 1   YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTA 60

Query: 73  GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIR----NIEQHASDNVNKILVGN 128
           GQERFR+IT +YYR ++G+LLV+D+T+  SF ++ +W+     +I+ H       ILVG+
Sbjct: 61  GQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHR---PVFILVGH 117

Query: 129 KADMDESKRE 138
           K D++ S+R+
Sbjct: 118 KCDLE-SQRQ 126

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

 Score =  150 bits (381), Expect = 3e-47
 Identities = 61/128 (47%), Positives = 90/128 (70%), Gaps = 1/128 (0%)

Query: 14  YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG 73
           Y+ K ++IGD GVGKSCLL +F++  F      TIG++F  R IE++G++IKLQIWDTAG
Sbjct: 1   YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAG 60

Query: 74  QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD 133
           QERFR +T +YYRGA G L+VYD+T  S++N++ +W+ +     + N    L+GNKAD++
Sbjct: 61  QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE 120

Query: 134 ESKREAPF 141
              R+  +
Sbjct: 121 AQ-RDVTY 127

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

 Score =  149 bits (379), Expect = 7e-47
 Identities = 62/123 (50%), Positives = 88/123 (71%), Gaps = 2/123 (1%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K+++IGDS VGK+CL  RF  G F      TIG+DF+ RT+E+DG+RIK+Q+WDTAGQER
Sbjct: 4   KIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQER 63

Query: 77  FR-TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE 134
           FR ++   YYR    ++ VYDVT+ +SF+++ +WI   EQH+  + V +ILVGNK D+ E
Sbjct: 64  FRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLRE 123

Query: 135 SKR 137
             +
Sbjct: 124 QIQ 126

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

 Score =  149 bits (378), Expect = 1e-46
 Identities = 57/125 (45%), Positives = 84/125 (67%), Gaps = 1/125 (0%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+L+GDS VGKS ++LRF    F+ +  +TIG  F  +T+ LD   +K +IWDTAGQER
Sbjct: 3   KLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQER 62

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK 136
           +R++   YYRGA   ++VYD+T E SF   ++W++ +++H   N+   L GNKAD+ ESK
Sbjct: 63  YRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADL-ESK 121

Query: 137 REAPF 141
           R+   
Sbjct: 122 RQVST 126

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

 Score =  142 bits (359), Expect = 1e-43
 Identities = 65/119 (54%), Positives = 85/119 (71%), Gaps = 1/119 (0%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
            YDYL+K LL+GDS VGK  +L    DGS  + +   +GID+K  TI LDG+R+KLQ+WD
Sbjct: 2   AYDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWD 61

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNK 129
           T+GQ RF TI  +Y RGA GI+LVYD+T+  SF+ I  WI+ I++HA   V KILVGN+
Sbjct: 62  TSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAP-GVPKILVGNR 119

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

 Score =  142 bits (359), Expect = 1e-43
 Identities = 63/123 (51%), Positives = 98/123 (79%), Gaps = 1/123 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++++IG  GVGK+ L+ RF+D +F  +  +T+G+DFKI+T+EL GK+I+LQIWDTAGQE
Sbjct: 1   LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQE 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RF +IT+AYYR A GI+LVYD+T + +F+++  W++ I+++AS++   +LVGNK D  E+
Sbjct: 61  RFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDC-ET 119

Query: 136 KRE 138
            RE
Sbjct: 120 DRE 122

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score =  142 bits (360), Expect = 1e-43
 Identities = 66/127 (51%), Positives = 90/127 (70%), Gaps = 3/127 (2%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           YD   K+LLIGDSGVGKS LL+ F   S       TIG+DFKI+ + + GKR+KL IWDT
Sbjct: 11  YDLSFKILLIGDSGVGKSSLLVSFISSS-VEDLAPTIGVDFKIKQLTVGGKRLKLTIWDT 69

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASD-NVNKILVGNK 129
           AGQERFRT+T++YYR A GI+LVYDVT   +F N+ + W + +E ++++ +  K+LVGNK
Sbjct: 70  AGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNK 129

Query: 130 ADMDESK 136
            D +  +
Sbjct: 130 VDRESER 136

Length = 211

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

 Score =  140 bits (354), Expect = 4e-43
 Identities = 49/121 (40%), Positives = 78/121 (64%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            K++L+G+  VGK+ L+LR+ +  F     +T    F  +T+ + GKRI L IWDTAGQE
Sbjct: 1   FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+  +   YYR A G +LVYD+TD  SF  ++ WI+ ++Q   +N++ ++VGNK D++  
Sbjct: 61  RYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQ 120

Query: 136 K 136
           +
Sbjct: 121 R 121

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

 Score =  136 bits (344), Expect = 1e-41
 Identities = 51/122 (41%), Positives = 81/122 (66%), Gaps = 1/122 (0%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+ +GD  VGK+ ++ RF   +F   +  TIGIDF  +T+ +D K ++LQ+WDTAGQER
Sbjct: 2   KLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQER 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK 136
           FR++  +Y R +   ++VYD+T+  SF+N   WI ++     ++V  +LVGNK D+ + K
Sbjct: 62  FRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSD-K 120

Query: 137 RE 138
           R+
Sbjct: 121 RQ 122

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

 Score =  135 bits (343), Expect = 2e-41
 Identities = 50/124 (40%), Positives = 82/124 (66%), Gaps = 4/124 (3%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K++++GDSGVGK+ L+ ++ +  F+  +  TIG DF  + + +D + + LQIWDTAGQER
Sbjct: 2   KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQER 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKILVGNKADM 132
           F+++  A+YRGA   +LVYDVT+  SF ++ +W       AS    +N   +++GNK D+
Sbjct: 62  FQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKIDL 121

Query: 133 DESK 136
           +E +
Sbjct: 122 EEKR 125

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

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

 Score =  132 bits (333), Expect = 2e-39
 Identities = 54/122 (44%), Positives = 74/122 (60%), Gaps = 1/122 (0%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           +    K++++GD GVGK+ LL R     F   +  TIG     +TIE   + IKLQ+WDT
Sbjct: 2   FMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDT 61

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTD-ESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           AGQE +R++   YYRGA GIL+VYD T  ESS      W+  + + A D+V  +LVGNK 
Sbjct: 62  AGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKI 121

Query: 131 DM 132
           D+
Sbjct: 122 DL 123

Length = 219

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

 Score =  121 bits (305), Expect = 2e-35
 Identities = 47/123 (38%), Positives = 78/123 (63%), Gaps = 5/123 (4%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRI-KLQIWDTAGQE 75
           K+L+IGD GVGK+ ++ R+  G F+  +  TIG+DF ++ IE D   + +LQ+WD AGQE
Sbjct: 2   KVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQE 61

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNK----ILVGNKAD 131
           RF  +T  YY+GA+G ++V+DVT  S+F  +  W  +++   +    +    +L+ NK D
Sbjct: 62  RFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKCD 121

Query: 132 MDE 134
           + +
Sbjct: 122 LKK 124

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

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

 Score =  119 bits (299), Expect = 9e-35
 Identities = 53/124 (42%), Positives = 77/124 (62%), Gaps = 4/124 (3%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           L+K++L+GD GVGKS L+ R+    F T    TIG++F  + +E+DG  + LQIWDTAGQ
Sbjct: 5   LLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQ 64

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNK---ILVGNKA 130
           ERFR++ T +YRG+   LL + V D  SF N+ NW +    +A          +++GNK 
Sbjct: 65  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 124

Query: 131 DMDE 134
           D+ E
Sbjct: 125 DIPE 128

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

 Score =  114 bits (288), Expect = 4e-33
 Identities = 40/127 (31%), Positives = 76/127 (59%), Gaps = 6/127 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK++ +G+SGVGKSC++ R+ +G F + ++ TIGID+ ++ + +  K +++  +D +G  
Sbjct: 1   IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHP 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQH-----ASDNVNKILVGNKA 130
            +  +   +Y+   G+LLVYDVTD  SF  + +W++ ++Q        +N+  ++  NK 
Sbjct: 61  EYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKI 120

Query: 131 DMDESKR 137
           D     R
Sbjct: 121 D-LTKHR 126

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 168

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

 Score =  113 bits (284), Expect = 1e-32
 Identities = 48/125 (38%), Positives = 66/125 (52%), Gaps = 3/125 (2%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L +RF  G F   +  TI  D   + I +DG+   L I DTAGQE 
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDILDTAGQEE 59

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNKADMDES 135
           F  +   Y R   G +LVY +T   SF  I+N    I      ++V  +LVGNK D++  
Sbjct: 60  FSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENE 119

Query: 136 KREAP 140
            R+  
Sbjct: 120 -RQVS 123

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

 Score =  112 bits (283), Expect = 2e-32
 Identities = 50/119 (42%), Positives = 71/119 (59%), Gaps = 3/119 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD--GKRIKLQIWDTAG 73
           IK++++G+  VGKS ++ RF  G FT  +  TIG+DF  + I L    + ++L +WDTAG
Sbjct: 1   IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAG 60

Query: 74  QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           QE F  IT AYYRGA   +LV+  TD  SF  I +W   +E    D +  +LV  K D+
Sbjct: 61  QEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGD-IPMVLVQTKIDL 118

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

 Score =  110 bits (278), Expect = 2e-31
 Identities = 43/118 (36%), Positives = 67/118 (56%), Gaps = 3/118 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK++++GD  VGK+CLL+ ++   F T ++ T+  D     + +DGK++ L +WDTAGQE
Sbjct: 1   IKIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV-FDNYSANVTVDGKQVNLGLWDTAGQE 59

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      LL + V   SSF N++  W   I+ +   NV  ILVG K D+
Sbjct: 60  EYDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYCP-NVPIILVGTKIDL 116

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

 Score =  110 bits (276), Expect = 2e-31
 Identities = 49/117 (41%), Positives = 78/117 (66%), Gaps = 1/117 (0%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K++++GD  VGK+CL+ RF    F  ++  TIG+DF++   E+ G    LQ+WDTAGQER
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQER 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRN-IEQHASDNVNKILVGNKADM 132
           F+ I + YYRGA  I++V+D+TD +S  + R W+ + ++++   +V   LVG K D+
Sbjct: 62  FKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDL 118

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

 Score =  102 bits (257), Expect = 2e-28
 Identities = 41/129 (31%), Positives = 68/129 (52%), Gaps = 7/129 (5%)

Query: 18  LLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF 77
           L+++GD  VGK+CLL+ ++  +F   ++ T+  +     +E+DGK ++L +WDTAGQE +
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTV-FENYSADVEVDGKPVELGLWDTAGQEDY 59

Query: 78  RTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADMDESK 136
             +    Y      L+ + V   +SF N++  W   ++     NV  ILVG K D+    
Sbjct: 60  DRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCP-NVPIILVGTKLDL---- 114

Query: 137 REAPFCLHE 145
           R     L E
Sbjct: 115 RNDKSTLEE 123

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

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

 Score =  101 bits (254), Expect = 1e-27
 Identities = 44/125 (35%), Positives = 72/125 (57%), Gaps = 4/125 (3%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGK-RIKLQIWDTAGQ 74
           IK++++GD   GK+ L+ RF+   F  S+  TIG+DF  R I L G   + LQ+WD  GQ
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNW---IRNIEQHASDNVNKILVGNKAD 131
           +    +   Y  GA  + LVYD+T+  SF N+ +W   ++ + + +      +LVGNK D
Sbjct: 61  QIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTD 120

Query: 132 MDESK 136
           ++ ++
Sbjct: 121 LEHNR 125

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

 Score = 96.9 bits (242), Expect = 3e-26
 Identities = 52/123 (42%), Positives = 70/123 (56%), Gaps = 3/123 (2%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++F  G F   +  TI  D   + IE+DG+   L I DTAGQE 
Sbjct: 2   KLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEE 60

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDES 135
           F  +   Y R   G LLVY +TD  SF  I+ +   I +    D+V  +LVGNK D+ ES
Sbjct: 61  FSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDL-ES 119

Query: 136 KRE 138
           +R 
Sbjct: 120 ERV 122

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

 Score = 96.5 bits (241), Expect = 5e-26
 Identities = 51/123 (41%), Positives = 68/123 (55%), Gaps = 3/123 (2%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++F  G F   +  TI  D   + IE+DG+   L I DTAGQE 
Sbjct: 4   KLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEE 62

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNKADMDES 135
           F  +   Y R   G LLVY +TD  SF  I  +   I      D+V  +LVGNK D+ E+
Sbjct: 63  FSAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDDVPIVLVGNKCDL-EN 121

Query: 136 KRE 138
           +R 
Sbjct: 122 ERV 124

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

 Score = 96.3 bits (240), Expect = 1e-25
 Identities = 41/126 (32%), Positives = 73/126 (57%), Gaps = 4/126 (3%)

Query: 13  DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL-DGKRIKLQIWDT 71
           D  +K++++GD G GK+CLL+ ++ GSF   ++ T+  +  + T+++ +GK I+L +WDT
Sbjct: 1   DLKVKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTV-FENYVTTLQVPNGKIIELALWDT 59

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKA 130
           AGQE +  +    Y     IL+ Y V + +S +N+ + W   +  H       +LVG K 
Sbjct: 60  AGQEDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEV-NHFCPGTPIVLVGLKT 118

Query: 131 DMDESK 136
           D+ + K
Sbjct: 119 DLRKDK 124

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|206708 cd04136, Rap_like, Rap-like family consists of Rap1, Rap2 and RSR1

 Score = 93.4 bits (232), Expect = 8e-25
 Identities = 47/125 (37%), Positives = 72/125 (57%), Gaps = 7/125 (5%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++F  G F   +  TI  D   + IE+D ++  L+I DTAG E+
Sbjct: 3   KLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIE-DSYRKQIEVDCQQCMLEILDTAGTEQ 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI---RNWIRNIEQHASDNVNKILVGNKADMD 133
           F  +   Y +   G  LVY +T + SFN++   R  I  ++   +++V  ILVGNK D+ 
Sbjct: 62  FTAMRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKD--TEDVPMILVGNKCDL- 118

Query: 134 ESKRE 138
           E +R 
Sbjct: 119 EDERV 123

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

 Score = 94.4 bits (235), Expect = 1e-24
 Identities = 41/121 (33%), Positives = 68/121 (56%), Gaps = 1/121 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD GVGK+  + R   G F   +I T+G++        +   I   +WDTAGQE
Sbjct: 10  FKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQE 69

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY      ++++DVT   ++ N+ NW R+I +   +N+  +LVGNK D+ + 
Sbjct: 70  KFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVR-VCENIPIVLVGNKVDVKDR 128

Query: 136 K 136
           +
Sbjct: 129 Q 129

Length = 215

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

 Score = 93.4 bits (232), Expect = 1e-24
 Identities = 47/134 (35%), Positives = 75/134 (55%), Gaps = 13/134 (9%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           +K++++G   VGK+ L+ R+    F    +  TIG  F  + + +  + + L IWDTAG 
Sbjct: 1   VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGS 60

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI---RNIEQHASDNVNKI-LVGNKA 130
           ER+  ++  YYRGA   ++ YD+TD SSF   + W+   +N+E+H      KI L G K+
Sbjct: 61  ERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHC-----KIYLCGTKS 115

Query: 131 DM---DESKREAPF 141
           D+   D S R+  F
Sbjct: 116 DLIEQDRSLRQVDF 129

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

 Score = 92.7 bits (231), Expect = 1e-24
 Identities = 38/124 (30%), Positives = 68/124 (54%), Gaps = 1/124 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R   G F   ++ T+G++        +  +I+  +WDTAGQE
Sbjct: 1   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQE 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY      ++++DVT   ++ N+ NW R++     +N+  +L GNK D+ + 
Sbjct: 61  KFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLCGNKVDIKDR 119

Query: 136 KREA 139
           K + 
Sbjct: 120 KVKP 123

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

 Score = 91.8 bits (228), Expect = 2e-24
 Identities = 44/126 (34%), Positives = 72/126 (57%), Gaps = 1/126 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +K++L+GDS VGKS L+ RF    +    ++T  +       + +GK I +  WDTAGQE
Sbjct: 1   VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQE 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RF+T+  +YY  A   +LV+DVT + ++ N+  W   + ++    +  I+V NK D+D S
Sbjct: 61  RFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREY-RPEIPCIVVANKIDLDPS 119

Query: 136 KREAPF 141
             +  F
Sbjct: 120 VTQKKF 125

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

 Score = 91.7 bits (228), Expect = 4e-24
 Identities = 42/119 (35%), Positives = 55/119 (46%), Gaps = 3/119 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGS-FTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           IK++++GD  VGKS LL R        T +      ++    IE DGK  K  + DTAGQ
Sbjct: 2   IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ 61

Query: 75  ERFRTITTAYYRGAMGILLVYDVT--DESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           E +  I   YYR     L V+D+          +    + I  HA   V  ILVGNK D
Sbjct: 62  EDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKID 120

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|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score = 91.0 bits (225), Expect = 1e-23
 Identities = 41/99 (41%), Positives = 65/99 (65%)

Query: 39  SFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVT 98
           +F  ++ +TIGIDF  +T+ LD   ++LQ+WDTAGQERFR++  +Y R +   ++VYD+T
Sbjct: 4   TFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDIT 63

Query: 99  DESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR 137
           +  SF N   WI++I      +V   LVGNK D+ + ++
Sbjct: 64  NRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRK 102

Length = 176

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

 Score = 89.4 bits (222), Expect = 2e-23
 Identities = 48/118 (40%), Positives = 65/118 (55%), Gaps = 2/118 (1%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++F    F T +  TI  D   +  E+DG+  +L I DTAGQE 
Sbjct: 4   KLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCEIDGQWARLDILDTAGQEE 62

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMD 133
           F  +   Y R   G LLV+ VTD  SF  +  +   I +    D    ILVGNKAD++
Sbjct: 63  FSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLE 120

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

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

 Score = 88.4 bits (219), Expect = 6e-23
 Identities = 45/123 (36%), Positives = 72/123 (58%), Gaps = 3/123 (2%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K++++G  GVGKS L ++F  G+F   +  TI  DF  + IE+D     L+I DTAG E+
Sbjct: 3   KVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQ 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDES 135
           F ++   Y +   G ++VY + ++ +F +I+     I +    + V  ILVGNK D+ ES
Sbjct: 62  FASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDL-ES 120

Query: 136 KRE 138
           +RE
Sbjct: 121 ERE 123

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

>gnl|CDD|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score = 88.6 bits (220), Expect = 9e-23
 Identities = 39/116 (33%), Positives = 67/116 (57%), Gaps = 1/116 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +K+ L+GD+ +GK+ L++++ +G F   +I T+G++F  +TI + G  I   IWD  GQ 
Sbjct: 1   LKIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQR 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
            F  +     + A+ IL ++D+T +S+ N+I+ W R      +     ILVG K D
Sbjct: 61  EFINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQARGF-NKTAIPILVGTKYD 115

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

 Score = 87.5 bits (217), Expect = 1e-22
 Identities = 41/129 (31%), Positives = 57/129 (44%), Gaps = 12/129 (9%)

Query: 19  LLIGDSGVGKSCLLLRFSDGSFT---TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++G  GVGKS LL     G          TT   D      ELD  ++KL + DT G +
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVY--VKELDKGKVKLVLVDTPGLD 58

Query: 76  RF-----RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
            F       +     RGA  ILLV D TD  S  + +  I  + +   + +  ILVGNK 
Sbjct: 59  EFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLI--LRRLRKEGIPIILVGNKI 116

Query: 131 DMDESKREA 139
           D+ E +   
Sbjct: 117 DLLEEREVE 125

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

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

 Score = 87.9 bits (218), Expect = 1e-22
 Identities = 47/126 (37%), Positives = 71/126 (56%), Gaps = 6/126 (4%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+ FS   F   ++ T+  ++ +  IE+DGK+++L +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   ++ H   NV  ILVGNK D+  D
Sbjct: 62  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 120

Query: 134 ES-KRE 138
           E   RE
Sbjct: 121 EHTIRE 126

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

 Score = 87.1 bits (216), Expect = 2e-22
 Identities = 45/124 (36%), Positives = 70/124 (56%), Gaps = 2/124 (1%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K++++G  GVGKS L L+F    F   +  T   D   + + LDG+ ++L I DTAGQE 
Sbjct: 2   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQLNILDTAGQED 60

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDES 135
           +  I   Y+R   G LLV+ +TD  SF  +  +   I +    DNV  +LVGNK D+++ 
Sbjct: 61  YAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLEDK 120

Query: 136 KREA 139
           ++ +
Sbjct: 121 RQVS 124

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (>80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exocyst and for localizing the exocyst to the leading edge of migrating cells. In human cancer cells, RalA is required to support anchorage-independent proliferation and RalB is required to suppress apoptosis. RalA has been shown to localize to the plasma membrane while RalB is localized to the intracellular vesicles. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

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

 Score = 87.5 bits (217), Expect = 2e-22
 Identities = 48/119 (40%), Positives = 72/119 (60%), Gaps = 6/119 (5%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K++++G  GVGKS L ++F    F  S+  TI   ++ + +E+DG++  L+I DTAG E+
Sbjct: 3   KIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYR-KQVEIDGRQCDLEILDTAGTEQ 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNN---IRNWIRNIEQHASDNVNKILVGNKADM 132
           F  +   Y +   G LLVY VT E+S N    +R  +  I+   SDNV  +LVGNKAD+
Sbjct: 62  FTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKD--SDNVPMVLVGNKADL 118

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|219856 pfam08477, Miro, Miro-like protein

 Score = 85.2 bits (211), Expect = 3e-22
 Identities = 42/116 (36%), Positives = 60/116 (51%), Gaps = 4/116 (3%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K+++IGD G GKS LL +   G F    +   G    + T+E+DG    L IWD  G+E 
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFN---NIRNWIRNIEQHASDNVNKILVGNK 129
            +     + + A  ILLVYD+TD  S N    +  W+ N+ +     +  ILVGNK
Sbjct: 61  LKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRKLGG-KIPVILVGNK 115

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

>gnl|CDD|206713 cd04146, RERG_RasL11_like, Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families

 Score = 85.4 bits (212), Expect = 1e-21
 Identities = 44/129 (34%), Positives = 69/129 (53%), Gaps = 13/129 (10%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFI----TTIGIDFKIRTIELDGKRIKLQIWDTA 72
           K+ ++G SGVGKS L +RF     T  FI      +   +  R + +DG+++ L+I DT 
Sbjct: 1   KIAVLGASGVGKSALTVRF----LTKRFIGEYEPNLESLYS-RQVTIDGEQVSLEIQDTP 55

Query: 73  GQERFRT--ITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD--NVNKILVGN 128
           GQ++           R A G +LVY +TD SSF+ +   ++ I +       +  ILVGN
Sbjct: 56  GQQQNEDPESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPVILVGN 115

Query: 129 KADMDESKR 137
           KAD+  S++
Sbjct: 116 KADLLHSRQ 124

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 tumor suppressor activity. Length = 166

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

 Score = 85.2 bits (211), Expect = 4e-21
 Identities = 40/139 (28%), Positives = 71/139 (51%), Gaps = 3/139 (2%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MA P  +      +  KL+++GD G GK+  + R   G F   +  TIG++        +
Sbjct: 1   MALPNQQTVDYPSF--KLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTN 58

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
             +I+   WDTAGQE+F  +   YY      ++++DVT   ++ N+  W R++ +   +N
Sbjct: 59  CGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCR-VCEN 117

Query: 121 VNKILVGNKADMDESKREA 139
           +  +L GNK D+   + +A
Sbjct: 118 IPIVLCGNKVDVKNRQVKA 136

Length = 219

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

 Score = 83.3 bits (206), Expect = 6e-21
 Identities = 45/127 (35%), Positives = 71/127 (55%), Gaps = 6/127 (4%)

Query: 17  KLLLIGDSGVGKSCLLLRF-SDGS-FTTSFITTIGIDFKIRTIEL--DGKRIKLQIWDTA 72
           +  ++GD  VGKS L+  F SDG+ F  ++  T G D  ++T+ +      ++L I+D+A
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 73  GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD-NVNKILVGNKAD 131
           GQE F  +    +     + +VYDVT+E SFNN   WI  +  H+   +   +LVGNK D
Sbjct: 62  GQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHSHGLHTPGVLVGNKCD 121

Query: 132 MDESKRE 138
           +   +RE
Sbjct: 122 L-TDRRE 127

RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown. Length = 167

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

 Score = 82.6 bits (204), Expect = 1e-20
 Identities = 44/123 (35%), Positives = 76/123 (61%), Gaps = 6/123 (4%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++F  G F   +  TI   ++ + +E+DG++  L+I DTAG E+
Sbjct: 3   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDGQQCMLEILDTAGTEQ 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNN---IRNWIRNIEQHASDNVNKILVGNKADMD 133
           F  +   Y +   G +LVY +T +S+FN+   +R  I  ++   +++V  ILVGNK D++
Sbjct: 62  FTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKD--TEDVPMILVGNKCDLE 119

Query: 134 ESK 136
           + +
Sbjct: 120 DER 122

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

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

 Score = 81.7 bits (202), Expect = 3e-20
 Identities = 41/121 (33%), Positives = 67/121 (55%), Gaps = 3/121 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +K +L+GD  VGK+ L++ ++   + T ++ T   +F +  + +DGK ++LQ+ DTAGQ+
Sbjct: 1   LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVV-VLVDGKPVRLQLCDTAGQD 59

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADMDE 134
            F  +    Y      LL + V + SSF NI   WI  I +H +     ILVG +AD+  
Sbjct: 60  EFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKH-NPKAPIILVGTQADLRT 118

Query: 135 S 135
            
Sbjct: 119 D 119

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

>gnl|CDD|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 = 80.6 bits (199), Expect = 8e-20
 Identities = 41/122 (33%), Positives = 65/122 (53%), Gaps = 3/122 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+ ++  +F   +I T+  D     + +DGK + L +WDTAGQE
Sbjct: 2   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 61  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 119

Query: 135 SK 136
            K
Sbjct: 120 DK 121

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

 Score = 79.0 bits (195), Expect = 2e-19
 Identities = 41/117 (35%), Positives = 62/117 (52%), Gaps = 2/117 (1%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++     F   +  TI  D   + + +DG+   L I DTAGQE 
Sbjct: 3   KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEE 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADM 132
           +  +   Y R   G L V+ +    SF +I  +   I++   SD+V  +LVGNK D+
Sbjct: 62  YSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDL 118

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

 Score = 79.1 bits (195), Expect = 3e-19
 Identities = 41/122 (33%), Positives = 72/122 (59%), Gaps = 3/122 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK + +GD  VGK+C+L+ ++  +F T ++ T+  +F    + +DG  + L +WDTAGQE
Sbjct: 2   IKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVV-VDGNTVNLGLWDTAGQE 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    YRGA   LL + +  ++S+ N+ + WI  + +H +  V  +LVG K D+ +
Sbjct: 61  DYNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPEL-RHYAPGVPIVLVGTKLDLRD 119

Query: 135 SK 136
            K
Sbjct: 120 DK 121

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example, Rop1, Rop3, and Rop5 are all involved in pollen-tube growth; Rop2 plays a role in response to low-oxygen environments, cell-morphology, and root-hair development; root-hair development is also regulated by Rop4 and Rop6; Rop6 is also responsible for ABA response, and ABA response is also regulated by Rop10. Plants retain some of the regulatory mechanisms that are shared by other members of the Rho family, but have also developed a number of unique modes for regulating Rops. Unique RhoGEFs have been identified that are exclusively active toward Rop proteins, such as those containing the domain PRONE (plant-specific Rop nucleotide exchanger). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

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

 Score = 79.7 bits (196), Expect = 3e-19
 Identities = 36/119 (30%), Positives = 65/119 (54%), Gaps = 1/119 (0%)

Query: 21  IGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI 80
           +GD G GK+  + R   G F   ++ T+G++        +   I+  +WDTAGQE+F  +
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 81  TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREA 139
              YY      ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + K +A
Sbjct: 61  RDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDVKDRKVKA 118

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

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

 Score = 78.9 bits (194), Expect = 7e-19
 Identities = 47/151 (31%), Positives = 80/151 (52%), Gaps = 12/151 (7%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+ ++  +F   +I T+  ++  +T  +DG+ + L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTA-VDGRTVSLNLWDTAGQE 62

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM-- 132
            +  + T  Y      ++ + +   SS+ N+R+ W   +  H   NV  +LVG K D+  
Sbjct: 63  EYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCP-NVPILLVGTKKDLRN 121

Query: 133 --DESKR-----EAPFCLHETILLTVQVHLV 156
             D  K+     +AP    +   L  Q+H V
Sbjct: 122 DADTLKKLKEQGQAPITPQQGGALAKQIHAV 152

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|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score = 78.0 bits (192), Expect = 1e-18
 Identities = 46/123 (37%), Positives = 66/123 (53%), Gaps = 3/123 (2%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++F    F   +  TI   ++ +   +D +   L I DTAGQE 
Sbjct: 7   KLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYR-KQCVIDEETCLLDILDTAGQEE 65

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDES 135
           +  +   Y R   G L VY +T  SSF  I ++   I +    D V  ILVGNK D+D S
Sbjct: 66  YSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLD-S 124

Query: 136 KRE 138
           +R+
Sbjct: 125 ERQ 127

Length = 189

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

 Score = 76.9 bits (190), Expect = 2e-18
 Identities = 41/119 (34%), Positives = 65/119 (54%), Gaps = 4/119 (3%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K+ ++G   VGKS L ++F +G F  S+  TI   F  + I   G+   L+I DTAGQ+ 
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIITYKGQEYHLEIVDTAGQDE 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRN--IEQHASDNVNKILVGNKADMD 133
           +  +   Y  G  G +LVY VT   SF  ++  I +  ++    ++V  +LVGNK+D+ 
Sbjct: 62  YSILPQKYSIGIHGYILVYSVTSRKSFEVVKV-IYDKILDMLGKESVPIVLVGNKSDLH 119

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|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 78.0 bits (192), Expect = 2e-18
 Identities = 39/124 (31%), Positives = 69/124 (55%), Gaps = 5/124 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +K++L+GD  VGK+ LL R+ +  F  + ++T+G  F ++          + IWDTAG+E
Sbjct: 1   LKVVLLGDMNVGKTSLLHRYMERRFKDT-VSTVGGAFYLK----QWGPYNISIWDTAGRE 55

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  + + Y RGA  ++L YDV++  S   + +    +   A+++    +VGNK D+ E 
Sbjct: 56  QFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEE 115

Query: 136 KREA 139
              A
Sbjct: 116 GALA 119

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 220

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

 Score = 75.6 bits (186), Expect = 1e-17
 Identities = 40/119 (33%), Positives = 64/119 (53%), Gaps = 3/119 (2%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+ LL  F+ G F   +  T+  +  +    +DGK ++L +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTSLLYVFTLGEFPEEYHPTV-FENYVTDCRVDGKPVQLALWDTAGQEE 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
           +  +    Y  A  IL+ + +    S  N+R  WI  + ++   NV  ILVG K D+ +
Sbjct: 62  YERLRPLSYSKAHVILIGFAIDTPDSLENVRTKWIEEVRRYCP-NVPVILVGLKKDLRQ 119

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors). Length = 190

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

 Score = 74.7 bits (184), Expect = 1e-17
 Identities = 33/117 (28%), Positives = 53/117 (45%), Gaps = 2/117 (1%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDF-KIRTIELDGKRIKLQIWDTAGQ 74
            KL+L+G  GVGK+ L  +     F     +T GI+    +    + K+I+L +WD  GQ
Sbjct: 2   AKLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQ 61

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           E +      +       LLV+D+      + +  W+R I+     +   ILVG   D
Sbjct: 62  EIYHATHQFFLTSRSLYLLVFDLRTGDEVSRVPYWLRQIKAFGGVSP-VILVGTHID 117

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|133344 cd04144, Ras2, Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases)

 Score = 75.3 bits (185), Expect = 1e-17
 Identities = 36/119 (30%), Positives = 68/119 (57%), Gaps = 4/119 (3%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD GVGK+ L ++     F  ++  TI   ++ + + +DG+   L++ DTAGQE 
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVV-VDGQPCMLEVLDTAGQEE 59

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNW---IRNIEQHASDNVNKILVGNKADM 132
           +  +   + R   G +LVY +T  S+F  +  +   I+ ++  ++ +V  ++VGNK D 
Sbjct: 60  YTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDK 118

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. Length = 190

>gnl|CDD|206712 cd04141, Rit_Rin_Ric, Ras-like protein in all tissues (Rit), Ras-like protein in neurons (Rin) and Ras-related protein which interacts with calmodulin (Ric)

 Score = 74.5 bits (183), Expect = 2e-17
 Identities = 38/122 (31%), Positives = 64/122 (52%), Gaps = 2/122 (1%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K++++G  GVGKS + ++F   SF      TI   +K +   +D +   L I DTAGQ  
Sbjct: 4   KIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKTQ-ARIDNEPALLDILDTAGQAE 62

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDES 135
           F  +   Y R   G ++ Y VTD  SF     +   I +   ++++  +LVGNK D+++ 
Sbjct: 63  FTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKELITRVRLTEDIPLVLVGNKVDLEQQ 122

Query: 136 KR 137
           ++
Sbjct: 123 RQ 124

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 signal in parallel with the Ras pathway or stimulate the Ras pathway at some upstream point, and binding of calmodulin to Ric may negatively regulate Ric activity. Length = 172

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

 Score = 73.6 bits (181), Expect = 1e-16
 Identities = 41/119 (34%), Positives = 65/119 (54%), Gaps = 5/119 (4%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           +++L+GDSGVGKS L   F+ G +  S     G D   RT+ +DG+   L ++D   QE 
Sbjct: 2   RVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQED 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSF---NNIRNWIRNIEQHASDNVNKILVGNKADM 132
              +  +  +     ++VY VTD SSF   + +R  +R   Q   +++  ILVGNK+D+
Sbjct: 62  GMWLEDSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRRARQA--EDIPIILVGNKSDL 118

RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ras superfamily members. The N-terminal extension is not conserved among family members; the C-terminal extension is reported to be conserved among the family and lack the CaaX prenylation motif typical of membrane-associated Ras proteins. However, a putative CaaX motif has been identified in the alignment of the C-terminal residues of this CD. Length = 219

>gnl|CDD|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 69.7 bits (170), Expect = 1e-15
 Identities = 39/148 (26%), Positives = 81/148 (54%), Gaps = 12/148 (8%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +K +++GD  VGK+CLL+ +++ +F   ++ T+  D    ++ + GK+  L ++DTAGQE
Sbjct: 1   LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQE 59

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADM-D 133
            +  +    Y      L+ + V + +SF N++  W+  ++++A  NV  +L+G + D+ D
Sbjct: 60  DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP-NVPYLLIGTQIDLRD 118

Query: 134 ESK--------REAPFCLHETILLTVQV 153
           + K        +E P  + +   L  ++
Sbjct: 119 DPKTLARLNDMKEKPITVEQGQKLAKEI 146

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

 Score = 68.0 bits (166), Expect = 8e-15
 Identities = 40/123 (32%), Positives = 65/123 (52%), Gaps = 3/123 (2%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K++++GD   GK+ LL  F+ G F   +  T+  ++ I  I +DG  ++L +WDTAGQE 
Sbjct: 2   KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENY-IHDIFVDGLAVELSLWDTAGQEE 60

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADMDES 135
           F  + +  Y     I+L + V +  S  N+ + W+  I  H    V  +LV  K D+ E 
Sbjct: 61  FDRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIRHHC-PGVKLVLVALKCDLREP 119

Query: 136 KRE 138
           + E
Sbjct: 120 RNE 122

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 185

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

 Score = 66.8 bits (163), Expect = 1e-14
 Identities = 43/129 (33%), Positives = 64/129 (49%), Gaps = 7/129 (5%)

Query: 13  DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTA 72
           DY  ++++ G  GVGKS L+LRF  G+F  S+I TI   ++ + I        LQI DT 
Sbjct: 1   DY--RVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYR-QVISCSKSICTLQITDTT 57

Query: 73  GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI---LVGNK 129
           G  +F  +           +LVY +T + S   ++     I +   +N+ KI   LVGNK
Sbjct: 58  GSHQFPAMQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNK 117

Query: 130 ADMDESKRE 138
            D +   RE
Sbjct: 118 CD-ESPSRE 125

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

 Score = 66.7 bits (163), Expect = 2e-14
 Identities = 32/118 (27%), Positives = 67/118 (56%), Gaps = 3/118 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            K++L+GDS  GK+ LL  F+  SF  +++ T+  ++   + E+D +RI+L +WDT+G  
Sbjct: 2   CKIVLVGDSQCGKTALLQVFAKDSFPENYVPTVFENYTA-SFEVDKQRIELSLWDTSGSP 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y  +  +L+ +D++   + +++ + W   + +    N   +LVG K+D+
Sbjct: 61  YYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREFCP-NTPVLLVGCKSDL 117

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

 Score = 65.3 bits (159), Expect = 6e-14
 Identities = 35/118 (29%), Positives = 64/118 (54%), Gaps = 3/118 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+ ++   F + ++ T+  ++ + T+ + G+   L ++DTAGQE
Sbjct: 2   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 61  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 117

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addition, Cdc42 has been implicated in a number of human diseases through interactions with its regulators and downstream effectors. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases

 Score = 63.7 bits (156), Expect = 2e-13
 Identities = 34/124 (27%), Positives = 60/124 (48%), Gaps = 6/124 (4%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           ++L++G  G GK+ +L +   G   T+ I TIG  F + T+E   K +K  +WD  GQ++
Sbjct: 1   RILMLGLDGAGKTTILYKLKLGEVVTT-IPTIG--FNVETVEY--KNVKFTVWDVGGQDK 55

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDES 135
            R +   YY    G++ V D +D       +N +  +          +L+  NK D+  +
Sbjct: 56  IRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEELKGAPLLILANKQDLPGA 115

Query: 136 KREA 139
             E+
Sbjct: 116 LTES 119

Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. 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. Thus, despite their significant sequence homologies, Arf family proteins may regulate unrelated functions. Length = 158

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

 Score = 64.3 bits (156), Expect = 2e-13
 Identities = 31/117 (26%), Positives = 67/117 (57%), Gaps = 3/117 (2%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K++++GDS  GK+ LL  F+   F  +++ T+  ++   + E+D +RI+L +WDT+G   
Sbjct: 7   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLWDTSGSPY 65

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM 132
           +  +    Y  +  +L+ +D++   + +++ + W   I++    N   +LVG K+D+
Sbjct: 66  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDL 121

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

>gnl|CDD|128474 smart00177, ARF, ARF-like small GTPases; ARF, ADP-ribosylation factor

 Score = 60.3 bits (146), Expect = 4e-12
 Identities = 32/125 (25%), Positives = 60/125 (48%), Gaps = 6/125 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +   G   T+ I TIG  F + T+    K I   +WD  GQ+
Sbjct: 14  MRILMVGLDAAGKTTILYKLKLGESVTT-IPTIG--FNVETVTY--KNISFTVWDVGGQD 68

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADMDE 134
           + R +   YY    G++ V D  D    +  R  + R + +    +   ++  NK D+ +
Sbjct: 69  KIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPD 128

Query: 135 SKREA 139
           + + A
Sbjct: 129 AMKAA 133

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). Length = 175

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

 Score = 59.3 bits (144), Expect = 1e-11
 Identities = 46/139 (33%), Positives = 65/139 (46%), Gaps = 16/139 (11%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSF-----ITTIGIDFKIRTIELDGKRIKLQIWD 70
           ++++LIGD GVGKS L++      F  +        TI  D    T E    R+   I D
Sbjct: 3   VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPEITIPADV---TPE----RVPTTIVD 55

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNK 129
           T+ + + R    A  R A  I LVY V   S+   IR  W+  I +     V  ILVGNK
Sbjct: 56  TSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNK 114

Query: 130 ADMDESKREAPFCLHETIL 148
           +D+ +   +A   L E +L
Sbjct: 115 SDLRDGSSQAG--LEEEML 131

Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature. Length = 168

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

 Score = 57.3 bits (138), Expect = 1e-10
 Identities = 30/116 (25%), Positives = 63/116 (54%), Gaps = 1/116 (0%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K++++GD+  GK+ LL  F+  ++  S++ T+  ++   + E+D  RI+L +WDT+G   
Sbjct: 3   KIVVVGDTQCGKTALLHVFAKDNYPESYVPTVFENYTA-SFEIDKHRIELNMWDTSGSSY 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           +  +    Y  +  +L+ +D++   + +++    +   Q    N   +LVG K DM
Sbjct: 62  YDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKLVLVGCKLDM 117

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|133356 cd04156, ARLTS1, Arf-like tumor suppressor gene 1 (ARLTS1 or Arl11)

 Score = 56.3 bits (136), Expect = 1e-10
 Identities = 34/117 (29%), Positives = 62/117 (52%), Gaps = 5/117 (4%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           ++LL+G    GKS LL +       T+ I T+G  F +  ++L+   + L +WD  GQE+
Sbjct: 1   QVLLLGLDSAGKSTLLYKLKHAELVTT-IPTVG--FNVEMLQLEKH-LSLTVWDVGGQEK 56

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADM 132
            RT+   Y     G++ V D +DE+  +  +  +++I ++     V  +L+ NK D+
Sbjct: 57  MRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDL 113

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 high-risk familial breast cancer. Length = 160

>gnl|CDD|133353 cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8) GTPases

 Score = 56.6 bits (137), Expect = 1e-10
 Identities = 34/121 (28%), Positives = 55/121 (45%), Gaps = 8/121 (6%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGS-FTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           K++++G    GK+ +L +F  G    TS   TIG + +    E+  K I+  +WD  GQE
Sbjct: 17  KVIIVGLDNAGKTTILYQFLLGEVVHTS--PTIGSNVE----EIVYKNIRFLMWDIGGQE 70

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDE 134
             R+    YY     ++LV D TD       +  +  +  H       +LV  NK D+  
Sbjct: 71  SLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG 130

Query: 135 S 135
           +
Sbjct: 131 A 131

Arl5/Arl8 subfamily. 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. Length = 174

>gnl|CDD|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 57.6 bits (139), Expect = 2e-10
 Identities = 35/142 (24%), Positives = 69/142 (48%), Gaps = 25/142 (17%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIR------------TIELDGKR 63
           +++L++GDSGVGKS L+     GS       TIG    ++            +I+ D +R
Sbjct: 22  VRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSER 81

Query: 64  -IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN-- 120
              +++WD +G ER++   + +Y    G++ V+D++   +  +++ W   +    + +  
Sbjct: 82  DFFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAP 141

Query: 121 ----------VNKILVGNKADM 132
                     V  I++GNKAD+
Sbjct: 142 LGSGGPGGLPVPYIVIGNKADI 163

Length = 334

>gnl|CDD|206689 cd04102, RabL3, Rab GTPase-like family 3 (Rab-like3)

 Score = 56.4 bits (136), Expect = 2e-10
 Identities = 38/151 (25%), Positives = 64/151 (42%), Gaps = 29/151 (19%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL-----DGKRIKLQIWD 70
           +K+L++GDSGVGKS L+          +   T+G    +R         + K   +++WD
Sbjct: 1   VKVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYGEGTPEEKTFYVELWD 60

Query: 71  TAGQ----ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI------------- 113
             G     E  ++    +Y    GI+ V+D+T++ S  N+  W                 
Sbjct: 61  VGGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRWSLEALNRDTFPAGLLVT 120

Query: 114 ------EQHASDNVNKILVGNKADM-DESKR 137
                 EQ A + V  +++G K D   E+KR
Sbjct: 121 NGDYDSEQFAGNPVPLLVIGTKLDQIPEAKR 151

RabL3 (Rab-like3) subfamily. RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown. Length = 204

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

 Score = 56.0 bits (135), Expect = 3e-10
 Identities = 37/138 (26%), Positives = 63/138 (45%), Gaps = 6/138 (4%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           +L+ +G +GVGK+ L+ RF   +F      T+  +   +  E+ G ++ + I DT+G   
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVE-ELHSKEYEVAGVKVTIDILDTSGSYS 59

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDES 135
           F  +     +      LVY V D  SF  ++     I +   D    I+V GNK D   +
Sbjct: 60  FPAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPIVVVGNKIDS-LA 118

Query: 136 KREAPFCLHETILLTVQV 153
           +R+         L TV++
Sbjct: 119 ERQVEA---ADALSTVEL 133

Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 197

>gnl|CDD|206724 cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl10) GTPases

 Score = 54.2 bits (131), Expect = 7e-10
 Identities = 34/114 (29%), Positives = 58/114 (50%), Gaps = 5/114 (4%)

Query: 20  LIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT 79
           L+G    GK+ L+   + G F+   I T+G  F +R +      IK  +WD  GQ RFR+
Sbjct: 4   LVGLQNSGKTTLVNVIASGQFSEDTIPTVG--FNMRKVTKGNVTIK--VWDLGGQPRFRS 59

Query: 80  ITTAYYRGAMGILLVYDVTDESSFNNIRNWIRN-IEQHASDNVNKILVGNKADM 132
           +   Y RG   I+ V D  D       +N + + +E+ + + +  +++GNK D+
Sbjct: 60  MWERYCRGVNAIVYVVDAADREKLEVAKNELHDLLEKPSLEGIPLLVLGNKNDL 113

Arl10-like subfamily. 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. Length = 159

>gnl|CDD|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score = 54.2 bits (131), Expect = 8e-10
 Identities = 30/125 (24%), Positives = 56/125 (44%), Gaps = 6/125 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +   G   T+ I TIG  F + T+    K +K  +WD  GQE
Sbjct: 15  MRILILGLDNAGKTTILYKLKLGEIVTT-IPTIG--FNVETVTY--KNVKFTVWDVGGQE 69

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDE 134
             R +   Y+     ++ V D  D       +  +  +       +   +++ NK D+  
Sbjct: 70  SLRPLWRNYFPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELADAPLLILANKQDLPG 129

Query: 135 SKREA 139
           +  EA
Sbjct: 130 AMSEA 134

Pfam combines a number of different Prosite families together. Length = 174

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

 Score = 54.7 bits (131), Expect = 1e-09
 Identities = 29/132 (21%), Positives = 64/132 (48%), Gaps = 9/132 (6%)

Query: 2   AAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG 61
              P   R       KL+L+GD   GK+ +L   +   +  +++ T+  ++    +E + 
Sbjct: 6   NPQPLVVRC------KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-CLETEE 58

Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNN-IRNWIRNIEQHASDN 120
           +R++L +WDT+G   +  +    Y  +  +LL +D++    F++ ++ W   I  +   +
Sbjct: 59  QRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDYCP-S 117

Query: 121 VNKILVGNKADM 132
              +L+G K D+
Sbjct: 118 TRILLIGCKTDL 129

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 232

>gnl|CDD|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional

 Score = 52.9 bits (127), Expect = 3e-09
 Identities = 32/118 (27%), Positives = 59/118 (50%), Gaps = 6/118 (5%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +   G   T+ I TIG  F + T+E   K +K  +WD  GQ+
Sbjct: 18  VRILMVGLDAAGKTTILYKLKLGEVVTT-IPTIG--FNVETVEY--KNLKFTMWDVGGQD 72

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADM 132
           + R +   YY+   G++ V D  D     + R  + R + +    +   ++  NK D+
Sbjct: 73  KLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDL 130

Length = 182

>gnl|CDD|206717 cd04150, Arf1_5_like, ADP-ribosylation factor-1 (Arf1) and ADP-ribosylation factor-5 (Arf5)

 Score = 51.6 bits (124), Expect = 6e-09
 Identities = 35/120 (29%), Positives = 59/120 (49%), Gaps = 10/120 (8%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +   G   T+ I TIG  F + T+E   K I   +WD  GQ+
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGQD 55

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI--EQHASDNVNKILV-GNKADM 132
           + R +   Y++   G++ V D  D       R  ++ +  E    D V  +LV  NK D+
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAV--LLVFANKQDL 113

The Arf1-Arf5-like 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 and other lower eukaryotes, lack Arf2. Human Arf3 shares 96% sequence identity with Arf1 and is believed to generally function interchangeably with Arf1. Human Arf4 in the activated (GTP-bound) state has been shown to interact with the cytoplasmic domain of epidermal growth factor receptor (EGFR) and mediate the EGF-dependent activation of phospholipase D2 (PLD2), leading to activation of the activator protein 1 (AP-1) transcription factor. Arf4 has also been shown to recognize the C-terminal sorting signal of rhodopsin and regulate its incorporation into specialized post-Golgi rhodopsin transport carriers (RTCs). There is some evidence that Arf5 functions at the early-Golgi and the trans-Golgi to affect Golgi-associated alpha-adaptin homology Arf-binding proteins (GGAs). Length = 159

>gnl|CDD|165788 PLN00223, PLN00223, ADP-ribosylation factor; Provisional

 Score = 50.0 bits (119), Expect = 3e-08
 Identities = 31/118 (26%), Positives = 58/118 (49%), Gaps = 6/118 (5%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +   G   T+ I TIG  F + T+E   K I   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGQD 72

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADM 132
           + R +   Y++   G++ V D  D       R+ + R + +    +   ++  NK D+
Sbjct: 73  KIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDL 130

Length = 181

>gnl|CDD|206716 cd04149, Arf6, ADP ribosylation factor 6 (Arf6)

 Score = 49.8 bits (119), Expect = 3e-08
 Identities = 32/118 (27%), Positives = 57/118 (48%), Gaps = 6/118 (5%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +   G   T+ I T+G  F + T+    K +K  +WD  GQ+
Sbjct: 10  MRILMLGLDAAGKTTILYKLKLGQSVTT-IPTVG--FNVETVTY--KNVKFNVWDVGGQD 64

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADM 132
           + R +   YY G  G++ V D  D    +  R  + R I      +   ++  NK D+
Sbjct: 65  KIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDL 122

Arf6 subfamily. 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 to function at multiple sites on the plasma membrane through interaction with a specific set of GEFs, GAPs, and effectors. Arf6 has been implicated in breast cancer and melanoma cell invasion, and in actin remodelling at the invasion site of Chlamydia infection. Length = 168

>gnl|CDD|206725 cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)

 Score = 47.7 bits (114), Expect = 2e-07
 Identities = 26/88 (29%), Positives = 46/88 (52%), Gaps = 5/88 (5%)

Query: 46  TTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNN 105
            T+G++  I TIE+     +L  WD  GQE  R++   YY  + G++ V D TD   FN 
Sbjct: 37  PTVGLN--IGTIEVGK--ARLMFWDLGGQEELRSLWDKYYAESHGVIYVIDSTDRERFNE 92

Query: 106 IRNWIRNIEQHAS-DNVNKILVGNKADM 132
            ++    +  + + + V  +++ NK D+
Sbjct: 93  SKSAFEKVINNEALEGVPLLVLANKQDL 120

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. Length = 168

>gnl|CDD|133343 cd04143, Rhes_like, Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1)

 Score = 48.2 bits (115), Expect = 2e-07
 Identities = 37/134 (27%), Positives = 62/134 (46%), Gaps = 20/134 (14%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           +++++G S VGK+ ++ RF  G F   +  TI  DF  +   + G+  +L I DT+G   
Sbjct: 2   RMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHP 60

Query: 77  FR-----TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNK-------- 123
           F      +I T    G +  +LV+ + +  SF  +      I +  S   NK        
Sbjct: 61  FPAMRRLSILT----GDV-FILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIP 115

Query: 124 -ILVGNKADMDESK 136
            ++ GNKAD D  +
Sbjct: 116 MVICGNKADRDFPR 129

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 levels in other tissues. Dexras1 localizes primarily to the cytoplasm, and is a critical regulator of the circadian master clock to photic and nonphotic input. 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 = 247

>gnl|CDD|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases

 Score = 47.5 bits (113), Expect = 3e-07
 Identities = 31/121 (25%), Positives = 56/121 (46%), Gaps = 5/121 (4%)

Query: 18  LLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDF-KIRTIELDGKRIKLQIWDTAGQER 76
           ++++G    GK+ +L R     F  + + T G +  KI+    + K +    WD  GQE+
Sbjct: 6   IVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNAKGVTFHFWDVGGQEK 64

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN--VNKILVGNKADMDE 134
            R +  +Y R   GI+ V D  D       +  +  I +  S+N  V  +++ NK D+  
Sbjct: 65  LRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITK-FSENQGVPVLVLANKQDLPN 123

Query: 135 S 135
           +
Sbjct: 124 A 124

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. Length = 183

>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction only]

 Score = 46.7 bits (111), Expect = 5e-07
 Identities = 27/96 (28%), Positives = 45/96 (46%), Gaps = 15/96 (15%)

Query: 16  IKLLLIGDSGVGKSCLL------------LRFSDGSFTTSFITTIGIDFKIRTIELDGKR 63
            K+++IG  G GK+  +               S  S      TT+ +DF   +IELD   
Sbjct: 11  TKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFG--SIELDEDT 68

Query: 64  IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTD 99
             + ++ T GQERF+ +     RGA+G +++ D + 
Sbjct: 69  -GVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSR 103

Length = 187

>gnl|CDD|206718 cd04151, Arl1, ADP ribosylation factor 1 (Arf1)

 Score = 46.2 bits (110), Expect = 5e-07
 Identities = 30/85 (35%), Positives = 42/85 (49%), Gaps = 5/85 (5%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           ++L++G  G GK+ +L R   G   T+ I TIG  F + T+    K +K Q+WD  GQ  
Sbjct: 1   RILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTY--KNLKFQVWDLGGQTS 55

Query: 77  FRTITTAYYRGAMGILLVYDVTDES 101
            R     YY     I+ V D TD  
Sbjct: 56  IRPYWRCYYSNTDAIIYVVDSTDRD 80

Arl1 subfamily. 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. Length = 158

>gnl|CDD|133275 cd01873, RhoBTB, RhoBTB protein is an atypical member of the Rho family of small GTPases

 Score = 46.9 bits (111), Expect = 5e-07
 Identities = 37/145 (25%), Positives = 61/145 (42%), Gaps = 27/145 (18%)

Query: 15  LIKLLLIGDSGVGKSCLLL------RFSDGSFTTSFITTI-GIDFKIRTIEL-------- 59
            IK +++GD+ VGK+ L+         +      + + T+  ID      E+        
Sbjct: 2   TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVV 61

Query: 60  DGKRIKLQIWDTAG----QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIE 114
           DG  + L++WDT G      RF     AY R  + +LL + +   +S  N++  W   I 
Sbjct: 62  DGVSVSLRLWDTFGDHDKDRRF-----AYGRSDV-VLLCFSIASPNSLRNVKTMWYPEIR 115

Query: 115 QHASDNVNKILVGNKADMDESKREA 139
                 V  ILVG K D+  +  + 
Sbjct: 116 HFCPR-VPVILVGCKLDLRYADLDE 139

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. Length = 195

>gnl|CDD|206679 cd01892, Miro2, Mitochondrial Rho family 2 (Miro2), C-terminal

 Score = 45.3 bits (108), Expect = 1e-06
 Identities = 35/129 (27%), Positives = 58/129 (44%), Gaps = 10/129 (7%)

Query: 21  IGDSGVGKSCLLLRFSDGSFTTSFIT-TIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT 79
           +G  G GKS LL  F   SF+ +  + TI   + + T+E+ G+  K  I    G++    
Sbjct: 10  LGAKGSGKSALLQAFLGRSFSQNAYSPTIKPRYAVNTVEVPGQE-KYLILREVGEDEEAI 68

Query: 80  ITTAYYRGAMGIL-LVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRE 138
           +       A  +  LVYD +D +SF+     +        + +  + V  KAD+DE ++ 
Sbjct: 69  LLNDAELAACDVACLVYDSSDPNSFSYCAE-VYKKYFMLGE-IPCLFVAAKADLDEQQQR 126

Query: 139 AP-----FC 142
           A      FC
Sbjct: 127 AEVQPDEFC 135

Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature. Length = 180

>gnl|CDD|206723 cd04158, ARD1, (ADP-ribosylation factor domain protein 1 (ARD1)

 Score = 44.2 bits (104), Expect = 4e-06
 Identities = 24/80 (30%), Positives = 39/80 (48%), Gaps = 5/80 (6%)

Query: 17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
          +++ +G  G GK+ +L +     F    I TIG  F + T+E   K +K  IWD  G+ +
Sbjct: 1  RVVTLGLDGAGKTTILFKLKQDEFMQP-IPTIG--FNVETVEY--KNLKFTIWDVGGKHK 55

Query: 77 FRTITTAYYRGAMGILLVYD 96
           R +   YY     ++ V D
Sbjct: 56 LRPLWKHYYLNTQAVVFVID 75

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 membrane. Two Tyr-based motifs in the Arf domain are responsible for Golgi localization, while the GAP domain controls lysosomal localization. Length = 169

>gnl|CDD|206645 cd00879, Sar1, Sar1 is an essential component of COPII vesicle coats

 Score = 44.2 bits (105), Expect = 5e-06
 Identities = 27/116 (23%), Positives = 48/116 (41%), Gaps = 6/116 (5%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K++ +G    GK+ LL    D       + T+       + EL    +K   +D  G E+
Sbjct: 21  KIVFLGLDNAGKTTLLHMLKDDR-LAQHVPTLHPT----SEELTIGNVKFTTFDLGGHEQ 75

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNKAD 131
            R +   Y+    GI+ + D  D   F   +  + ++       NV  +++GNK D
Sbjct: 76  ARRVWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLNDEELANVPILILGNKID 131

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. Length = 191

>gnl|CDD|133342 cd04142, RRP22, Ras-related protein on chromosome 22 (RRP22) family

 Score = 42.5 bits (100), Expect = 2e-05
 Identities = 39/141 (27%), Positives = 61/141 (43%), Gaps = 22/141 (15%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD----- 70
           +++ ++G  GVGK+ ++ +F    F   +I T         + L G+   L I D     
Sbjct: 1   VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQ 60

Query: 71  ----TAGQE----RFRTITTAYYRGAMGILLVYDVTDESSFNN---IRNWIRNIEQHASD 119
               TAGQE    RFR +     R +   +LVYD+    SF+    +R  I       + 
Sbjct: 61  RYPGTAGQEWMDPRFRGL-----RNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNK 115

Query: 120 NVNKILVGNKADMDESKREAP 140
               ++VGNK D  +  R AP
Sbjct: 116 EPPIVVVGNKRDQ-QRHRFAP 135

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. Length = 198

>gnl|CDD|206720 cd04154, Arl2, Arf-like 2 (Arl2) GTPase

 Score = 42.3 bits (100), Expect = 2e-05
 Identities = 26/98 (26%), Positives = 53/98 (54%), Gaps = 5/98 (5%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +F +G   ++   T+G  F I+T+E +G   KL IWD  GQ+
Sbjct: 15  MRILMLGLDNAGKTTILKKF-NGEDISTISPTLG--FNIKTLEYNG--YKLNIWDVGGQK 69

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI 113
             R+    Y+     ++ V D +D +   + +  ++ +
Sbjct: 70  SLRSYWRNYFESTDALIWVVDSSDRARLEDCKRELQKL 107

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. Length = 173

>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score = 40.8 bits (96), Expect = 6e-05
 Identities = 28/122 (22%), Positives = 52/122 (42%), Gaps = 6/122 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++LL+G    GK+ +L + +    +    T     F I+ ++ DG   KL +WD  GQ 
Sbjct: 16  VRILLLGLDNAGKTTILKQLASEDISHITPTQ---GFNIKNVQADG--FKLNVWDIGGQR 70

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNKADMDE 134
           + R     Y+     ++ V D  D   F      +  + E+     V  ++  NK D+  
Sbjct: 71  KIRPYWRNYFENTDVLIYVIDSADRKRFEEAGQELVELLEEEKLAGVPVLVFANKQDLLT 130

Query: 135 SK 136
           + 
Sbjct: 131 AA 132

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. Length = 174

>gnl|CDD|133362 cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp2-like GTPase

 Score = 36.3 bits (84), Expect = 0.002
 Identities = 31/128 (24%), Positives = 50/128 (39%), Gaps = 10/128 (7%)

Query: 18  LLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF 77
           +L++G  G GK+ LL   S      S + T G  F    I      ++L   +  G +  
Sbjct: 2   ILVLGLDGAGKTSLLHSLSSERSLESVVPTTG--FNSVAIPTQDAIMELL--EIGGSQNL 57

Query: 78  RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR 137
           R     Y  G+ G++ V D  D       R  +  + QH  D +  +++ NK D      
Sbjct: 58  RKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHPPD-LPLVVLANKQD-----L 111

Query: 138 EAPFCLHE 145
            A   + E
Sbjct: 112 PAARSVQE 119

Arl9/Arfrp2-like subfamily. 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. Length = 164

>gnl|CDD|133361 cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (Arl2l1) and Arl13

 Score = 36.6 bits (85), Expect = 0.002
 Identities = 35/123 (28%), Positives = 54/123 (43%), Gaps = 6/123 (4%)

Query: 18  LLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF 77
           LL +G    GK+ L+     G        T+G  F    + LD  + ++ I+D  G   F
Sbjct: 2   LLTVGLDNAGKTTLVSALQ-GEIPKKVAPTVG--FTPTKLRLD--KYEVCIFDLGGGANF 56

Query: 78  RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDESK 136
           R I   YY  A G++ V D +D+     ++  +R + QH   +   ILV  NK D   + 
Sbjct: 57  RGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNAL 116

Query: 137 REA 139
             A
Sbjct: 117 LGA 119

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. Length = 167

>gnl|CDD|206691 cd04105, SR_beta, Signal recognition particle receptor, beta subunit (SR-beta), together with SR-alpha, forms the heterodimeric signal recognition particle (SRP)

 Score = 35.8 bits (83), Expect = 0.004
 Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 5/83 (6%)

Query: 19 LLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIK-LQIWDTAGQERF 77
          LL+G S  GK+ L  + + G   ++  +   I+  + +   +  + K L + D  G E+ 
Sbjct: 4  LLLGPSDSGKTALFTKLTTGKVRSTVTS---IEPNVASFYSNSSKGKKLTLVDVPGHEKL 60

Query: 78 RTITTAYYRG-AMGILLVYDVTD 99
          R     Y +     I+ V D   
Sbjct: 61 RDKLLEYLKASLKAIVFVVDSAT 83

Signal recognition particle receptor, beta subunit (SR-beta). 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 type of cancer. Length = 202

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	160
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.98
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.98
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.97
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.97
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.97
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	99.97
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.97
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.97
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.97
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.97
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.97
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.97
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.97
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.97
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.97
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.97
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.97
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.97
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.97
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.97
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.97
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.97
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.97
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.97
PLN03110	216	Rab GTPase; Provisional	99.97
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.97
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.97
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.97
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.97
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.97
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.97
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.97
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.97
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.97
PLN03108	210	Rab family protein; Provisional	99.97
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.97
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.97
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.97
PLN00023	334	GTP-binding protein; Provisional	99.97
PTZ00369	189	Ras-like protein; Provisional	99.97
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.96
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.96
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.96
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.96
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.96
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.96
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.96
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.96
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.96
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.96
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.96
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.96
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.96
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.96
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.96
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.96
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.96
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.96
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.96
PLN03118	211	Rab family protein; Provisional	99.96
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.96
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.96
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.96
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.96
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.96
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.96
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.96
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.96
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.96
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.96
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.95
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.95
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.95
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.95
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.95
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.95
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.95
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.95
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.95
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.94
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.94
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.94
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.94
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.94
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.94
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.94
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.94
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.94
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.94
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.94
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.93
KOG0395	196	consensus Ras-related GTPase [General function pre	99.93
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.93
PLN00223	181	ADP-ribosylation factor; Provisional	99.93
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.93
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.93
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.93
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.93
PTZ00133	182	ADP-ribosylation factor; Provisional	99.93
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.92
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.92
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.92
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.92
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.92
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.91
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.91
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.91
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.91
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.91
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.91
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.9
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.9
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.89
COG1100	219	GTPase SAR1 and related small G proteins [General	99.89
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.89
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.88
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.88
PTZ00099	176	rab6; Provisional	99.88
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.88
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.87
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.87
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.87
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.87
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.87
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.86
PRK12299	335	obgE GTPase CgtA; Reviewed	99.86
KOG1673	205	consensus Ras GTPases [General function prediction	99.85
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.85
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.85
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.84
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.84
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.84
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.84
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.83
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.83
PRK04213	201	GTP-binding protein; Provisional	99.83
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.82
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.82
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.81
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.81
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.81
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.8
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.8
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.8
cd00881	189	GTP_translation_factor GTP translation factor fami	99.8
PRK12297	424	obgE GTPase CgtA; Reviewed	99.8
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.79
PRK15494	339	era GTPase Era; Provisional	99.79
PRK03003	472	GTP-binding protein Der; Reviewed	99.79
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.79
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.79
PRK03003	472	GTP-binding protein Der; Reviewed	99.78
PRK11058	426	GTPase HflX; Provisional	99.78
PRK05306	787	infB translation initiation factor IF-2; Validated	99.78
COG2229	187	Predicted GTPase [General function prediction only	99.78
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.77
PRK12298	390	obgE GTPase CgtA; Reviewed	99.77
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.77
PRK12296	500	obgE GTPase CgtA; Reviewed	99.77
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.77
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.76
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.76
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.76
CHL00189	742	infB translation initiation factor 2; Provisional	99.76
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.75
PRK05433	600	GTP-binding protein LepA; Provisional	99.75
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.75
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.75
PRK12317	425	elongation factor 1-alpha; Reviewed	99.75
PRK00093	435	GTP-binding protein Der; Reviewed	99.75
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.74
PRK10218	607	GTP-binding protein; Provisional	99.74
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.74
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.74
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.74
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.74
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.73
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.73
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.73
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.73
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.73
PRK00089	292	era GTPase Era; Reviewed	99.73
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.72
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.72
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.72
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.72
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.72
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.71
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.71
PRK00093	435	GTP-binding protein Der; Reviewed	99.7
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.7
COG1159	298	Era GTPase [General function prediction only]	99.69
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.69
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.69
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.69
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.68
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.68
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.68
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.68
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.68
COG0486	454	ThdF Predicted GTPase [General function prediction	99.67
COG1084	346	Predicted GTPase [General function prediction only	99.67
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.67
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.67
PRK04004	586	translation initiation factor IF-2; Validated	99.67
PRK13351	687	elongation factor G; Reviewed	99.65
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.64
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.64
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.64
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.64
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.63
PRK12735	396	elongation factor Tu; Reviewed	99.63
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.63
PRK12736	394	elongation factor Tu; Reviewed	99.63
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.63
PLN03126	478	Elongation factor Tu; Provisional	99.62
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.62
COG1160	444	Predicted GTPases [General function prediction onl	99.62
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.61
CHL00071	409	tufA elongation factor Tu	99.61
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.61
COG0218	200	Predicted GTPase [General function prediction only	99.61
PLN00043	447	elongation factor 1-alpha; Provisional	99.59
COG2262	411	HflX GTPases [General function prediction only]	99.59
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.58
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.57
PRK12739	691	elongation factor G; Reviewed	99.57
KOG1145	683	consensus Mitochondrial translation initiation fac	99.56
PRK00049	396	elongation factor Tu; Reviewed	99.56
COG1160	444	Predicted GTPases [General function prediction onl	99.56
KOG0090	238	consensus Signal recognition particle receptor, be	99.56
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.55
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.54
PLN03127	447	Elongation factor Tu; Provisional	99.54
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.54
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.54
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.53
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.53
PTZ00141	446	elongation factor 1- alpha; Provisional	99.53
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.52
COG1163	365	DRG Predicted GTPase [General function prediction	99.51
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.51
PRK00007	693	elongation factor G; Reviewed	99.51
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.51
COG0536	369	Obg Predicted GTPase [General function prediction	99.5
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.49
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.49
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.48
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.48
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.47
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.47
PRK12740	668	elongation factor G; Reviewed	99.46
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.44
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.43
PRK07560	731	elongation factor EF-2; Reviewed	99.43
PTZ00416	836	elongation factor 2; Provisional	99.43
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.4
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.39
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.39
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.39
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.38
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.37
COG3596	296	Predicted GTPase [General function prediction only	99.37
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.37
PTZ00258	390	GTP-binding protein; Provisional	99.37
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.34
PRK09601	364	GTP-binding protein YchF; Reviewed	99.31
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.3
PRK09602	396	translation-associated GTPase; Reviewed	99.26
PRK09866	741	hypothetical protein; Provisional	99.26
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.24
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.23
COG5019	373	CDC3 Septin family protein [Cell division and chro	99.23
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.22
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	99.22
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.22
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.21
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.21
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.21
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.17
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	99.17
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	99.17
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.16
PRK14845	1049	translation initiation factor IF-2; Provisional	99.12
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.09
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.09
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.09
COG0012	372	Predicted GTPase, probable translation factor [Tra	99.07
KOG0082	354	consensus G-protein alpha subunit (small G protein	99.05
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.02
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	99.01
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.01
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.97
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.94
COG0050	394	TufB GTPases - translation elongation factors [Tra	98.93
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.89
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.88
PRK13768	253	GTPase; Provisional	98.87
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.87
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	98.83
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	98.82
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.82
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.8
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.79
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	98.77
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.75
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.71
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.71
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.69
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.68
KOG0410	410	consensus Predicted GTP binding protein [General f	98.66
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.66
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.66
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.65
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.63
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.62
COG1161	322	Predicted GTPases [General function prediction onl	98.61
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.58
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.57
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.54
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.53
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.52
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	98.5
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.5
KOG0460	449	consensus Mitochondrial translation elongation fac	98.49
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.46
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.45
KOG2486	320	consensus Predicted GTPase [General function predi	98.45
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	98.43
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.43
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.42
KOG1143	591	consensus Predicted translation elongation factor	98.42
KOG0099	379	consensus G protein subunit Galphas, small G prote	98.38
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.37
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	98.35
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.34
cd03112	158	CobW_like The function of this protein family is u	98.34
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	98.33
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.31
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.3
PRK12288	347	GTPase RsgA; Reviewed	98.28
PRK13796	365	GTPase YqeH; Provisional	98.26
COG3523	1188	IcmF Type VI protein secretion system component Va	98.23
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.2
PRK12289	352	GTPase RsgA; Reviewed	98.19
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.17
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	98.13
KOG0465	721	consensus Mitochondrial elongation factor [Transla	98.05
PRK00098	298	GTPase RsgA; Reviewed	98.05
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	98.05
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.03
COG1162	301	Predicted GTPases [General function prediction onl	98.02
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.97
KOG4273	418	consensus Uncharacterized conserved protein [Funct	97.97
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.92
PRK13695	174	putative NTPase; Provisional	97.91
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	97.91
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.89
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.88
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	97.87
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	97.84
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	97.83
PRK00098	298	GTPase RsgA; Reviewed	97.82
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.81
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.81
PRK10416	318	signal recognition particle-docking protein FtsY;	97.81
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.8
PRK12289	352	GTPase RsgA; Reviewed	97.75
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.73
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.73
PRK12288	347	GTPase RsgA; Reviewed	97.72
KOG2484	435	consensus GTPase [General function prediction only	97.71
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	97.7
PRK08118	167	topology modulation protein; Reviewed	97.67
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.67
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.64
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.64
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.63
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.62
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	97.61
PRK07261	171	topology modulation protein; Provisional	97.6
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.6
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.58
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	97.54
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.53
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.53
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	97.53
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	97.5
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.5
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.46
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.45
COG0523	323	Putative GTPases (G3E family) [General function pr	97.45
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.44
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.42
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.42
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.39
cd03111	106	CpaE_like This protein family consists of proteins	97.39
KOG0466	466	consensus Translation initiation factor 2, gamma s	97.39
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.36
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.36
PRK06217	183	hypothetical protein; Validated	97.33
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.32
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.32
PF05729	166	NACHT: NACHT domain	97.3
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.3
smart00382	148	AAA ATPases associated with a variety of cellular	97.3
PF00004	132	AAA: ATPase family associated with various cellula	97.3
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	97.29
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	97.29
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.28
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	97.27
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.27
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	97.27
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.26
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.26
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.25
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.22
COG3845	501	ABC-type uncharacterized transport systems, ATPase	97.22
PRK14530	215	adenylate kinase; Provisional	97.22
cd03110	179	Fer4_NifH_child This protein family's function is	97.21
PRK03839	180	putative kinase; Provisional	97.21
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.2
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.19
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.18
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.18
TIGR00959	428	ffh signal recognition particle protein. This mode	97.18
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	97.17
PRK14738	206	gmk guanylate kinase; Provisional	97.17
PRK14532	188	adenylate kinase; Provisional	97.16
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.16
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	97.16
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.15
PRK10646	153	ADP-binding protein; Provisional	97.15
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.15
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	97.15
PRK14531	183	adenylate kinase; Provisional	97.14
PRK13949	169	shikimate kinase; Provisional	97.11
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	97.11
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.1
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	97.1
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	97.1
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.1
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	97.1
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	97.09
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.09
PRK02496	184	adk adenylate kinase; Provisional	97.09
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	97.08
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.08
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	97.08
PRK08233	182	hypothetical protein; Provisional	97.08
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.08
PRK01889	356	GTPase RsgA; Reviewed	97.07
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	97.07
PRK05480	209	uridine/cytidine kinase; Provisional	97.07
PRK13851	344	type IV secretion system protein VirB11; Provision	97.07
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	97.07
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	97.07
cd03269	210	ABC_putative_ATPase This subfamily is involved in	97.06
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.06
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	97.06
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	97.06
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.05
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	97.05
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	97.05
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	97.05
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	97.04
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.04
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	97.04
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.03
PRK00300	205	gmk guanylate kinase; Provisional	97.03
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.03
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	97.03
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	97.03
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	97.03
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	97.03
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	97.03
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.02
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	97.02
PRK14737	186	gmk guanylate kinase; Provisional	97.02
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	97.02
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.02
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	97.01
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	97.01
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	97.01

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

Probab=100.00  E-value=8.8e-38  Score=208.24  Aligned_cols=145  Identities=61%  Similarity=1.050  Sum_probs=140.3

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ...+++.+||+++|+.|+|||+|+.|+..+.|.+.+..|.++++..+.+..+++.+.+++|||.||+++..+..++++++
T Consensus         3 ~~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~a   82 (205)
T KOG0084|consen    3 NPEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGA   82 (205)
T ss_pred             CcccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCC
Confidence            46788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVH  154 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~  154 (160)
                      |++|+|||+++.+||+.+..|+.++.++...++|.++||||+|+. ..+.++.+++++|+.++++.
T Consensus        83 hGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~-~~~~v~~~~a~~fa~~~~~~  147 (205)
T KOG0084|consen   83 HGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLT-EKRVVSTEEAQEFADELGIP  147 (205)
T ss_pred             CeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccH-hheecCHHHHHHHHHhcCCc
Confidence            999999999999999999999999999999899999999999998 78899999999999999887

>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=100.00  E-value=1.6e-34  Score=195.08  Aligned_cols=148  Identities=72%  Similarity=1.143  Sum_probs=142.6

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ..+++.+||+++|+++||||+++.++..+.|...+..+.++++..+.+..++..+.+++|||.||+++..+..+++++++
T Consensus         7 ~~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~   86 (207)
T KOG0078|consen    7 EDYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAM   86 (207)
T ss_pred             CCcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcC
Confidence            48899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      ++++|||+++..+|+++..|+..+..+.+.++|+++||||+|+. ..+++..++++++|.++|+.|+..
T Consensus        87 gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~-~~R~V~~e~ge~lA~e~G~~F~Et  154 (207)
T KOG0078|consen   87 GILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLE-EKRQVSKERGEALAREYGIKFFET  154 (207)
T ss_pred             eeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeecccccc-ccccccHHHHHHHHHHhCCeEEEc
Confidence            99999999999999999999999999999999999999999998 689999999999999999887754

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

Probab=100.00  E-value=2.5e-34  Score=190.01  Aligned_cols=144  Identities=49%  Similarity=0.895  Sum_probs=138.3

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      +.+.+|++++|+.|+|||+|+.++....|...+..|.++++....++++++.+++++|||.|++.+.....++++++-++
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~Ga   82 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGA   82 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcce
Confidence            56789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ++|||++++++|..+..|+..+.++..++.-|++++||+||. ..+++..||.+.||+++++.+.
T Consensus        83 lLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~-~rR~Vs~EEGeaFA~ehgLifm  146 (216)
T KOG0098|consen   83 LLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLE-ARREVSKEEGEAFAREHGLIFM  146 (216)
T ss_pred             EEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhh-ccccccHHHHHHHHHHcCceee
Confidence            999999999999999999999999988899999999999998 7779999999999999998765

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

Probab=100.00  E-value=1.2e-33  Score=187.90  Aligned_cols=145  Identities=41%  Similarity=0.725  Sum_probs=136.8

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+|++++|+.++|||||+.|+..+.|.+...+|.+-.+....+..++..++|.+|||.|+++|..+.+.++++++++|
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAi   82 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAI   82 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEE
Confidence            45699999999999999999999999999988999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      +|||+++.+||..++.|+.++.+..+.++-+.++|||+||. +.+++..++++.++.+.++.++..
T Consensus        83 vvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~-~~R~V~~~ea~~yAe~~gll~~ET  147 (200)
T KOG0092|consen   83 VVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLL-ERREVEFEEAQAYAESQGLLFFET  147 (200)
T ss_pred             EEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhh-hcccccHHHHHHHHHhcCCEEEEE
Confidence            99999999999999999999999888888999999999998 678999999999999999877643

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

Probab=100.00  E-value=1.6e-33  Score=187.55  Aligned_cols=145  Identities=37%  Similarity=0.658  Sum_probs=136.0

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      .-..+|++++|+.++||||||+|+..+.|...|..|.++++....+.+.++.+++++|||.||++++.+.+++++++.++
T Consensus        19 ~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~va   98 (221)
T KOG0094|consen   19 PLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   98 (221)
T ss_pred             cceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEE
Confidence            33459999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCC-CCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASD-NVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |+|||+++..+|+...+|+..+.+.... ++-|++||||.||. ..+++..+|....++++++.|+.
T Consensus        99 viVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~-dkrqvs~eEg~~kAkel~a~f~e  164 (221)
T KOG0094|consen   99 VIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLS-DKRQVSIEEGERKAKELNAEFIE  164 (221)
T ss_pred             EEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEccccccc-chhhhhHHHHHHHHHHhCcEEEE
Confidence            9999999999999999999999887664 58899999999998 56899999999999999997765

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=2e-32  Score=188.26  Aligned_cols=144  Identities=47%  Similarity=0.785  Sum_probs=129.2

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      .+..+||+++|+.++|||||+.++..+.+...+.++.+.++....+..++..+.+.+||++|++++..++..+++++|++
T Consensus         3 ~~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~i   82 (189)
T cd04121           3 YDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGI   82 (189)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEE
Confidence            45679999999999999999999999988877777888777777788899899999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++|||++++.+|+.+..|+.++..+.+ +.|++|||||+|+. ..+.+..++++++++.+++.++.
T Consensus        83 llVfD~t~~~Sf~~~~~w~~~i~~~~~-~~piilVGNK~DL~-~~~~v~~~~~~~~a~~~~~~~~e  146 (189)
T cd04121          83 ILVYDITNRWSFDGIDRWIKEIDEHAP-GVPKILVGNRLHLA-FKRQVATEQAQAYAERNGMTFFE  146 (189)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECccch-hccCCCHHHHHHHHHHcCCEEEE
Confidence            999999999999999999999987765 79999999999997 45678899999999988765543

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

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

Probab=100.00  E-value=7.7e-33  Score=186.39  Aligned_cols=151  Identities=46%  Similarity=0.820  Sum_probs=143.4

Q ss_pred             CCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhcc
Q 031411            7 RARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYR   86 (160)
Q Consensus         7 ~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~   86 (160)
                      ..+.++++.+||+++|++++|||-|+.|+..+.|..+..+|.++++....+.++++.+..++|||.||++|+.+..++++
T Consensus         6 ~~~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYr   85 (222)
T KOG0087|consen    6 DKSEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYR   85 (222)
T ss_pred             CCccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhc
Confidence            34678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      ++.++++|||++...+|+.+.+|+.++..|...+++|+++|||+||. +.+.+..++++.++...+..++..
T Consensus        86 gAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~-~lraV~te~~k~~Ae~~~l~f~Et  156 (222)
T KOG0087|consen   86 GAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLN-HLRAVPTEDGKAFAEKEGLFFLET  156 (222)
T ss_pred             ccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhh-hccccchhhhHhHHHhcCceEEEe
Confidence            99999999999999999999999999999998899999999999998 689999999999999988877653

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

Probab=100.00  E-value=7.8e-33  Score=178.98  Aligned_cols=148  Identities=47%  Similarity=0.797  Sum_probs=138.8

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ..+...+||+++|+.|+|||||+-++..+.|.+....+.+.++..+.+.+++.++++.+|||.|+++|..+..++++++.
T Consensus         6 s~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaq   85 (209)
T KOG0080|consen    6 SGYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQ   85 (209)
T ss_pred             cCcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCc
Confidence            56778899999999999999999999999999998999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      ++|+|||.+.+++|..+..|++++..++. .++-.++|+||.|.. .++.+..+|..+|+++|+|.|+.+
T Consensus        86 GiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDke-s~R~V~reEG~kfAr~h~~LFiE~  154 (209)
T KOG0080|consen   86 GIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKE-SERVVDREEGLKFARKHRCLFIEC  154 (209)
T ss_pred             eeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccch-hcccccHHHHHHHHHhhCcEEEEc
Confidence            99999999999999999999999988875 577889999999986 688999999999999999988754

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=6.2e-32  Score=187.44  Aligned_cols=143  Identities=44%  Similarity=0.822  Sum_probs=127.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +.|+++|+.|+|||||++++..+.|...+.++.+.++....+..++..+.+.+||++|++++..++..+++++|++++||
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVf   80 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVY   80 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEE
Confidence            36899999999999999999999998888888888888888899998899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc-ce--EEEEee
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTV-QV--HLVILK  159 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~-~~--~~~~~k  159 (160)
                      |++++++|+.+..|+..+.+....+.|+++++||+|+. ..+++..+++++++.++ ++  ..+|||
T Consensus        81 Dvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~-~~~~v~~~~~~~~a~~~~~~~~~etSAk  146 (202)
T cd04120          81 DITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCE-TDREISRQQGEKFAQQITGMRFCEASAK  146 (202)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc-cccccCHHHHHHHHHhcCCCEEEEecCC
Confidence            99999999999999998877766689999999999997 46778888899998775 54  345554

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

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

Probab=100.00  E-value=1.9e-32  Score=174.75  Aligned_cols=152  Identities=51%  Similarity=0.882  Sum_probs=141.9

Q ss_pred             CCCCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhh
Q 031411            5 PARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY   84 (160)
Q Consensus         5 ~~~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~   84 (160)
                      .....+..++.+|++++|+..+|||||+.++.+..|.....++.++++..+.+.-..+++.+++|||.|+++|..+...+
T Consensus        11 ~~s~dqnFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTay   90 (193)
T KOG0093|consen   11 KDSIDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAY   90 (193)
T ss_pred             cccccccccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHH
Confidence            33446778899999999999999999999999999999999999999999988888889999999999999999999999


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           85 YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +++++++|++||+++.++|..+..|...+..++..+.|+++++||||+. .++.++.|..+.++.++|..|+.
T Consensus        91 yRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd-~eRvis~e~g~~l~~~LGfefFE  162 (193)
T KOG0093|consen   91 YRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMD-SERVISHERGRQLADQLGFEFFE  162 (193)
T ss_pred             hhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCc-cceeeeHHHHHHHHHHhChHHhh
Confidence            9999999999999999999999999999999998999999999999997 88899999999999999987654

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=1.7e-31  Score=182.19  Aligned_cols=140  Identities=21%  Similarity=0.519  Sum_probs=123.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      ++||+++|++++|||||++++..+.+...+.++.+..+ ...+..++..+.+.+|||+|++++..+...+++++|++++|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENY-TASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            47999999999999999999999999888888886554 45678888899999999999999999999999999999999


Q ss_pred             EECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcce-EEE
Q 031411           95 YDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQV-HLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~~-~~~  156 (160)
                      ||++++++|+.+ ..|+..+.++.+ +.|+++||||+||.++           .+.+..++++++++++++ .|+
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~~-~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~  153 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFCP-NTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYL  153 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHCC-CCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEE
Confidence            999999999996 789999988765 7899999999999642           346888999999999996 443

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.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=1.9e-31  Score=182.43  Aligned_cols=143  Identities=22%  Similarity=0.530  Sum_probs=126.0

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      +...+||+++|++++|||||++++..+.+...+.++.+..+ ...+..++..+.+.+|||+|++++..++..+++++|++
T Consensus         2 ~~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~   80 (182)
T cd04172           2 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   80 (182)
T ss_pred             CcceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEE
Confidence            34568999999999999999999999999888888887544 46678889899999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcce-EEE
Q 031411           92 LLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQV-HLV  156 (160)
Q Consensus        92 i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~~-~~~  156 (160)
                      ++|||++++.+|+.+ ..|+..+.++.+ +.|+++||||+||.+.           .+.+..++++++++++++ .|+
T Consensus        81 ilvyDit~~~Sf~~~~~~w~~~i~~~~~-~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~  157 (182)
T cd04172          81 LICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYI  157 (182)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEE
Confidence            999999999999997 789999988765 7899999999999642           356889999999999985 554

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

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

Probab=100.00  E-value=3.9e-32  Score=179.28  Aligned_cols=141  Identities=37%  Similarity=0.686  Sum_probs=131.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++|+|||||++++.+.+|.+.+..+.+.++..+.+.++++.+.+++|||.|++++..+...+++++|.++
T Consensus         7 ~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCv   86 (210)
T KOG0394|consen    7 RTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCV   86 (210)
T ss_pred             ccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceEE
Confidence            45699999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEeCCCCCC-CccCCChhHHHHHhhhcce
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA----SDNVNKILVGNKADMDE-SKREAPFCLHETILLTVQV  153 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~----~~~~pi~vv~~K~Dl~~-~~~~~~~~~~~~~~~~~~~  153 (160)
                      ++||.+++.+|+.+..|-.++....    +...|++|+|||.|+.+ +.++++..++++||++.+-
T Consensus        87 lvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gn  152 (210)
T KOG0394|consen   87 LVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGN  152 (210)
T ss_pred             EEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCC
Confidence            9999999999999999999996643    35679999999999976 4589999999999998764

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=3.8e-31  Score=186.52  Aligned_cols=147  Identities=18%  Similarity=0.416  Sum_probs=128.1

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      .....+||+++|+.+||||+|++++..+.|...+.++.+..+ ...+..++..+.+.+|||+|+++|..++..+++++|+
T Consensus         9 ~~~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~-~~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~   87 (232)
T cd04174           9 PLVMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TAGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDA   87 (232)
T ss_pred             CceeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeee-EEEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcE
Confidence            445679999999999999999999999999988888887655 4467888999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcce-EE--
Q 031411           91 ILLVYDVTDESSFNN-IRNWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQV-HL--  155 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~~-~~--  155 (160)
                      +++|||++++++|+. +..|+..+....+ +.|+++|+||+|+.+.           .+.+..++++++|+++++ .|  
T Consensus        88 vIlVyDit~~~Sf~~~~~~w~~~i~~~~~-~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~E  166 (232)
T cd04174          88 VLLCFDISRPETVDSALKKWKAEIMDYCP-STRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLE  166 (232)
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhCC-CCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEE
Confidence            999999999999998 4889999987765 7899999999999642           367889999999999997 34  


Q ss_pred             EEee
Q 031411          156 VILK  159 (160)
Q Consensus       156 ~~~k  159 (160)
                      +|||
T Consensus       167 tSAk  170 (232)
T cd04174         167 CSAF  170 (232)
T ss_pred             ccCC
Confidence            4554

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.

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=5.5e-31  Score=177.76  Aligned_cols=141  Identities=43%  Similarity=0.824  Sum_probs=125.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++++...+..+++++|++++|
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   81 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV   81 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEE
Confidence            48999999999999999999999998888778887777777778888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ||++++++|+.+..|+..+......+.|+++++||+|+. ....+..+++++++.+.++.++
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  142 (166)
T cd04122          82 YDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE-AQRDVTYEEAKQFADENGLLFL  142 (166)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccCcCHHHHHHHHHHcCCEEE
Confidence            999999999999999999877666678999999999997 4456778889999988876554

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

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

Probab=100.00  E-value=1.9e-32  Score=174.96  Aligned_cols=147  Identities=55%  Similarity=0.952  Sum_probs=138.0

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .++++.-++.+++|++|+|||+|+.++..+.|..+|..+.+.++..+.+.++|.++++++||+.|++++..+...++++.
T Consensus         2 ar~~dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgt   81 (198)
T KOG0079|consen    2 ARDYDHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGT   81 (198)
T ss_pred             cccHHHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCC
Confidence            35666778999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +++++|||.++.+||.+..+|+.++...++ .+|-+++|||.|.+ ..+.+..++++.|+...++..+.
T Consensus        82 hgv~vVYDVTn~ESF~Nv~rWLeei~~ncd-sv~~vLVGNK~d~~-~RrvV~t~dAr~~A~~mgie~FE  148 (198)
T KOG0079|consen   82 HGVIVVYDVTNGESFNNVKRWLEEIRNNCD-SVPKVLVGNKNDDP-ERRVVDTEDARAFALQMGIELFE  148 (198)
T ss_pred             ceEEEEEECcchhhhHhHHHHHHHHHhcCc-cccceecccCCCCc-cceeeehHHHHHHHHhcCchhee
Confidence            999999999999999999999999999888 89999999999997 77788999999999999876654

>cd04133 Rop_like Rop subfamily

Probab=99.98  E-value=1e-30  Score=177.88  Aligned_cols=136  Identities=31%  Similarity=0.640  Sum_probs=121.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +|++++|++++|||||+.++..+.|..++.++.+..+ ...+..++..+.+.+|||+|++++..++..+++++|++++||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvy   80 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   80 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEE
Confidence            6999999999999999999999999888888887554 456777888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCCc---------cCCChhHHHHHhhhcce
Q 031411           96 DVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDESK---------REAPFCLHETILLTVQV  153 (160)
Q Consensus        96 d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~---------~~~~~~~~~~~~~~~~~  153 (160)
                      |.+++++|+.+ ..|+..+.+..+ +.|++|||||+|+.++.         +.+..+++++++.++++
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~  147 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYAP-NVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGA  147 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCC
Confidence            99999999998 689999987765 79999999999996432         35888999999999876

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,

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.98  E-value=1.2e-30  Score=176.23  Aligned_cols=142  Identities=73%  Similarity=1.154  Sum_probs=126.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      +.+||+++|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||++|++++...+..+++++|++++
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~   81 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEE
Confidence            46899999999999999999999999988888888887777788888888999999999999999989999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |||++++++|+.+.+|+..+.+....+.|+++++||+|+. ....+..+++.+++..+++.++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  143 (167)
T cd01867          82 VYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDME-EKRVVSKEEGEALADEYGIKFL  143 (167)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccc-cccCCCHHHHHHHHHHcCCEEE
Confidence            9999999999999999999988766689999999999997 3456677888888888766443

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

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

Probab=99.97  E-value=1.6e-30  Score=174.68  Aligned_cols=141  Identities=38%  Similarity=0.764  Sum_probs=131.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      ||+++|++++|||||++++.++.+...+.++.+.+.....+..++..+.+.+||++|++++..++...++++|++++|||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd   80 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFD   80 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            79999999999999999999999999999998888888999999999999999999999999989999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           97 VTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      .+++++|+.+..|+..+....+.+.|++|++||.|+. ..+++..+++++++.++++.|+..
T Consensus        81 ~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~-~~~~v~~~~~~~~~~~~~~~~~e~  141 (162)
T PF00071_consen   81 VTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLS-DEREVSVEEAQEFAKELGVPYFEV  141 (162)
T ss_dssp             TTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGG-GGSSSCHHHHHHHHHHTTSEEEEE
T ss_pred             ccccccccccccccccccccccccccceeeecccccc-ccccchhhHHHHHHHHhCCEEEEE
Confidence            9999999999999999998888779999999999997 467888999999999998777654

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 ....

>cd04117 Rab15 Rab15 subfamily

Probab=99.97  E-value=3.4e-30  Score=173.23  Aligned_cols=140  Identities=50%  Similarity=0.913  Sum_probs=125.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++..+.+.+.+.++.+.++....+..++..+.+.+||++|++++...+..++.++|++++||
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVY   80 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEE
Confidence            48999999999999999999999998888888887777778888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |++++++|+.+..|+..+......+.|+++++||.|+. ....+..+++..+++..++.|+
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  140 (161)
T cd04117          81 DISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEE-QKRQVGDEQGNKLAKEYGMDFF  140 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccCCCHHHHHHHHHHcCCEEE
Confidence            99999999999999999987766689999999999996 4556677889999988777664

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.97  E-value=3.7e-30  Score=173.58  Aligned_cols=140  Identities=51%  Similarity=0.886  Sum_probs=122.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||++|++++..++..+++++|++++||
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~   81 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY   81 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEE
Confidence            79999999999999999999999988777888877776667777888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |.+++++++.+.+|+..+.+....+.|+++++||+|+. ..+.+..+++++++...++.++
T Consensus        82 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  141 (165)
T cd01865          82 DITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDME-DERVVSSERGRQLADQLGFEFF  141 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccC-cccccCHHHHHHHHHHcCCEEE
Confidence            99999999999999999987766688999999999996 3445567788888887665433

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

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

Probab=99.97  E-value=2.8e-31  Score=170.64  Aligned_cols=148  Identities=47%  Similarity=0.838  Sum_probs=140.1

Q ss_pred             CCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccC
Q 031411            8 ARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG   87 (160)
Q Consensus         8 ~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~   87 (160)
                      ++..+++.+|++++|+.|+|||+|++++..+++......+.++++..+.+.+.++.+++++|||.|++++....+.++++
T Consensus         2 msEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRG   81 (214)
T KOG0086|consen    2 MSETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRG   81 (214)
T ss_pred             cchhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhcc
Confidence            45778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +.+.++|||++++++|+.+..|+.......+.++-+++++||.||. ..+++...|+.+||.+..+.+.
T Consensus        82 AAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~-~~R~VtflEAs~FaqEnel~fl  149 (214)
T KOG0086|consen   82 AAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLD-PEREVTFLEASRFAQENELMFL  149 (214)
T ss_pred             ccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcC-hhhhhhHHHHHhhhcccceeee
Confidence            9999999999999999999999999999888899999999999997 7889999999999999887554

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.97  E-value=5.1e-30  Score=172.92  Aligned_cols=142  Identities=63%  Similarity=1.071  Sum_probs=125.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|+|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++++...+..+++++|++++|
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v   81 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIV   81 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEE
Confidence            47999999999999999999999988877788888777777888888888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||++++++|+.+..|+..+......+.|+++++||+|+. ....+..+++.+++...++.++.
T Consensus        82 ~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  143 (166)
T cd01869          82 YDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT-DKRVVDYSEAQEFADELGIPFLE  143 (166)
T ss_pred             EECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcc-cccCCCHHHHHHHHHHcCCeEEE
Confidence            999999999999999999988765678999999999996 44567778899999887765543

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.97  E-value=4.8e-30  Score=178.30  Aligned_cols=143  Identities=34%  Similarity=0.662  Sum_probs=124.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC-CEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD-GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      +||+++|++|+|||||++++.++.+...+.++.+.++....+..+ +..+.+.+||++|++++..++..++++++++++|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv   80 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIV   80 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEE
Confidence            589999999999999999999999888888888888777777777 7788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc---eEEEEee
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA----SDNVNKILVGNKADMDESKREAPFCLHETILLTVQ---VHLVILK  159 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~----~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~---~~~~~~k  159 (160)
                      ||++++++|+.+..|+..+....    ..++|+++++||+|+. ..+.+..+++++++..++   ...+|+|
T Consensus        81 ~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~e~Sak  151 (201)
T cd04107          81 FDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLK-KRLAKDGEQMDQFCKENGFIGWFETSAK  151 (201)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcc-cccccCHHHHHHHHHHcCCceEEEEeCC
Confidence            99999999999999999886532    2578999999999996 356678888999999877   3344443

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.

>cd01875 RhoG RhoG subfamily

Probab=99.97  E-value=5.2e-30  Score=176.79  Aligned_cols=139  Identities=27%  Similarity=0.573  Sum_probs=119.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|+.++|||||+.++..+.+...+.++.+..+ ...+..++..+.+.+|||+|++++..++..+++++|++++|
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilv   81 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIIC   81 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEE
Confidence            48999999999999999999999999888888887544 44567788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCc-----------cCCChhHHHHHhhhcce-EE
Q 031411           95 YDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESK-----------REAPFCLHETILLTVQV-HL  155 (160)
Q Consensus        95 ~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-----------~~~~~~~~~~~~~~~~~-~~  155 (160)
                      ||++++++|+.+. .|+..+.+..+ ++|+++++||.||.+..           ..+..+++++++.++++ .+
T Consensus        82 ydit~~~Sf~~~~~~w~~~i~~~~~-~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~  154 (191)
T cd01875          82 FSIASPSSYENVRHKWHPEVCHHCP-NVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKY  154 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEE
Confidence            9999999999997 58888876654 79999999999996432           24677889999998773 44

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

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

Probab=99.97  E-value=5.4e-31  Score=168.76  Aligned_cols=145  Identities=49%  Similarity=0.904  Sum_probs=134.7

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      .+++..+||+++|+.|+|||+|++++..+.|++....+.+.++..+.+.++++++++++|||.|++++..+..++++.++
T Consensus         2 edykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsah   81 (213)
T KOG0095|consen    2 EDYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAH   81 (213)
T ss_pred             cccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcc
Confidence            56888999999999999999999999999999998999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHL  155 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~  155 (160)
                      +++++||++...+|+.+.+|+.++.++....+--++++||.|+. +.++++..-+++|+..+...|
T Consensus        82 alilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~-drrevp~qigeefs~~qdmyf  146 (213)
T KOG0095|consen   82 ALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLA-DRREVPQQIGEEFSEAQDMYF  146 (213)
T ss_pred             eEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchh-hhhhhhHHHHHHHHHhhhhhh
Confidence            99999999999999999999999999988788889999999997 667788888888887765544

>cd01864 Rab19 Rab19 subfamily

Probab=99.97  E-value=6.2e-30  Score=172.43  Aligned_cols=139  Identities=48%  Similarity=0.887  Sum_probs=123.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      +.+||+++|++|+|||||++++..+.+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++++|++++
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~ll   81 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAII   81 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            46899999999999999999999988887777887777777778888888899999999999999889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV  153 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~  153 (160)
                      |||++++.+++.+..|+..+......++|+++++||+|+. ..++...+++.++++.+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~-~~~~~~~~~~~~~~~~~~~  140 (165)
T cd01864          82 AYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLE-EQREVLFEEACTLAEKNGM  140 (165)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccc-cccccCHHHHHHHHHHcCC
Confidence            9999999999999999999987766689999999999997 4456677888888888764

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.

>cd01868 Rab11_like Rab11-like

Probab=99.97  E-value=1e-29  Score=171.28  Aligned_cols=142  Identities=49%  Similarity=0.871  Sum_probs=125.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..+||+++|+++||||||++++.++.+...+.++.+.++....+..++..+.+.+||+||+.++..++..+++.++++++
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~   81 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALL   81 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEE
Confidence            45899999999999999999999998887778888888888888888888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |||++++.+++.+.+|+..+......+.|+++++||.|+. ..+.+..++.++++...++.++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  143 (165)
T cd01868          82 VYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLR-HLRAVPTEEAKAFAEKNGLSFI  143 (165)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-ccccCCHHHHHHHHHHcCCEEE
Confidence            9999999999999999999988777679999999999997 4456677788888887665444

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>cd01866 Rab2 Rab2 subfamily

Probab=99.97  E-value=1.3e-29  Score=171.37  Aligned_cols=144  Identities=49%  Similarity=0.888  Sum_probs=126.4

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      .+.+||+++|.+++|||||++++.++.+...+.++.+.++....+..++....+.+||++|++++..+...+++++|+++
T Consensus         2 ~~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il   81 (168)
T cd01866           2 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGAL   81 (168)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEE
Confidence            46689999999999999999999999887777778777777777888888889999999999999988889999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|||++++++++.+..|+..+......+.|+++++||.|+. ....+..++++.++.+.++.++.
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e  145 (168)
T cd01866          82 LVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLE-SRREVSYEEGEAFAKEHGLIFME  145 (168)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc-cccCCCHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999988765689999999999997 34566778888888887766553

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

>cd04110 Rab35 Rab35 subfamily

Probab=99.97  E-value=1.9e-29  Score=175.06  Aligned_cols=144  Identities=56%  Similarity=0.936  Sum_probs=125.3

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      ++..+||+++|++|+|||||++++.+..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++.+++++
T Consensus         3 ~~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~i   82 (199)
T cd04110           3 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGV   82 (199)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEE
Confidence            45679999999999999999999999988877888888777777777788888999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++|||++++++|+.+..|+..+..... ..|++|++||+|+. ....+..+++.+++...++.++.
T Consensus        83 ilv~D~~~~~s~~~~~~~~~~i~~~~~-~~piivVgNK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e  146 (199)
T cd04110          83 IVVYDVTNGESFVNVKRWLQEIEQNCD-DVCKVLVGNKNDDP-ERKVVETEDAYKFAGQMGISLFE  146 (199)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECcccc-cccccCHHHHHHHHHHcCCEEEE
Confidence            999999999999999999999877654 78999999999997 44556677888888887765443

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.97  E-value=1e-29  Score=173.13  Aligned_cols=142  Identities=26%  Similarity=0.522  Sum_probs=120.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++..+.+...+.++.+..+. ..+..++..+.+.+||++|++++..++..+++++|++++||
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~   80 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCF   80 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEE
Confidence            69999999999999999999999998888888875543 45677888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcc-e--EEEEee
Q 031411           96 DVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQ-V--HLVILK  159 (160)
Q Consensus        96 d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~-~--~~~~~k  159 (160)
                      |.+++++|+.+. .|+..+....+ +.|+++++||+|+.+.           .+.+..+++++++++.+ +  ..+|||
T Consensus        81 d~~~~~s~~~~~~~w~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~  158 (175)
T cd01874          81 SVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSAL  158 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCC
Confidence            999999999997 59988877654 7899999999998643           25677888999998876 3  445543

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

>cd04128 Spg1 Spg1p

Probab=99.97  E-value=7.5e-30  Score=174.74  Aligned_cols=143  Identities=28%  Similarity=0.574  Sum_probs=121.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|+.++|||||++++..+.+...+.++.+.++....+..++..+.+.+||++|++++..++..+++++|++++||
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~   80 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMF   80 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEE
Confidence            58999999999999999999999998888899988887778888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC----ccCCChhHHHHHhhhcceE--EEEee
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES----KREAPFCLHETILLTVQVH--LVILK  159 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~----~~~~~~~~~~~~~~~~~~~--~~~~k  159 (160)
                      |++++.+|+.+.+|+..+.+..+...| ++++||+|+...    ......++++++++.+++.  .+|||
T Consensus        81 D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk  149 (182)
T cd04128          81 DLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTS  149 (182)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCC
Confidence            999999999999999999877665677 578999999521    1222346788888887754  45554

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.97  E-value=1.2e-29  Score=173.18  Aligned_cols=143  Identities=47%  Similarity=0.889  Sum_probs=123.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC----------CEEEEEEEecCCCcccccccch
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD----------GKRIKLQIWDTAGQERFRTITT   82 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~D~~g~~~~~~~~~   82 (160)
                      ++.+||+++|+++||||||++++.++.+...+.++.+.++....+...          +..+.+.+||++|++++..++.
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   81 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTT   81 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHH
Confidence            456999999999999999999999999988888888877766555553          4568999999999999999999


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           83 AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      .+++++|++++|||++++++|+.+..|+..+.... ..+.|+++++||+|+. ..+.+..+++++++.++++.++
T Consensus        82 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  155 (180)
T cd04127          82 AFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLE-DQRQVSEEQAKALADKYGIPYF  155 (180)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccch-hcCccCHHHHHHHHHHcCCeEE
Confidence            99999999999999999999999999999997754 3478999999999997 4456677889999998876543

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.97  E-value=1.1e-29  Score=172.48  Aligned_cols=140  Identities=28%  Similarity=0.476  Sum_probs=121.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|.+|+|||||++++..+.+...+.++.+..+ ...+..++..+.+.+||++|+.++..++..++.++|++++|
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv   80 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIIC   80 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEE
Confidence            47999999999999999999999998877777776433 44567788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ||.+++.+|+.+..|+..+.+.. ..++|+++++||+|+. ..+++..++++++++++++.++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~-~~~~v~~~~~~~~a~~~~~~~~  142 (172)
T cd04141          81 YSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLE-SQRQVTTEEGRNLAREFNCPFF  142 (172)
T ss_pred             EECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhh-hcCccCHHHHHHHHHHhCCEEE
Confidence            99999999999999988887653 3579999999999997 4466788899999998887665

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.97  E-value=1.6e-29  Score=169.65  Aligned_cols=142  Identities=46%  Similarity=0.811  Sum_probs=125.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++++|++++||
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEE
Confidence            58999999999999999999999988877888887777777888888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      |++++++++.+..|+..+......+.|+++++||.|+. ....+..+++..++...++.++..
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~~~  142 (161)
T cd04113          81 DITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLA-DQREVTFLEASRFAQENGLLFLET  142 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcc-hhccCCHHHHHHHHHHcCCEEEEE
Confidence            99999999999999999887776789999999999997 355677888888888887655543

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.97  E-value=1e-29  Score=178.34  Aligned_cols=140  Identities=23%  Similarity=0.496  Sum_probs=120.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      ++||+|+|++++|||||++++..+.+...+.++.+..+. ..+..++..+.+.+||++|++.|..++..+++++|++++|
T Consensus         1 ~~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illv   79 (222)
T cd04173           1 RCKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLIC   79 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEE
Confidence            479999999999999999999999999888888875553 5677888899999999999999999999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcce-EEE
Q 031411           95 YDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQV-HLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~~-~~~  156 (160)
                      ||++++++|+.+. .|...+....+ +.|+++|+||+|+.++           ...+..++++++++++++ .|+
T Consensus        80 fdis~~~Sf~~i~~~w~~~~~~~~~-~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~  153 (222)
T cd04173          80 FDISRPETLDSVLKKWQGETQEFCP-NAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYV  153 (222)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEE
Confidence            9999999999994 57777765554 7999999999999642           124778899999999985 453

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=1.7e-29  Score=177.56  Aligned_cols=140  Identities=27%  Similarity=0.514  Sum_probs=121.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++|||||||++++..+.+...+.++.+.++....+..++..+.+.+||++|++++..++..++++++++|
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   90 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAI   90 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEE
Confidence            67799999999999999999999999998888889888877777777777899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +|||.+++.+|+.+..|+..+.+... +.|+++++||+|+.+  ..+..+++ +++...++.|+
T Consensus        91 lvfD~~~~~s~~~i~~w~~~i~~~~~-~~piilvgNK~Dl~~--~~v~~~~~-~~~~~~~~~~~  150 (219)
T PLN03071         91 IMFDVTARLTYKNVPTWHRDLCRVCE-NIPIVLCGNKVDVKN--RQVKAKQV-TFHRKKNLQYY  150 (219)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhhhh--ccCCHHHH-HHHHhcCCEEE
Confidence            99999999999999999999987654 799999999999953  23334444 67777666554

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.97  E-value=1.3e-29  Score=172.43  Aligned_cols=142  Identities=29%  Similarity=0.554  Sum_probs=121.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|+++||||||+.++..+.+...+.++.. +.+...+..++..+++.+|||+|++.+..++..+++++|++|+||
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICF   80 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcce-eeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEE
Confidence            6999999999999999999999998888777775 344456677888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCc-----------cCCChhHHHHHhhhcce---EEEEee
Q 031411           96 DVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESK-----------REAPFCLHETILLTVQV---HLVILK  159 (160)
Q Consensus        96 d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-----------~~~~~~~~~~~~~~~~~---~~~~~k  159 (160)
                      |++++++|+.+. .|+..+....+ +.|+++++||+|+.+..           ..+..++++++++++++   ..+|||
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~  158 (174)
T cd01871          81 SLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL  158 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeccc
Confidence            999999999996 69888876654 79999999999996432           35788999999999885   445554

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.97  E-value=2.1e-29  Score=169.76  Aligned_cols=140  Identities=29%  Similarity=0.673  Sum_probs=123.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++++|++++||
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVY   80 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEE
Confidence            58999999999999999999999998888898888887788888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC-----CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHAS-----DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~-----~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |.+++++++.+..|+..+.....     .+.|+++++||+|+.+ ......++.++++.+.++.++
T Consensus        81 D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~  145 (168)
T cd04119          81 DVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTK-HRAVSEDEGRLWAESKGFKYF  145 (168)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhccc-ccccCHHHHHHHHHHcCCeEE
Confidence            99999999999999999987653     4689999999999963 456677888888887765443

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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.97  E-value=3.4e-29  Score=169.80  Aligned_cols=140  Identities=36%  Similarity=0.677  Sum_probs=120.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      ||+++|+++||||||++++..+.+...+.++.+.++....+..++..+.+.+||++|++++..++..+++++|++++|||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   81 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFD   81 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEE
Confidence            79999999999999999999999998888998888877788888888999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCcc-CCChhHHHHHhhhcceEEE
Q 031411           97 VTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKR-EAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~-~~~~~~~~~~~~~~~~~~~  156 (160)
                      ++++++++.+..|+..+.+. .+.+.|+++|+||.|+.+... ....+++++++.++++.++
T Consensus        82 ~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  143 (170)
T cd04108          82 LTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYW  143 (170)
T ss_pred             CcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEE
Confidence            99999999999999998654 345678999999999964422 3445667788887766433

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

>PLN03110 Rab GTPase; Provisional

Probab=99.97  E-value=4.4e-29  Score=175.17  Aligned_cols=146  Identities=45%  Similarity=0.843  Sum_probs=129.9

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      +.++.+||+++|++++|||||+++|.++.+...+.++.+.++....+..++..+.+.+||++|++++..++..+++++++
T Consensus         8 ~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~   87 (216)
T PLN03110          8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (216)
T ss_pred             ccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCE
Confidence            35577999999999999999999999998887788888888888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +++|||++++.+|+.+..|+..+......++|+++++||+|+. ..+.+..++++.++..+++.++.
T Consensus        88 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~-~~~~~~~~~~~~l~~~~~~~~~e  153 (216)
T PLN03110         88 ALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLN-HLRSVAEEDGQALAEKEGLSFLE  153 (216)
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcc-cccCCCHHHHHHHHHHcCCEEEE
Confidence            9999999999999999999999988776789999999999996 45667778888998887765554

>cd04125 RabA_like RabA-like subfamily

Probab=99.97  E-value=4.5e-29  Score=171.65  Aligned_cols=140  Identities=47%  Similarity=0.830  Sum_probs=123.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||++|++.+...+..+++++|++++||
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~   80 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVY   80 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEE
Confidence            48999999999999999999999988777888887777777888888899999999999999989999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |++++++|+.+..|+..+......+.|+++++||.|+. ....+..+++++++...++.++
T Consensus        81 d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  140 (188)
T cd04125          81 DVTDQESFENLKFWINEINRYARENVIKVIVANKSDLV-NNKVVDSNIAKSFCDSLNIPFF  140 (188)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCc-ccccCCHHHHHHHHHHcCCeEE
Confidence            99999999999999999988766678999999999997 4455677788888887765443

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.97  E-value=4.3e-29  Score=167.76  Aligned_cols=142  Identities=53%  Similarity=0.923  Sum_probs=125.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++.+..+.....++.+.++....+..++..+.+.+||+||+..+...+..+++.+|++++||
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEE
Confidence            58999999999999999999999888777888888777778888888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      |++++.+++.+..|+..+..+...++|+++++||+|+. ...+...+++++++..+++.++..
T Consensus        81 d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~e~  142 (164)
T smart00175       81 DITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLE-DQRQVSREEAEAFAEEHGLPFFET  142 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcc-cccCCCHHHHHHHHHHcCCeEEEE
Confidence            99999999999999999988775689999999999986 345667788888988877765543

Rab GTPases are implicated in vesicle trafficking.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.97  E-value=3.6e-29  Score=167.97  Aligned_cols=139  Identities=37%  Similarity=0.669  Sum_probs=121.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC--CEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD--GKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      +||+++|++++|||||++++..+.+...+.++.+.++....+...  +..+.+.+||+||++++..++..+++++|++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            489999999999999999999998887778888877766666666  677899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |||++++++++.+..|+..+..... ++|+++++||+|+. ....+..+++++++...++.++
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~~-~~p~iiv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  141 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAECG-DIPMVLVQTKIDLL-DQAVITNEEAEALAKRLQLPLF  141 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhcc-cccCCCHHHHHHHHHHcCCeEE
Confidence            9999999999999999999876655 79999999999996 3445667888889988876554

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.97  E-value=6.1e-29  Score=168.26  Aligned_cols=139  Identities=38%  Similarity=0.679  Sum_probs=122.7

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +..+||+++|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++++..++..+++++|+++
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i   82 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCL   82 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEE
Confidence            46699999999999999999999999988877788887777777888998999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA----SDNVNKILVGNKADMDESKREAPFCLHETILLTVQV  153 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~----~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~  153 (160)
                      +|||.+++++++.+..|+..+....    ..+.|+++++||+|+.  ...+..+++++++.++++
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~~~  145 (170)
T cd04116          83 LTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP--ERQVSTEEAQAWCRENGD  145 (170)
T ss_pred             EEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc--ccccCHHHHHHHHHHCCC
Confidence            9999999999999999999886644    2468999999999995  456678889999988764

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.97  E-value=5.4e-29  Score=167.20  Aligned_cols=138  Identities=33%  Similarity=0.573  Sum_probs=117.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|+|||||++++..+.+...+.++.+ +.....+..++..+.+.+||++|++++..++..+++++|++++||
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVY   80 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEE
Confidence            7999999999999999999999888777667665 344566777888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHL  155 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~  155 (160)
                      |.+++.+++.+..|+..+.... ..+.|+++++||+|+.+ ...+..+++.++++.+++.+
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~  140 (163)
T cd04136          81 SITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLED-ERVVSREEGQALARQWGCPF  140 (163)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc-cceecHHHHHHHHHHcCCeE
Confidence            9999999999999999987754 35789999999999963 44566677788888766543

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.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.97  E-value=8.1e-29  Score=167.85  Aligned_cols=141  Identities=45%  Similarity=0.848  Sum_probs=122.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccc-ccchhhccCCcEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR-TITTAYYRGAMGILL   93 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~-~~~~~~~~~~~~~i~   93 (160)
                      .+||+++|++|+|||||++++..+.+...+.++.+.++....+..++..+.+.+||++|++.+. .++..+++++|++++
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~   81 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVF   81 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEE
Confidence            5899999999999999999999998887788888877777788888888999999999998876 577888999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |||++++++++.+..|+..+.... ..++|+++++||+|+. ....+..+++++++...++.++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  144 (170)
T cd04115          82 VYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLR-EQIQVPTDLAQRFADAHSMPLF  144 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccch-hhcCCCHHHHHHHHHHcCCcEE
Confidence            999999999999999999997764 3579999999999997 4566677888889888765554

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

>cd04109 Rab28 Rab28 subfamily

Probab=99.97  E-value=7.7e-29  Score=173.90  Aligned_cols=143  Identities=33%  Similarity=0.566  Sum_probs=124.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECC-EEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG-KRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      +||+++|++++|||||+++|..+.+...+.++.+.++....+..++ ..+.+.+||++|++.+..++..+++++|++++|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV   80 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLV   80 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEE
Confidence            5899999999999999999999999888899999888877777754 568999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEE--EEee
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHAS---DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHL--VILK  159 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~---~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~--~~~k  159 (160)
                      ||++++++|+.+..|+..+.+...   .+.|+++++||+|+. ..+.+..+++++++..+++.+  +|||
T Consensus        81 ~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~-~~~~v~~~~~~~~~~~~~~~~~~iSAk  149 (215)
T cd04109          81 YDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLE-HNRTVKDDKHARFAQANGMESCLVSAK  149 (215)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccc-cccccCHHHHHHHHHHcCCEEEEEECC
Confidence            999999999999999999987643   356899999999996 456677888999998887544  4543

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.97  E-value=8.7e-29  Score=170.70  Aligned_cols=141  Identities=50%  Similarity=0.901  Sum_probs=121.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      +||+++|++++|||||++++..+.+.. .+.++.+.++....+.+++..+.+.+||+||++++...+..++.++|++++|
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   80 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLL   80 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEE
Confidence            489999999999999999999988753 5667777666666778888889999999999999988888999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||++++++++.+..|+..+......++|+++++||+|+. ..+.+..+++++++..+++.++.
T Consensus        81 ~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~-~~~~~~~~~~~~l~~~~~~~~~e  142 (191)
T cd04112          81 YDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMS-GERVVKREDGERLAKEYGVPFME  142 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccch-hccccCHHHHHHHHHHcCCeEEE
Confidence            999999999999999999988776789999999999996 34556677888888887655443

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.

>cd01861 Rab6 Rab6 subfamily

Probab=99.97  E-value=1.2e-28  Score=165.27  Aligned_cols=140  Identities=37%  Similarity=0.697  Sum_probs=123.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|+++||||||++++.+..+...+.++.+.++....+..++..+.+.+||+||+.++..++..++.++|++++||
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~   80 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEE
Confidence            48999999999999999999999988888888888888888888888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |++++++|+.+..|+..+......+.|+++++||+|+. .......++...++...++.++
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~  140 (161)
T cd01861          81 DITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLS-DKRQVSTEEGEKKAKELNAMFI  140 (161)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhcc-ccCccCHHHHHHHHHHhCCEEE
Confidence            99999999999999999876655579999999999996 4455677778888877765544

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

>PLN03108 Rab family protein; Provisional

Probab=99.97  E-value=1.5e-28  Score=171.87  Aligned_cols=146  Identities=47%  Similarity=0.833  Sum_probs=128.2

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      .++.+||+++|++++|||||++++....+...+.++.+.++....+..++..+.+.+||++|++.+..++..++..+|++
T Consensus         3 ~~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~   82 (210)
T PLN03108          3 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGA   82 (210)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEE
Confidence            34679999999999999999999999888877778888777777788888888999999999999998899999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      ++|||++++++++.+.+|+..+......+.|+++++||+|+. ....+..++++++++++++.++..
T Consensus        83 vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~  148 (210)
T PLN03108         83 LLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLA-HRRAVSTEEGEQFAKEHGLIFMEA  148 (210)
T ss_pred             EEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCc-cccCCCHHHHHHHHHHcCCEEEEE
Confidence            999999999999999999998877766689999999999997 445677888999999888766543

>cd04111 Rab39 Rab39 subfamily

Probab=99.97  E-value=1.1e-28  Score=172.53  Aligned_cols=142  Identities=44%  Similarity=0.777  Sum_probs=123.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEE-CCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      .+||+++|++++|||||++++.++.+...+.++.+.++....+.. ++..+.+.+||++|++++..++..+++++|++++
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iil   81 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLL   81 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEE
Confidence            589999999999999999999999888777888887777777766 4667899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |||++++++|+.+.+|+..+..... ...|++|++||+|+. ....+..+++.++++.+++.++.
T Consensus        82 v~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~-~~~~v~~~~~~~~~~~~~~~~~e  145 (211)
T cd04111          82 VFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLE-SQRQVTREEAEKLAKDLGMKYIE  145 (211)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccc-cccccCHHHHHHHHHHhCCEEEE
Confidence            9999999999999999999977643 467899999999997 45667788899999988766554

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.97  E-value=1.3e-28  Score=165.76  Aligned_cols=139  Identities=32%  Similarity=0.576  Sum_probs=117.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|+|||||++++..+.+...+.++.+..+ ...+..++..+.+.+||++|++++..++..+++++|++++||
T Consensus         2 ~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVY   80 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEE
Confidence            6999999999999999999998888776667665433 456777888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |.+++.+|+.+.+|+..+.... ..+.|+++++||+|+.+ ......++++++++..++.++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~  141 (164)
T cd04175          81 SITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED-ERVVGKEQGQNLARQWGCAFL  141 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchh-ccEEcHHHHHHHHHHhCCEEE
Confidence            9999999999999999987653 35799999999999973 344566667888877766544

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.97  E-value=1.7e-28  Score=164.92  Aligned_cols=140  Identities=31%  Similarity=0.538  Sum_probs=118.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      ++||+++|.+|+|||||++++..+.+...+.++.+ +.....+..++..+.+.+||++|++++..++..+++++|++++|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   79 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEE
Confidence            37999999999999999999999988877766664 45556677788888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ||.+++.+++.+..|+..+.... ..++|+++++||+|+.+ ...+..++...++...++.++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~  141 (163)
T cd04176          80 YSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLES-EREVSSAEGRALAEEWGCPFM  141 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchh-cCccCHHHHHHHHHHhCCEEE
Confidence            99999999999999999987754 35789999999999963 445666678888877766544

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.97  E-value=8.9e-29  Score=179.70  Aligned_cols=146  Identities=23%  Similarity=0.423  Sum_probs=124.9

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC-------------CEEEEEEEecCCCccc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD-------------GKRIKLQIWDTAGQER   76 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~D~~g~~~   76 (160)
                      .+....+||+|+|+.+||||||++++.++.+...+.++.+.++....+.++             +..+.+.|||++|+++
T Consensus        16 ~~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqEr   95 (334)
T PLN00023         16 GPPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHER   95 (334)
T ss_pred             CCCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChh
Confidence            445567999999999999999999999999888888888887776666654             2468899999999999


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcC------------CCCcEEEEEeCCCCCCCc--cC---C
Q 031411           77 FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS------------DNVNKILVGNKADMDESK--RE---A  139 (160)
Q Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~------------~~~pi~vv~~K~Dl~~~~--~~---~  139 (160)
                      +..++..++++++++|+|||++++.+|+.+.+|+..+..+..            .++|++||+||+||.++.  +.   +
T Consensus        96 frsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~  175 (334)
T PLN00023         96 YKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGN  175 (334)
T ss_pred             hhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccccccccc
Confidence            999999999999999999999999999999999999987631            258999999999996442  22   3


Q ss_pred             ChhHHHHHhhhcceEE
Q 031411          140 PFCLHETILLTVQVHL  155 (160)
Q Consensus       140 ~~~~~~~~~~~~~~~~  155 (160)
                      ..+++++||+++++..
T Consensus       176 ~~e~a~~~A~~~g~l~  191 (334)
T PLN00023        176 LVDAARQWVEKQGLLP  191 (334)
T ss_pred             cHHHHHHHHHHcCCCc
Confidence            6899999999988654

>PTZ00369 Ras-like protein; Provisional

Probab=99.97  E-value=2.2e-28  Score=168.43  Aligned_cols=139  Identities=33%  Similarity=0.528  Sum_probs=119.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|+|||||++++..+.+...+.++.+..+ ...+.+++..+.+.+|||+|++++..++..+++++|++++|
T Consensus         5 ~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv   83 (189)
T PTZ00369          5 EYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCV   83 (189)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEE
Confidence            48999999999999999999999988777777776444 45667788888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHL  155 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~  155 (160)
                      ||++++++|+.+..|+..+.+.. ..++|+++++||+|+. ....+..+++.+++..+++.+
T Consensus        84 ~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~-~~~~i~~~~~~~~~~~~~~~~  144 (189)
T PTZ00369         84 YSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLD-SERQVSTGEGQELAKSFGIPF  144 (189)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-cccccCHHHHHHHHHHhCCEE
Confidence            99999999999999999987654 3578999999999996 445566777888888776543

>cd04126 Rab20 Rab20 subfamily

Probab=99.96  E-value=1.7e-28  Score=172.12  Aligned_cols=132  Identities=30%  Similarity=0.586  Sum_probs=112.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|.+++|||||++++..+.+.. +.++.+.++....+    ..+.+.+||++|++.+..++..+++++|++|+||
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~   75 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTY   75 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEE
Confidence            589999999999999999999998864 45666655443322    3478999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC------------------CccCCChhHHHHHhhhcc
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE------------------SKREAPFCLHETILLTVQ  152 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~------------------~~~~~~~~~~~~~~~~~~  152 (160)
                      |++++++|+.+..|+..+.+....+.|+++|+||+|+.+                  ..+.+..+++++++++.+
T Consensus        76 Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~  150 (220)
T cd04126          76 DVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRIN  150 (220)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhC
Confidence            999999999999998888776556789999999999964                  257788999999999876

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.96  E-value=1.4e-28  Score=170.51  Aligned_cols=141  Identities=22%  Similarity=0.404  Sum_probs=116.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC-----CEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD-----GKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      +||+++|+.++|||||++++.++.+...+.++.+.++....+.++     +..+.+.+||++|++++..++..+++++|+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~   80 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNG   80 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCE
Confidence            589999999999999999999999988888888877766666653     467899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhc-------------------CCCCcEEEEEeCCCCCCCccCCChh----HHHHH
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHA-------------------SDNVNKILVGNKADMDESKREAPFC----LHETI  147 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~-------------------~~~~pi~vv~~K~Dl~~~~~~~~~~----~~~~~  147 (160)
                      +|+|||++++.+|+.+..|+.++....                   ..++|++|||||+|+.+ .+.+..+    ....+
T Consensus        81 iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~-~r~~~~~~~~~~~~~i  159 (202)
T cd04102          81 IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIP-EKESSGNLVLTARGFV  159 (202)
T ss_pred             EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchh-hcccchHHHhhHhhhH
Confidence            999999999999999999999997631                   24689999999999963 2333332    34566


Q ss_pred             hhhcceEEEE
Q 031411          148 LLTVQVHLVI  157 (160)
Q Consensus       148 ~~~~~~~~~~  157 (160)
                      +.+.++..+.
T Consensus       160 a~~~~~~~i~  169 (202)
T cd04102         160 AEQGNAEEIN  169 (202)
T ss_pred             HHhcCCceEE
Confidence            6677766554

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.96  E-value=2.9e-28  Score=163.81  Aligned_cols=139  Identities=32%  Similarity=0.551  Sum_probs=115.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++.++.+.+.+.++.+.+........++..+.+.+||++|++++..++..+++++|++++||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVF   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999999888777677666666666777888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce--EEEEee
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV--HLVILK  159 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~--~~~~~k  159 (160)
                      |.+++.+++.+..|+..+.+..+ +.|+++++||+|+.+.    ..++..+++...++  ..+|+|
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~-~~p~ivv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~Sa~  141 (161)
T cd04124          81 DVTRKITYKNLSKWYEELREYRP-EIPCIVVANKIDLDPS----VTQKKFNFAEKHNLPLYYVSAA  141 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEECccCchh----HHHHHHHHHHHcCCeEEEEeCC
Confidence            99999999999999999977554 7899999999998522    23445666666554  344443

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.96  E-value=5.7e-28  Score=162.27  Aligned_cols=142  Identities=42%  Similarity=0.724  Sum_probs=123.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++++|||||++++.++.+.....++.+..+....+..++..+.+.+||+||++++...+..+++++|++++|
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   80 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVV   80 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEE
Confidence            37999999999999999999999988776777777667777888888889999999999999988888899999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|++++++++.+..|+..+......+.|+++++||+|+. .......++..+++..+++.++.
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~~  142 (163)
T cd01860          81 YDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLE-SKRQVSTEEAQEYADENGLLFFE  142 (163)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-ccCcCCHHHHHHHHHHcCCEEEE
Confidence            999999999999999999988765689999999999987 34556777888888887755443

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

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

Probab=99.96  E-value=1.7e-29  Score=164.00  Aligned_cols=146  Identities=45%  Similarity=0.778  Sum_probs=132.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEE-CCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      .+.++++++|++-+|||+|++.+..+++.+-.+|+.+.+++...+.. .|.++++++|||.|++++..+..+++++.-++
T Consensus         6 ~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgv   85 (213)
T KOG0091|consen    6 HYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGV   85 (213)
T ss_pred             EEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccce
Confidence            46789999999999999999999999999999999999998887777 57789999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEee
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHA--SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVILK  159 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~--~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~k  159 (160)
                      +++||+++.++|+.+..|+.+...+.  +..+-+.+||+|+||. ..++++.+|++++++.+++.|+...
T Consensus        86 llvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~-SqRqVt~EEaEklAa~hgM~FVETS  154 (213)
T KOG0091|consen   86 LLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQ-SQRQVTAEEAEKLAASHGMAFVETS  154 (213)
T ss_pred             EEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchh-hhccccHHHHHHHHHhcCceEEEec
Confidence            99999999999999999999986654  3344567789999998 8899999999999999999998653

>cd04118 Rab24 Rab24 subfamily

Probab=99.96  E-value=6.4e-28  Score=166.51  Aligned_cols=140  Identities=29%  Similarity=0.613  Sum_probs=118.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      +||+++|++++|||||++++..+.+.. .+.++.+..+....+..++..+.+.+||++|++++..++..++.++|++++|
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv   80 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVC   80 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEE
Confidence            489999999999999999999988864 5677777677677788899889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc---cCCChhHHHHHhhhcceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK---REAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~---~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ||++++++++.+..|+..+..... +.|+++++||+|+.+..   ..+..+++++++..+++.++
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~  144 (193)
T cd04118          81 YDLTDSSSFERAKFWVKELQNLEE-HCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHF  144 (193)
T ss_pred             EECCCHHHHHHHHHHHHHHHhcCC-CCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEE
Confidence            999999999999999999877544 78999999999985432   35556778888877665433

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.96  E-value=3.2e-28  Score=167.63  Aligned_cols=141  Identities=28%  Similarity=0.537  Sum_probs=117.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      ||+++|++|+|||||++++..+.+...+.++.+..+ ...+..++..+.+.+||++|++.+..++..++.++|++++|||
T Consensus         2 kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~-~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~d   80 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENY-VHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFS   80 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeee-EEEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEE
Confidence            899999999999999999999998887777776554 3455667878899999999999999999899999999999999


Q ss_pred             CCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCcc-----------CCChhHHHHHhhhcc-e--EEEEee
Q 031411           97 VTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESKR-----------EAPFCLHETILLTVQ-V--HLVILK  159 (160)
Q Consensus        97 ~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~-----------~~~~~~~~~~~~~~~-~--~~~~~k  159 (160)
                      ++++++|+.+. .|+..+....+ +.|+++++||+|+.+...           .+..+++.+++.+.+ +  ..+|||
T Consensus        81 v~~~~sf~~~~~~~~~~i~~~~~-~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk  157 (189)
T cd04134          81 VDSPDSLENVESKWLGEIREHCP-GVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAK  157 (189)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCC
Confidence            99999999986 59998887654 799999999999964321           356677888888766 3  344554

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.

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

Probab=99.96  E-value=7.9e-28  Score=162.50  Aligned_cols=140  Identities=29%  Similarity=0.625  Sum_probs=117.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|||||||++++..+.+...+.++.+.+.....+..++..+.+.+||++|++.+..++..++..+|++++||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMF   80 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEE
Confidence            48999999999999999999988888777888877776666677788899999999999999998899999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce--EEEEee
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV--HLVILK  159 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~--~~~~~k  159 (160)
                      |.+++++++.+..|+..+..... +.|+++++||+|+.+  ..+. .+..+++...++  ..+|||
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~~--~~~~-~~~~~~~~~~~~~~~e~Sa~  142 (166)
T cd00877          81 DVTSRVTYKNVPNWHRDLVRVCG-NIPIVLCGNKVDIKD--RKVK-AKQITFHRKKNLQYYEISAK  142 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhccc--ccCC-HHHHHHHHHcCCEEEEEeCC
Confidence            99999999999999999988766 899999999999962  2222 345566666554  444443

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.96  E-value=2.7e-28  Score=167.57  Aligned_cols=136  Identities=29%  Similarity=0.602  Sum_probs=114.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC-CEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD-GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      +||+++|++++|||||++++.++.+...+.++.+.++. ..+... +..+.+.+||++|++++..++..+++++|++++|
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v   79 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYV-TNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLIC   79 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeE-EEEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEE
Confidence            48999999999999999999999988777777765543 334454 6778999999999999999999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCc---cCCChhHHHHHhhhcce
Q 031411           95 YDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESK---REAPFCLHETILLTVQV  153 (160)
Q Consensus        95 ~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~---~~~~~~~~~~~~~~~~~  153 (160)
                      ||.+++++|+.+. .|+..+....+ +.|+++++||+|+.+..   ..+..+++++++..+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~  141 (187)
T cd04132          80 YAVDNPTSLDNVEDKWFPEVNHFCP-GTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGA  141 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCC
Confidence            9999999999996 48888876544 78999999999986332   35677889999988876

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.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.96  E-value=4.8e-28  Score=164.50  Aligned_cols=136  Identities=30%  Similarity=0.565  Sum_probs=116.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +|++++|++|+|||||++++..+.+...+.++. .+.....+..++..+.+.+||++|++++..++..+++++|++++||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~   79 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTA-FDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCF   79 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCce-eeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEE
Confidence            589999999999999999999988887777765 3455556778888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcce
Q 031411           96 DVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQV  153 (160)
Q Consensus        96 d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~~  153 (160)
                      |.+++++|+.+. .|+..+....+ +.|+++++||+|+.+.           .+.+..+++++++++.++
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~  148 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKHNP-KAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGA  148 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCC
Confidence            999999999985 68888876443 7899999999999643           456788889999998765

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,

>cd04144 Ras2 Ras2 subfamily

Probab=99.96  E-value=2.8e-28  Score=168.03  Aligned_cols=139  Identities=27%  Similarity=0.506  Sum_probs=117.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      ||+++|.+|+|||||++++..+.+...+.++.+..+ ......++..+.+.+||++|++++..++..+++++|++++|||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS   79 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEE
Confidence            589999999999999999999888777777766433 3456677888899999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           97 VTDESSFNNIRNWIRNIEQHAS---DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~---~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      .+++.+|+.+..|+..+.....   .+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~-~~~~v~~~~~~~~~~~~~~~~~e  142 (190)
T cd04144          80 ITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKV-YEREVSTEEGAALARRLGCEFIE  142 (190)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhcc-ccCccCHHHHHHHHHHhCCEEEE
Confidence            9999999999999998876532   478999999999996 44566777788888887765443

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.

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

Probab=99.96  E-value=9e-28  Score=161.40  Aligned_cols=140  Identities=34%  Similarity=0.551  Sum_probs=117.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++++|||||++++.++.+...+.++.+.. .......++..+.+.+||+||++++..++..+++++|++++|
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   80 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDS-YTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLV   80 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccce-EEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEE
Confidence            4799999999999999999999988776666666533 345567788888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ||++++.+++.+..|+..+.+.. ..+.|+++++||+|+. ....+..+++.+++...++.++
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  142 (164)
T cd04145          81 FSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLE-HQRKVSREEGQELARKLKIPYI  142 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCcccc-ccceecHHHHHHHHHHcCCcEE
Confidence            99999999999999999987653 3578999999999997 3445666778888887665443

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.96  E-value=7.2e-28  Score=163.13  Aligned_cols=144  Identities=22%  Similarity=0.280  Sum_probs=118.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      .+.+||+++|++|+|||||++++.++.+. ..+.++.+..+....+..++..+.+.+||++|++.+..++..+++++|++
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~   81 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVA   81 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEE
Confidence            46799999999999999999999999987 77888887666666677788888999999999999988899999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce---EEEEee
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV---HLVILK  159 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~~k  159 (160)
                      ++|||++++.+++.+.+|+..+..  ..++|+++++||+|+.+. .....++.+++++.+++   ..+||+
T Consensus        82 llv~d~~~~~s~~~~~~~~~~~~~--~~~~p~iiv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~  149 (169)
T cd01892          82 CLVYDSSDPKSFSYCAEVYKKYFM--LGEIPCLFVAAKADLDEQ-QQRYEVQPDEFCRKLGLPPPLHFSSK  149 (169)
T ss_pred             EEEEeCCCHHHHHHHHHHHHHhcc--CCCCeEEEEEEccccccc-ccccccCHHHHHHHcCCCCCEEEEec
Confidence            999999999999999999886632  237899999999999633 33334456677777654   456654

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

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

Probab=99.96  E-value=9.6e-28  Score=160.72  Aligned_cols=138  Identities=30%  Similarity=0.517  Sum_probs=116.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|+|||||++++.++.+...+.++.+.. ....+..++..+.+.+||++|++++..++..++++++++++||
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~   80 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDS-YRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVF   80 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchhe-EEEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEE
Confidence            699999999999999999999988877777766533 3455677887788999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |.+++.+++.+..|+..+.+.. ..+.|+++++||+|+.+  .....+++.+++...++.++
T Consensus        81 ~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~  140 (162)
T cd04138          81 AINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA--RTVSSRQGQDLAKSYGIPYI  140 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc--ceecHHHHHHHHHHhCCeEE
Confidence            9999999999999999987764 35789999999999964  45566778888877765443

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.96  E-value=7.5e-28  Score=161.91  Aligned_cols=139  Identities=37%  Similarity=0.586  Sum_probs=116.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|+|||||++++.++.+...+.++.+ +........++..+.+.+||+||++++..++..++.++|++++||
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEE
Confidence            4899999999999999999999888776666665 334456677787889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |++++++++.+..|...+.+.. ..+.|+++++||+|+. ..+....+++.+++...++.++
T Consensus        80 d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  140 (164)
T smart00173       80 SITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLE-SERVVSTEEGKELARQWGCPFL  140 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccceEcHHHHHHHHHHcCCEEE
Confidence            9999999999999998887653 3478999999999997 3455666778888887775444

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.96  E-value=1.1e-27  Score=161.50  Aligned_cols=142  Identities=29%  Similarity=0.426  Sum_probs=117.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|+|||||++++.++.+...+.++.+..+ ...+..++..+.+.+||++|++++..++..++.+++++++||
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVY   80 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEE
Confidence            6899999999999999999999988777777665333 344566777789999999999999988888999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEE--EEee
Q 031411           96 DVTDESSFNNIRNWIRNIEQHAS---DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHL--VILK  159 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~---~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~--~~~k  159 (160)
                      |++++++++.+..|+..+.....   .++|+++++||+|+. ..+++..++++.++...++.+  +|||
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~e~SA~  148 (165)
T cd04140          81 SVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDES-HKREVSSNEGAACATEWNCAFMETSAK  148 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECcccc-ccCeecHHHHHHHHHHhCCcEEEeecC
Confidence            99999999999999888766432   478999999999997 345567777888888776544  4554

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.96  E-value=1.9e-27  Score=159.54  Aligned_cols=140  Identities=49%  Similarity=0.895  Sum_probs=121.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++.+..+.....++.+.++....+..++..+.+.+||+||++.+...+..+++++|+++++|
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999998887767777777777677777888889999999999999988899999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |++++.+++.+..|++.+..+. ..+.|+++++||+|+.  ......++..+++.++++.++.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~--~~~~~~~~~~~~~~~~~~~~~~  141 (161)
T cd01863          81 DVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKE--NREVTREEGLKFARKHNMLFIE  141 (161)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccc--ccccCHHHHHHHHHHcCCEEEE
Confidence            9999999999999999998775 3578999999999996  3455667888888888866554

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.96  E-value=8.4e-28  Score=166.55  Aligned_cols=143  Identities=22%  Similarity=0.369  Sum_probs=113.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc--------chhhccC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI--------TTAYYRG   87 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~--------~~~~~~~   87 (160)
                      +||+++|.++||||||++++.++.+...+.++.+.+.....+..++..+.+.+|||||...+...        ....+++
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~   80 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRN   80 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhcc
Confidence            58999999999999999999999988777787776665566777888899999999997544221        2234789


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhc---CCCCcEEEEEeCCCCCCCccCCChhHHHHHhh-hcce--EEEEee
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHA---SDNVNKILVGNKADMDESKREAPFCLHETILL-TVQV--HLVILK  159 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~---~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~-~~~~--~~~~~k  159 (160)
                      +|++++|||++++++|+.+..|+..+....   ..++|+++++||+|+.+ .+.+..++.++++. ..++  ..+|||
T Consensus        81 ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~e~Sak  157 (198)
T cd04142          81 SRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQR-HRFAPRHVLSVLVRKSWKCGYLECSAK  157 (198)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccc-cccccHHHHHHHHHHhcCCcEEEecCC
Confidence            999999999999999999999999887764   35799999999999973 34556666777764 4455  555654

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.

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

Probab=99.96  E-value=7.9e-28  Score=163.32  Aligned_cols=134  Identities=30%  Similarity=0.627  Sum_probs=114.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEEC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDV   97 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   97 (160)
                      |+++|++++|||||++++..+.+...+.++.... ....+..++..+.+.+||++|++.+..++..+++++|++++|||.
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~   79 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFEN-YSADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSV   79 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEee-eeEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEEC
Confidence            5899999999999999999999887777766543 345667788888999999999999999999999999999999999


Q ss_pred             CChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCc-----------cCCChhHHHHHhhhcce
Q 031411           98 TDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESK-----------REAPFCLHETILLTVQV  153 (160)
Q Consensus        98 ~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-----------~~~~~~~~~~~~~~~~~  153 (160)
                      +++++|+.+. .|+..+....+ +.|+++++||+|+.++.           ..+..++++++++++++
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  146 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFCP-NTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGA  146 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhCC-CCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCC
Confidence            9999999986 59998877655 79999999999996422           24777888999999875

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

>PLN03118 Rab family protein; Provisional

Probab=99.96  E-value=2.8e-27  Score=165.52  Aligned_cols=146  Identities=47%  Similarity=0.796  Sum_probs=121.6

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .++.+..+||+++|++++|||||++++....+. .+.++.+.++....+..++..+.+.+||+||++++..++..+++++
T Consensus         8 ~~~~~~~~kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~   86 (211)
T PLN03118          8 SSGYDLSFKILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNA   86 (211)
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcC
Confidence            455667899999999999999999999988764 4567777777777778888888999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHH-HHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           89 MGILLVYDVTDESSFNNIRN-WIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~-~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |++++|||++++++|+.+.. |...+.... ..+.|+++++||+|+. ....+..++..+++.++++.++
T Consensus        87 d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~-~~~~i~~~~~~~~~~~~~~~~~  155 (211)
T PLN03118         87 QGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRE-SERDVSREEGMALAKEHGCLFL  155 (211)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccCccCHHHHHHHHHHcCCEEE
Confidence            99999999999999999976 666665443 2467999999999997 3445677788888888877655

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.96  E-value=2.2e-27  Score=159.68  Aligned_cols=138  Identities=28%  Similarity=0.595  Sum_probs=114.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC--CCCCccccceeeeEEEEEEEEC-CEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG--SFTTSFITTIGIDFKIRTIELD-GKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +||+++|+++||||||++++..+  .+...+.++.+.++....+..+ +..+++.+||++|++.+..++..+++++|+++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            48999999999999999999864  5777778888777766666664 56789999999999999998999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHL  155 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~  155 (160)
                      +|||++++++++.+..|+..+..... +.|+++++||+|+. ...++...+++.++...++.+
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~  141 (164)
T cd04101          81 LVYDVSNKASFENCSRWVNKVRTASK-HMPGVLVGNKMDLA-DKAEVTDAQAQAFAQANQLKF  141 (164)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECcccc-cccCCCHHHHHHHHHHcCCeE
Confidence            99999999999999999999887653 68999999999996 334456666677776665543

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.

>cd04123 Rab21 Rab21 subfamily

Probab=99.96  E-value=4.1e-27  Score=157.64  Aligned_cols=140  Identities=37%  Similarity=0.714  Sum_probs=118.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++.++.+.....++.+.......+...+..+.+.+||++|+..+..++..++.++|++++||
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVY   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEE
Confidence            58999999999999999999998877666666655566666777777789999999999999989999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |++++++++.+..|+..+......+.|+++++||+|+. .......++..+++...++.++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~  140 (162)
T cd04123          81 DITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLE-RQRVVSKSEAEEYAKSVGAKHF  140 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccCCCHHHHHHHHHHcCCEEE
Confidence            99999999999999999988766689999999999997 4445566777777777665433

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.96  E-value=3.7e-27  Score=159.53  Aligned_cols=136  Identities=39%  Similarity=0.711  Sum_probs=117.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++.+..+.....++.+.++....+..++..+.+.+||+||++.+..++..+++++|+++++|
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVY   80 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999887777777777777777888888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc
Q 031411           96 DVTDESSFNNIRNWIRNIEQHAS----DNVNKILVGNKADMDESKREAPFCLHETILLTVQ  152 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~----~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~  152 (160)
                      |++++.+++.+..|...+.....    .+.|+++++||+|+.+ ......++.+.++...+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~  140 (172)
T cd01862          81 DVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEE-KRQVSTKKAQQWCQSNG  140 (172)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECccccc-ccccCHHHHHHHHHHcC
Confidence            99999999999999888755432    3789999999999973 45556777788887765

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-

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.96  E-value=1.9e-27  Score=169.62  Aligned_cols=142  Identities=25%  Similarity=0.388  Sum_probs=118.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++..+.+...+.++.+ ++....+..++..+.+.+|||+|++.+..++..++..+|++++||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVf   79 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVF   79 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEE
Confidence            4899999999999999999999988877777765 555667788888899999999999998888888889999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh---------cCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc-c--eEEEEee
Q 031411           96 DVTDESSFNNIRNWIRNIEQH---------ASDNVNKILVGNKADMDESKREAPFCLHETILLTV-Q--VHLVILK  159 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~---------~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~-~--~~~~~~k  159 (160)
                      |++++++|+.+..|+..+...         ...+.|+++++||+|+.+ ..++..+++.+++... +  ...+|||
T Consensus        80 dv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~-~~~v~~~ei~~~~~~~~~~~~~evSAk  154 (247)
T cd04143          80 SLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDF-PREVQRDEVEQLVGGDENCAYFEVSAK  154 (247)
T ss_pred             eCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchh-ccccCHHHHHHHHHhcCCCEEEEEeCC
Confidence            999999999999999998654         224789999999999973 4567788888877642 3  3555554

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

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

Probab=99.96  E-value=2.9e-27  Score=163.81  Aligned_cols=133  Identities=27%  Similarity=0.573  Sum_probs=115.0

Q ss_pred             EcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCCh
Q 031411           21 IGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDE  100 (160)
Q Consensus        21 ~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~  100 (160)
                      +|+++||||||++++..+.+...+.++.+.++....+..+++.+.+.+||++|++++..++..+++++|++++|||++++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            69999999999999999888888888888888878888888889999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411          101 SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      .+|+.+..|+..+.+... ++|+++++||+|+..  ..+..+ ..+++...++.|+.
T Consensus        81 ~S~~~i~~w~~~i~~~~~-~~piilvgNK~Dl~~--~~v~~~-~~~~~~~~~~~~~e  133 (200)
T smart00176       81 VTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKD--RKVKAK-SITFHRKKNLQYYD  133 (200)
T ss_pred             HHHHHHHHHHHHHHHhCC-CCCEEEEEECccccc--ccCCHH-HHHHHHHcCCEEEE
Confidence            999999999999988765 899999999999953  233333 34677776655543

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

>cd00154 Rab Rab family

Probab=99.96  E-value=4.9e-27  Score=156.32  Aligned_cols=141  Identities=50%  Similarity=0.903  Sum_probs=123.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++.+..+...+.++.+.++....+..++....+.+||+||+..+...+..+++++|++++++
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~   80 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVY   80 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999988877888888888888888888889999999999999888999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |++++++++.+..|+..+......+.|+++++||+|+. .......++.++++.++++.++.
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~~  141 (159)
T cd00154          81 DITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLE-DQRQVSTEEAQQFAKENGLLFFE  141 (159)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEccccc-ccccccHHHHHHHHHHcCCeEEE
Confidence            99999999999999999988775679999999999996 34556678888888876655544

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.96  E-value=1.3e-26  Score=156.57  Aligned_cols=147  Identities=49%  Similarity=0.831  Sum_probs=121.8

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      .+..++++++|++|+|||||++++..+.+...+.++.+.+.....+..++..+.+.+||++|+..+...+..++..+|++
T Consensus         4 ~~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~   83 (169)
T cd04114           4 YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANAL   83 (169)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEE
Confidence            35679999999999999999999998887777777777777777788888888999999999999998888999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc--eEEEEee
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQ--VHLVILK  159 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~k  159 (160)
                      ++|||.+++.+++.+..|+..+......++|+++++||+|+. ...++..+..+.+.....  +..+|+|
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~-~~~~i~~~~~~~~~~~~~~~~~~~Sa~  152 (169)
T cd04114          84 ILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLA-ERREVSQQRAEEFSDAQDMYYLETSAK  152 (169)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccccCHHHHHHHHHHcCCeEEEeeCC
Confidence            999999999999999999999987766689999999999996 334445555566665544  4444443

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.96  E-value=4.6e-27  Score=157.54  Aligned_cols=137  Identities=20%  Similarity=0.308  Sum_probs=111.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|+.|+|||||+.++..+.+...+.++.+  .+...+..++..+.+.+||++|++.     ..+++++|++++||
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~~~--~~~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~   73 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPEGG--RFKKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVF   73 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCCcc--ceEEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEE
Confidence            4899999999999999999998888766544432  2346678888888999999999864     34567899999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCC-CccCCChhHHHHHhhhcc-e--EEEEee
Q 031411           96 DVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDE-SKREAPFCLHETILLTVQ-V--HLVILK  159 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~-~~~~~~~~~~~~~~~~~~-~--~~~~~k  159 (160)
                      |.+++.+|+.+..|+..+..+.. .++|+++++||.|+.. ..+++..+++++++++++ +  ..+|||
T Consensus        74 d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk  142 (158)
T cd04103          74 SLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCAT  142 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecC
Confidence            99999999999999999987753 5789999999999853 456788888899997753 4  445554

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.

>cd04135 Tc10 TC10 subfamily

Probab=99.96  E-value=5.9e-27  Score=159.05  Aligned_cols=136  Identities=25%  Similarity=0.558  Sum_probs=114.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++..+.+...+.++.. +.....+..++..+.+.+||++|++.+..++..++.++|++++||
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   79 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICF   79 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEE
Confidence            5899999999999999999999988766666654 334456677888888999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCc-----------cCCChhHHHHHhhhcce
Q 031411           96 DVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESK-----------REAPFCLHETILLTVQV  153 (160)
Q Consensus        96 d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-----------~~~~~~~~~~~~~~~~~  153 (160)
                      |..++.+|+.+. .|+..+... ..+.|+++++||+|+.+..           ..+..++++++++..++
T Consensus        80 ~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  148 (174)
T cd04135          80 SVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGA  148 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCC
Confidence            999999999986 588888765 4589999999999986432           35777889999988875

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.96  E-value=2.9e-27  Score=159.40  Aligned_cols=138  Identities=33%  Similarity=0.458  Sum_probs=112.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc-ccccchhhccCCcEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER-FRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~-~~~~~~~~~~~~~~~i~v~   95 (160)
                      ||+++|++++|||||++++..+.+...+.++.... ....+..++..+.+.+||+||+.. .......+++.+|++++||
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~   79 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESL-YSRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVY   79 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHh-ceEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEE
Confidence            58999999999999999999887766666655433 345567788888999999999885 3445677889999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHA--SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~--~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |++++++|+.+..|+..+....  ..+.|+++++||+|+. ....+..+++++++..+++.++
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  141 (165)
T cd04146          80 SITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLL-HYRQVSTEEGEKLASELGCLFF  141 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchH-HhCccCHHHHHHHHHHcCCEEE
Confidence            9999999999999998887754  3579999999999986 3456677888899988777654

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

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

Probab=99.95  E-value=1.4e-29  Score=163.82  Aligned_cols=149  Identities=47%  Similarity=0.873  Sum_probs=135.3

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC---------CEEEEEEEecCCCcccccc
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD---------GKRIKLQIWDTAGQERFRT   79 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~D~~g~~~~~~   79 (160)
                      ..++++.+|++.+|++|+|||||+.++..+.|.....++.++++..+.+.++         +.++.+++|||.|++++..
T Consensus         3 ~GdydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRS   82 (219)
T KOG0081|consen    3 DGDYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRS   82 (219)
T ss_pred             CccHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHH
Confidence            3567888999999999999999999999999999999999999988877663         2458999999999999999


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           80 ITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        80 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      +..++++++.+++++||++++.||-+++.|+.++..+. .++.-|++++||+||+ +.+++..+++.+++.+++++|+..
T Consensus        83 LTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~-~~R~Vs~~qa~~La~kyglPYfET  161 (219)
T KOG0081|consen   83 LTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLE-DQRVVSEDQAAALADKYGLPYFET  161 (219)
T ss_pred             HHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchh-hhhhhhHHHHHHHHHHhCCCeeee
Confidence            99999999999999999999999999999999997764 3577899999999998 888999999999999999999864

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.95  E-value=7.1e-27  Score=161.47  Aligned_cols=139  Identities=24%  Similarity=0.380  Sum_probs=109.9

Q ss_pred             eEEEEEEcCCCCCHHHHHH-HHhcCC-----CCCccccceee-eEEEEE--------EEECCEEEEEEEecCCCcccccc
Q 031411           15 LIKLLLIGDSGVGKSCLLL-RFSDGS-----FTTSFITTIGI-DFKIRT--------IELDGKRIKLQIWDTAGQERFRT   79 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~-~l~~~~-----~~~~~~~~~~~-~~~~~~--------~~~~~~~~~~~~~D~~g~~~~~~   79 (160)
                      .+||+++|+.++|||||+. ++.++.     +...+.++.+. +.+...        ...++..+.+.+|||+|++.  .
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--K   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--h
Confidence            3799999999999999995 665443     34555666642 222222        25678889999999999875  3


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC------------------ccCCC
Q 031411           80 ITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDES------------------KREAP  140 (160)
Q Consensus        80 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~------------------~~~~~  140 (160)
                      +...+++++|++++|||++++.+|+.+. .|+..+....+ +.|+++++||+||.+.                  .+.+.
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~-~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~  158 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCP-RVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILP  158 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhccccccchhhhcccccccccccCCccC
Confidence            4556789999999999999999999997 59998877664 7899999999999631                  46788


Q ss_pred             hhHHHHHhhhcceEEE
Q 031411          141 FCLHETILLTVQVHLV  156 (160)
Q Consensus       141 ~~~~~~~~~~~~~~~~  156 (160)
                      .++++++++++++.|+
T Consensus       159 ~~e~~~~a~~~~~~~~  174 (195)
T cd01873         159 PETGRAVAKELGIPYY  174 (195)
T ss_pred             HHHHHHHHHHhCCEEE
Confidence            9999999999998665

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.

>cd04177 RSR1 RSR1 subgroup

Probab=99.95  E-value=1e-26  Score=157.19  Aligned_cols=135  Identities=35%  Similarity=0.553  Sum_probs=115.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|+|||||++++.++.+...+.++.+.. +...+..++..+.+.+||+||++++..++..++..++++++||
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~   80 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDS-YRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVY   80 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchhe-EEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEE
Confidence            689999999999999999999988877777776633 4566677888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc
Q 031411           96 DVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQ  152 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~  152 (160)
                      |.+++++++.+..|...+.+.. ..+.|+++++||.|+. .......++...+++..+
T Consensus        81 ~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~-~~~~~~~~~~~~~~~~~~  137 (168)
T cd04177          81 SVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLE-DDRQVSREDGVSLSQQWG  137 (168)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhcc-ccCccCHHHHHHHHHHcC
Confidence            9999999999999999887643 3579999999999997 345566677777777765

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

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

Probab=99.95  E-value=3.1e-28  Score=157.46  Aligned_cols=149  Identities=32%  Similarity=0.654  Sum_probs=135.7

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .......+|++++|+.-+|||||+-++..++|....-++.--.+..+.+.+.+.+..+.+|||.|+++|..+-+.++++.
T Consensus         7 ~~g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgS   86 (218)
T KOG0088|consen    7 VDGKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGS   86 (218)
T ss_pred             ccCCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCC
Confidence            45566789999999999999999999999999877777766667777888888889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      +++++|||++|+++|+.++.|..++.+.....+-+++|+||+||. .++.++.++++.++...++.|+..
T Consensus        87 nGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLE-eeR~Vt~qeAe~YAesvGA~y~eT  155 (218)
T KOG0088|consen   87 NGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLE-EERQVTRQEAEAYAESVGALYMET  155 (218)
T ss_pred             CceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHH-HhhhhhHHHHHHHHHhhchhheec
Confidence            999999999999999999999999999888788999999999997 888999999999999999888753

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.95  E-value=2.3e-26  Score=156.24  Aligned_cols=143  Identities=30%  Similarity=0.560  Sum_probs=116.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      +.||+++|+++||||||++++..+.+...+.++.+..+ ...+..++..+.+.+||++|++.+..++...+.++|++++|
T Consensus         1 ~~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v   79 (175)
T cd01870           1 RKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMC   79 (175)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccce-EEEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEE
Confidence            36899999999999999999999988877777765433 34567788888999999999999998888889999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCc-----------cCCChhHHHHHhhhcc---eEEEEee
Q 031411           95 YDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESK-----------REAPFCLHETILLTVQ---VHLVILK  159 (160)
Q Consensus        95 ~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-----------~~~~~~~~~~~~~~~~---~~~~~~k  159 (160)
                      ||++++++|+.+. .|+..+.+... +.|+++++||+|+.+..           ..+..+++++++...+   ..++|||
T Consensus        80 ~~~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~  158 (175)
T cd01870          80 FSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAK  158 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccc
Confidence            9999999999885 58887766544 78999999999985321           3455677888887765   3555554

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

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

Probab=99.95  E-value=3.3e-27  Score=150.28  Aligned_cols=148  Identities=43%  Similarity=0.815  Sum_probs=137.1

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      -.+.+.+|.+++|+-|+|||+|++.+...+|-..-..+.+.++....+.+.+.++.+++||+.|++++....+++++++.
T Consensus         6 ynysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaa   85 (215)
T KOG0097|consen    6 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAA   85 (215)
T ss_pred             cchhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhcccc
Confidence            35678899999999999999999999999888788889999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      +.+.|||++.+.++..+..|+......-..+.-|++++||.||. ..+++..+++++|+.+.+..+..+
T Consensus        86 galmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle-~qrdv~yeeak~faeengl~fle~  153 (215)
T KOG0097|consen   86 GALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE-SQRDVTYEEAKEFAEENGLMFLEA  153 (215)
T ss_pred             ceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhh-hcccCcHHHHHHHHhhcCeEEEEe
Confidence            99999999999999999999999887766788999999999997 888999999999999999877654

>cd04148 RGK RGK subfamily

Probab=99.95  E-value=2.4e-26  Score=161.82  Aligned_cols=138  Identities=25%  Similarity=0.400  Sum_probs=112.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhcc-CCcEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYR-GAMGILL   93 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~-~~~~~i~   93 (160)
                      +||+++|++|+|||||++++..+.+. ..+.++.+.++....+.+++....+.+||++|++  ......++. ++|++++
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~--~~~~~~~~~~~ad~iil   78 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQE--MWTEDSCMQYQGDAFVV   78 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcc--hHHHhHHhhcCCCEEEE
Confidence            58999999999999999999988775 5556665545666777888888999999999987  223345566 8999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |||++++.+|+.+.+|+..+.... ..+.|+++|+||+|+. ....+..+++++++...++.++
T Consensus        79 V~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~-~~~~v~~~~~~~~a~~~~~~~~  141 (221)
T cd04148          79 VYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLA-RSREVSVQEGRACAVVFDCKFI  141 (221)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhcc-ccceecHHHHHHHHHHcCCeEE
Confidence            999999999999999999987754 3578999999999997 3456677778888887776554

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.95  E-value=6.4e-27  Score=157.76  Aligned_cols=133  Identities=21%  Similarity=0.345  Sum_probs=107.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEEC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDV   97 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   97 (160)
                      |+++|++++|||||++++.++.+...+.++.+...  ..  .+...+++.+||++|++++..++..+++++|++++|||.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~--~~--i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~   77 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS--VA--IPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDS   77 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcce--EE--EeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEEC
Confidence            79999999999999999999888777777776542  22  333457899999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCC----hhHHHHHhhhcceEEE
Q 031411           98 TDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAP----FCLHETILLTVQVHLV  156 (160)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~----~~~~~~~~~~~~~~~~  156 (160)
                      +++.+++.+..|+..+.... .+.|+++++||+|+.+.. .+.    ..++.+++.+.++.++
T Consensus        78 t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~-~~~~i~~~~~~~~~~~~~~~~~~  138 (164)
T cd04162          78 ADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAAR-SVQEIHKELELEPIARGRRWILQ  138 (164)
T ss_pred             CCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCC-CHHHHHHHhCChhhcCCCceEEE
Confidence            99999999999998886544 489999999999996432 221    1235667777776653

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.

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

Probab=99.95  E-value=4.6e-27  Score=159.37  Aligned_cols=140  Identities=31%  Similarity=0.592  Sum_probs=126.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC-CEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD-GKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      ...+|++++|+.++|||+|+..+..+.|+..+.++.. +-+...+.++ ++.+++.+|||.||+.|++++.-.+.++|++
T Consensus         2 ~~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvf   80 (198)
T KOG0393|consen    2 SRRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVF   80 (198)
T ss_pred             ceeeEEEEECCCCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEE
Confidence            3568999999999999999999999999999999996 6677888885 9999999999999999999888899999999


Q ss_pred             EEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcceE
Q 031411           92 LLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQVH  154 (160)
Q Consensus        92 i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~~~  154 (160)
                      ++||++.++.+|+++ .+|+.++..+++ +.|++++|+|.||.++           ...+..+++++++++.|+.
T Consensus        81 l~cfsv~~p~S~~nv~~kW~pEi~~~cp-~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~  154 (198)
T KOG0393|consen   81 LLCFSVVSPESFENVKSKWIPEIKHHCP-NVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAV  154 (198)
T ss_pred             EEEEEcCChhhHHHHHhhhhHHHHhhCC-CCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcc
Confidence            999999999999986 559999999997 8999999999999742           2468889999999999853

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.94  E-value=1e-25  Score=156.27  Aligned_cols=142  Identities=27%  Similarity=0.400  Sum_probs=113.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      ||+++|.+|+|||||++++..+.+...+.++.. +.....+.+++..+.+.+||++|+..+..++..++.++|++++|||
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d   79 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYA   79 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEE
Confidence            689999999999999999999888766655553 3445567777877899999999999998888889999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhh-hc--ceEEEEee
Q 031411           97 VTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILL-TV--QVHLVILK  159 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~-~~--~~~~~~~k  159 (160)
                      ++++.+++.+..|+..+..... .++|+++++||+|+.+....+..++..+.+. ..  .+..+++|
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~  146 (198)
T cd04147          80 VDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAK  146 (198)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCC
Confidence            9999999999999998877654 5799999999999975445555555554443 22  33445553

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.

>cd00876 Ras Ras family

Probab=99.94  E-value=1.3e-25  Score=150.08  Aligned_cols=138  Identities=33%  Similarity=0.580  Sum_probs=116.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      ||+++|++++|||||++++++..+...+.++.. +........++..+.+.+||+||+..+..++...+.++|++++|||
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d   79 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYS   79 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEE
Confidence            689999999999999999998877766666665 4555666777777899999999999998889999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           97 VTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      .+++++++.+..|...+..... ...|+++++||+|+.+ ......+++++++..+++.++
T Consensus        80 ~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~  139 (160)
T cd00876          80 ITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLEN-ERQVSKEEGKALAKEWGCPFI  139 (160)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccc-cceecHHHHHHHHHHcCCcEE
Confidence            9999999999999999877655 5789999999999973 456677888888887764433

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

>cd04149 Arf6 Arf6 subfamily

Probab=99.94  E-value=1.1e-25  Score=152.36  Aligned_cols=126  Identities=25%  Similarity=0.500  Sum_probs=100.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++++|||||++++..+.+.. +.++.+.+..  .+..  ..+.+.+||++|++++..++..++.++|++++|
T Consensus         9 ~~kv~i~G~~~~GKTsli~~l~~~~~~~-~~~t~g~~~~--~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v   83 (168)
T cd04149           9 EMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNVE--TVTY--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   83 (168)
T ss_pred             ccEEEEECcCCCCHHHHHHHHccCCCcc-ccCCcccceE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEEEE
Confidence            4899999999999999999998777643 4566665443  3333  347899999999999998999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHHHh
Q 031411           95 YDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHETIL  148 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~  148 (160)
                      ||++++.+++.+.+|+..+... ...+.|+++++||+|+.+   .+..+++++++
T Consensus        84 ~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~---~~~~~~i~~~~  135 (168)
T cd04149          84 VDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPD---AMKPHEIQEKL  135 (168)
T ss_pred             EeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCcc---CCCHHHHHHHc
Confidence            9999999999998888777543 234789999999999963   24556666654

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=99.94  E-value=5.8e-25  Score=147.56  Aligned_cols=140  Identities=34%  Similarity=0.516  Sum_probs=115.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|+|||||++++....+...+.++... ........++..+.+.+||+||+..+..++..+++.+++++++|
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKAD-SYRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVF   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchh-hEEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEE
Confidence            48999999999999999999998887666665543 33455677888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |..++.+++.+..|+..+.... ..++|+++++||+|+.+ ......++..+++.++++.++.
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~-~~~~~~~~~~~~~~~~~~~~~~  141 (164)
T cd04139          80 SITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLED-KRQVSSEEAANLARQWGVPYVE  141 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEcccccc-ccccCHHHHHHHHHHhCCeEEE
Confidence            9999999999999999987763 35799999999999963 3345666677777777655543

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.94  E-value=9.2e-25  Score=153.23  Aligned_cols=143  Identities=30%  Similarity=0.557  Sum_probs=118.8

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ......+|++++|++|||||||++++..+.+...+.++.+.++....+..++..+.+.+||++|++++..++..++.+++
T Consensus         4 ~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~   83 (215)
T PTZ00132          4 MDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQ   83 (215)
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCC
Confidence            34445689999999999999999999988888888888888887777777888899999999999999888888999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ++++|||.++..++..+..|+..+..... ++|+++++||+|+.+.  ... .+..+++...++.++
T Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~i~lv~nK~Dl~~~--~~~-~~~~~~~~~~~~~~~  146 (215)
T PTZ00132         84 CAIIMFDVTSRITYKNVPNWHRDIVRVCE-NIPIVLVGNKVDVKDR--QVK-ARQITFHRKKNLQYY  146 (215)
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECccCccc--cCC-HHHHHHHHHcCCEEE
Confidence            99999999999999999999999977654 7999999999998532  222 233456666665443

>cd04129 Rho2 Rho2 subfamily

Probab=99.94  E-value=5.5e-25  Score=151.29  Aligned_cols=137  Identities=31%  Similarity=0.558  Sum_probs=112.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      +.|++++|++|+|||||++++..+.+.+.+.++.... ....+..++..+.+.+||++|++.+.......+.++|+++++
T Consensus         1 ~~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv   79 (187)
T cd04129           1 RRKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFEN-YVTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIG   79 (187)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccce-EEEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEE
Confidence            3699999999999999999999888776666655433 334566677778899999999988887777788999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC---------ccCCChhHHHHHhhhcce
Q 031411           95 YDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDES---------KREAPFCLHETILLTVQV  153 (160)
Q Consensus        95 ~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~---------~~~~~~~~~~~~~~~~~~  153 (160)
                      |+++++++|+.+. .|+..+.+..+ +.|+++++||+|+.+.         ...+..+++++++++.++
T Consensus        80 ~~i~~~~s~~~~~~~~~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (187)
T cd04129          80 FAVDTPDSLENVRTKWIEEVRRYCP-NVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGA  147 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCC
Confidence            9999999999996 59998877665 6999999999998532         234566788899988874

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).

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

Probab=99.94  E-value=1.3e-27  Score=150.66  Aligned_cols=138  Identities=45%  Similarity=0.842  Sum_probs=127.2

Q ss_pred             EEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEEC
Q 031411           19 LLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDV   97 (160)
Q Consensus        19 ~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   97 (160)
                      +++|++++|||+|+-++..+.|. ....++.++++..+.+..++.++.+++|||.||+++.....++++++|+++++||+
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydi   80 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDI   80 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeec
Confidence            47899999999999888877665 45678899999999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           98 TDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      .+..||++.+.|+.++..+..+.+.+++++||+|+. .++.+..++.+++++.+++++..
T Consensus        81 ankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a-~er~v~~ddg~kla~~y~ipfme  139 (192)
T KOG0083|consen   81 ANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLA-HERAVKRDDGEKLAEAYGIPFME  139 (192)
T ss_pred             ccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccc-hhhccccchHHHHHHHHCCCcee
Confidence            999999999999999999988899999999999997 77889999999999999987653

>cd00157 Rho Rho (Ras homology) family

Probab=99.94  E-value=1.2e-24  Score=147.05  Aligned_cols=139  Identities=33%  Similarity=0.631  Sum_probs=112.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|+|||||+++|.++.+...+.++.. +........++..+.+.+||+||+..+.......++.+|++++||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVF-DNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICF   79 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEE
Confidence            5899999999999999999999888666555554 334455667788889999999999988888888889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCcc----------CCChhHHHHHhhhcce-EEE
Q 031411           96 DVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESKR----------EAPFCLHETILLTVQV-HLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~----------~~~~~~~~~~~~~~~~-~~~  156 (160)
                      |++++.++.... .|+..+..... +.|+++++||+|+.+...          .+..+++.+++..+++ .++
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  151 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYCP-NVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYM  151 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEE
Confidence            999999988765 47777776655 899999999999864442          3457788888888876 443

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.94  E-value=5e-25  Score=148.69  Aligned_cols=118  Identities=31%  Similarity=0.481  Sum_probs=95.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++++|||||++++.++.+...+..+..  ........++..+++.+||++|+..+...+...+.++|++++||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLP--EITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVY   78 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCccc--ceEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEE
Confidence            4899999999999999999999888655433222  22334455667789999999999888777777889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCc
Q 031411           96 DVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESK  136 (160)
Q Consensus        96 d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~  136 (160)
                      |++++.+++.+. .|+..+..... +.|+++++||+|+.+..
T Consensus        79 d~~~~~s~~~~~~~~~~~i~~~~~-~~pviiv~nK~Dl~~~~  119 (166)
T cd01893          79 SVDRPSTLERIRTKWLPLIRRLGV-KVPIILVGNKSDLRDGS  119 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhccccc
Confidence            999999999985 58887876655 79999999999997443

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

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

Probab=99.94  E-value=3.2e-25  Score=150.95  Aligned_cols=115  Identities=23%  Similarity=0.533  Sum_probs=96.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++++|||||++++..+.+. .+.++.+.+..  .+...  .+.+.+||++|++.+..++..+++++|++++|
T Consensus        13 ~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~--~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v   87 (175)
T smart00177       13 EMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVE--TVTYK--NISFTVWDVGGQDKIRPLWRHYYTNTQGLIFV   87 (175)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceE--EEEEC--CEEEEEEECCCChhhHHHHHHHhCCCCEEEEE
Confidence            589999999999999999999877764 35566665443  33343  37899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCC
Q 031411           95 YDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE  134 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~  134 (160)
                      ||++++++++...+|+..+.+. ...+.|++|++||+|+.+
T Consensus        88 ~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~  128 (175)
T smart00177       88 VDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPD  128 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCccc
Confidence            9999999999999988887543 224789999999999964

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).

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.94  E-value=4.9e-25  Score=151.03  Aligned_cols=118  Identities=25%  Similarity=0.507  Sum_probs=98.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEE-CCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      .+||+++|++|||||||++++..+.+... .++.+.+.....+.. ++..+.+.+||++|++++..++..+++++|++++
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~   81 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVF   81 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEE
Confidence            47999999999999999999998877644 455555554444444 3456899999999999999899999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCC
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMD  133 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~  133 (160)
                      |||++++.+++.+..|+..+.... ..+.|+++++||+|+.
T Consensus        82 v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~  122 (183)
T cd04152          82 VVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLP  122 (183)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcc
Confidence            999999999999998988886643 3478999999999986

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.93  E-value=1.4e-25  Score=150.43  Aligned_cols=114  Identities=24%  Similarity=0.554  Sum_probs=94.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|.++||||||++++..+.+. .+.++.+...  ..+...  .+.+.+||++|++++..++..+++++|++++||
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~--~~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~   75 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNV--ETVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcce--EEEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence            48999999999999999999887776 3566666443  233343  478999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCC
Q 031411           96 DVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE  134 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~  134 (160)
                      |++++.+++.+.+|+..+... ...+.|+++++||+|+.+
T Consensus        76 D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  115 (159)
T cd04150          76 DSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPN  115 (159)
T ss_pred             eCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCC
Confidence            999999999999988877543 224689999999999963

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

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

Probab=99.93  E-value=3.8e-25  Score=152.40  Aligned_cols=143  Identities=34%  Similarity=0.519  Sum_probs=129.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..+|++++|.+|+|||+|..++..+.|...+.++.+ +.+.+.+..++..+.+.++||+|++.+..+...++...|++++
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~l   80 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLL   80 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEE
Confidence            357999999999999999999999999999999998 6677888899999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      ||+++++.||+.+..++..+.+... ..+|+++||||+|+. ..+++..+++++++...+|.|+..
T Consensus        81 Vysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~-~~R~V~~eeg~~la~~~~~~f~E~  145 (196)
T KOG0395|consen   81 VYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLE-RERQVSEEEGKALARSWGCAFIET  145 (196)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccch-hccccCHHHHHHHHHhcCCcEEEe
Confidence            9999999999999999999955443 567999999999998 559999999999999999886543

>cd04158 ARD1 ARD1 subfamily

Probab=99.93  E-value=5.7e-25  Score=148.89  Aligned_cols=125  Identities=21%  Similarity=0.443  Sum_probs=101.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      ||+++|+++||||||++++.+..+.. +.+|.+....  .+..+  .+.+.+||+||+.++...+..+++++|++++|||
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~--~~~~~--~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   75 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVE--TVEYK--NLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVD   75 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEE--EEEEC--CEEEEEEECCCChhcchHHHHHhccCCEEEEEEe
Confidence            68999999999999999999886653 5666654443  33444  3789999999999999899999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhh
Q 031411           97 VTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILL  149 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~  149 (160)
                      .+++.+++.+..|+..+.+.. ..+.|+++++||+|+.+   .+..+++++++.
T Consensus        76 ~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~---~~~~~~~~~~~~  126 (169)
T cd04158          76 SSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG---ALSVEEMTELLS  126 (169)
T ss_pred             CCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc---CCCHHHHHHHhC
Confidence            999999999999998886542 34689999999999962   356666766654

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.93  E-value=5.7e-25  Score=150.49  Aligned_cols=116  Identities=23%  Similarity=0.524  Sum_probs=96.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..+||+++|+++||||||++++..+.+. .+.++.+.+..  .+..+  .+.+.+||++|++++..+|..+++++|++|+
T Consensus        16 ~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~~~~--~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~   90 (181)
T PLN00223         16 KEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIF   90 (181)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EEEEC--CEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            4489999999999999999999987775 35666665432  34444  3789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCC
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE  134 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~  134 (160)
                      |||++++++++.+..|+..+... ...+.|++|++||+|+++
T Consensus        91 V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~  132 (181)
T PLN00223         91 VVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN  132 (181)
T ss_pred             EEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCC
Confidence            99999999999988888777542 224789999999999973

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

Probab=99.93  E-value=1.2e-24  Score=148.44  Aligned_cols=138  Identities=30%  Similarity=0.504  Sum_probs=113.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      .||+++|++|+|||||++++.+..+...+.++....+ ......++..+.+.+||+||+.++...+..++..+++++++|
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVY   80 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEE
Confidence            5899999999999999999999887766666554333 455667777788999999999999988999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHL  155 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~  155 (160)
                      |.++..+++.+..|+..+.+.. ..+.|+++++||+|+. ..+....++...++...++.+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~~  140 (180)
T cd04137          81 SVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLH-TQRQVSTEEGKELAESWGAAF  140 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhh-hcCccCHHHHHHHHHHcCCeE
Confidence            9999999999999988887653 3578999999999996 344555666777777766443

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

>cd04154 Arl2 Arl2 subfamily

Probab=99.93  E-value=8.3e-25  Score=148.55  Aligned_cols=130  Identities=22%  Similarity=0.420  Sum_probs=101.8

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      ..+..++|+++|++++|||||++++.+..+ ..+.++.+.  ....+..++  +.+.+||+||++.+..++..+++++|+
T Consensus        10 ~~~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~--~~~~~~~~~--~~l~l~D~~G~~~~~~~~~~~~~~~d~   84 (173)
T cd04154          10 LKEREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGF--QIKTLEYEG--YKLNIWDVGGQKTLRPYWRNYFESTDA   84 (173)
T ss_pred             cCCCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCcccc--ceEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCE
Confidence            344568999999999999999999998754 344555553  334455554  689999999999888888999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHHHh
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHETIL  148 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~  148 (160)
                      +++|||.+++.+++....|+..+... ...+.|+++++||+|+.+..   ..++++++.
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~---~~~~~~~~~  140 (173)
T cd04154          85 LIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGAL---SEEEIREAL  140 (173)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCC---CHHHHHHHh
Confidence            99999999999999998888887543 23578999999999997432   445555554

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.93  E-value=3.8e-25  Score=149.52  Aligned_cols=115  Identities=25%  Similarity=0.465  Sum_probs=96.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      +|+++|+++||||||++++.+. +...+.++.+..  ...+..++  +.+.+||+||+.++..++..+++++|++++|||
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~--~~~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D   75 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFT--PTKLRLDK--YEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVD   75 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccce--EEEEEECC--EEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEE
Confidence            4899999999999999999976 566666776643  33445544  789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCc
Q 031411           97 VTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESK  136 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~  136 (160)
                      ++++.+++.+..|+..+.+... .+.|+++++||+|+++..
T Consensus        76 ~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~  116 (167)
T cd04161          76 SSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNAL  116 (167)
T ss_pred             CCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCC
Confidence            9999999999999998876532 478999999999997443

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.93  E-value=4.4e-25  Score=148.01  Aligned_cols=115  Identities=20%  Similarity=0.460  Sum_probs=93.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +|+++|+++||||||++++.+..+ ...+.++.+...  ..+...  .+.+.+||+||+.++..++..+++++|++++|+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~--~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNV--ESFEKG--NLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccce--EEEEEC--CEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            589999999999999999998753 445566666433  223333  478999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc---CCCCcEEEEEeCCCCCCC
Q 031411           96 DVTDESSFNNIRNWIRNIEQHA---SDNVNKILVGNKADMDES  135 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~---~~~~pi~vv~~K~Dl~~~  135 (160)
                      |++++.+++.+..|+..+.+..   ..++|+++++||+|+.+.
T Consensus        77 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~  119 (162)
T cd04157          77 DSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDA  119 (162)
T ss_pred             eCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCC
Confidence            9999999999888888876532   247999999999999643

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.93  E-value=1.1e-24  Score=149.28  Aligned_cols=115  Identities=25%  Similarity=0.553  Sum_probs=94.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++++|||||++++..+.+.. +.++.+.++  ..+...  .+.+.+||++|++++..++..+++++|++|+|
T Consensus        17 ~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~--~~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v   91 (182)
T PTZ00133         17 EVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNV--ETVEYK--NLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFV   91 (182)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccce--EEEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEEE
Confidence            4899999999999999999998877754 456666443  234443  37899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCC
Q 031411           95 YDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE  134 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~  134 (160)
                      ||++++++++...+++..+... ...+.|+++++||.|+.+
T Consensus        92 ~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~  132 (182)
T PTZ00133         92 VDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPN  132 (182)
T ss_pred             EeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCC
Confidence            9999999999998888777432 224689999999999963

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

Probab=99.92  E-value=9.1e-24  Score=143.78  Aligned_cols=119  Identities=32%  Similarity=0.626  Sum_probs=100.6

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      .+..+||+++|+++|||||+++++..+... ...||.+  +....+..++  +.+.+||++|+..+...|..++.++|++
T Consensus        11 ~~~~~~ililGl~~sGKTtll~~l~~~~~~-~~~pT~g--~~~~~i~~~~--~~~~~~d~gG~~~~~~~w~~y~~~~~~i   85 (175)
T PF00025_consen   11 KKKEIKILILGLDGSGKTTLLNRLKNGEIS-ETIPTIG--FNIEEIKYKG--YSLTIWDLGGQESFRPLWKSYFQNADGI   85 (175)
T ss_dssp             TTSEEEEEEEESTTSSHHHHHHHHHSSSEE-EEEEESS--EEEEEEEETT--EEEEEEEESSSGGGGGGGGGGHTTESEE
T ss_pred             cCcEEEEEEECCCccchHHHHHHhhhcccc-ccCcccc--cccceeeeCc--EEEEEEeccccccccccceeecccccee
Confidence            367799999999999999999999986544 3566666  4555677777  6789999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCC
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDES  135 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~  135 (160)
                      |+|+|+++.+.+++..+.+..+.... ..+.|+++++||+|+++.
T Consensus        86 IfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~  130 (175)
T PF00025_consen   86 IFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDA  130 (175)
T ss_dssp             EEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS
T ss_pred             EEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCc
Confidence            99999999999999988888876542 257899999999999743

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 ....

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.92  E-value=9.8e-24  Score=142.24  Aligned_cols=125  Identities=23%  Similarity=0.464  Sum_probs=95.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC------CCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSF------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      +|+++|++|+|||||++++.+...      ...+.++.+.+.  ..+..++  ..+.+||+||++.+..++..++.++|+
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~   76 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNI--GTIEVGN--ARLKFWDLGGQESLRSLWDKYYAECHA   76 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccce--EEEEECC--EEEEEEECCCChhhHHHHHHHhCCCCE
Confidence            589999999999999999976322      223344444333  3445554  689999999999999989999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHh
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETIL  148 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~  148 (160)
                      +++|+|++++++++....|+..+.+.. ..+.|+++++||+|+.+.   ...++..++.
T Consensus        77 ~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~---~~~~~~~~~~  132 (167)
T cd04160          77 IIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA---LSVEEIKEVF  132 (167)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC---CCHHHHHHHh
Confidence            999999999989999988888876542 357899999999998632   3344454444

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.

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

Probab=99.92  E-value=7.1e-24  Score=137.78  Aligned_cols=140  Identities=21%  Similarity=0.412  Sum_probs=110.6

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      .++.++|+++|..|+||||++++|.+.. .....|+.+  +..+.+.+++  +++++||.+||......|..+|+++|++
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~g--f~Iktl~~~~--~~L~iwDvGGq~~lr~~W~nYfestdgl   87 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLG--FQIKTLEYKG--YTLNIWDVGGQKTLRSYWKNYFESTDGL   87 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccc--eeeEEEEecc--eEEEEEEcCCcchhHHHHHHhhhccCeE
Confidence            4558999999999999999999999876 344556655  6667777776  7899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChh---HHHHHhhhcceEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFC---LHETILLTVQVHLV  156 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~---~~~~~~~~~~~~~~  156 (160)
                      |+|+|.+++..++.-...++.+.... -.+.|++|++||.|++..-......   +..++++++++..+
T Consensus        88 IwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks~~~~l~  156 (185)
T KOG0073|consen   88 IWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLEELAKSHHWRLV  156 (185)
T ss_pred             EEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHHHhccccCceEE
Confidence            99999999999988887777774422 2467999999999997444333333   34556566666544

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

Probab=99.92  E-value=9.1e-24  Score=135.05  Aligned_cols=114  Identities=39%  Similarity=0.713  Sum_probs=87.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCC--CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFT--TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      ||+|+|++|+|||||+++|.+..+.  .......+................+.+||++|++.+...+...+..+|++++|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv   80 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILV   80 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEE
Confidence            7999999999999999999988765  11222222334444556666666799999999998888888889999999999


Q ss_pred             EECCChhhHHHHHH---HHHHHHHhcCCCCcEEEEEeCCC
Q 031411           95 YDVTDESSFNNIRN---WIRNIEQHASDNVNKILVGNKAD  131 (160)
Q Consensus        95 ~d~~~~~~~~~~~~---~~~~~~~~~~~~~pi~vv~~K~D  131 (160)
                      ||.+++.+++.+.+   |+..+..... ++|+++++||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~~~-~~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKRDK-NIPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHHSS-CSEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHccCC-CCCEEEEEeccC
Confidence            99999999988754   5666655444 699999999998

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.92  E-value=5.2e-24  Score=142.64  Aligned_cols=114  Identities=30%  Similarity=0.602  Sum_probs=93.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      +|+++|++|+|||||++++.++.+... .++.+...  ..+... ..+.+.+||++|+..+...+..++.++|++++|+|
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~~-~~t~~~~~--~~~~~~-~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D   76 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVTT-IPTVGFNV--EMLQLE-KHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVD   76 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcccc-cCccCcce--EEEEeC-CceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEE
Confidence            589999999999999999999877543 45555433  333333 34789999999999998889999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCC
Q 031411           97 VTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE  134 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~  134 (160)
                      ++++.+++.+..|+..+.+.. ..+.|+++++||+|+.+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  115 (160)
T cd04156          77 SSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPG  115 (160)
T ss_pred             CCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECccccc
Confidence            999999999988888876543 24789999999999963

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

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

Probab=99.91  E-value=2.4e-23  Score=142.79  Aligned_cols=126  Identities=20%  Similarity=0.293  Sum_probs=97.8

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...++|+++|++|+|||||++++.++.+.. +.++.+  .....+..++  +++.+||+||+..+...+..++.++|+++
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~ad~ii   89 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQ-HQPTQH--PTSEELAIGN--IKFTTFDLGGHQQARRLWKDYFPEVNGIV   89 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCcc-cCCccc--cceEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            345899999999999999999999876542 333433  2233444444  68899999999998889999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHH
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHET  146 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~  146 (160)
                      +|+|++++++++....++..+.+. ...+.|+++++||+|++.   .+..+++++
T Consensus        90 ~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~---~~~~~~i~~  141 (184)
T smart00178       90 YLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPY---AASEDELRY  141 (184)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC---CCCHHHHHH
Confidence            999999999999988888877543 224789999999999963   334444443

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

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

Probab=99.91  E-value=4.9e-26  Score=150.09  Aligned_cols=147  Identities=33%  Similarity=0.607  Sum_probs=133.3

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ..+.+..+|++++|..++||||+|+++..+-|...+..+.+.++....+.++++.+.+.+||++|++.++.+..++++++
T Consensus        14 e~d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrga   93 (246)
T KOG4252|consen   14 ETDYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGA   93 (246)
T ss_pred             chhhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhccc
Confidence            45677889999999999999999999999999989999999888877777777778888999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      .+.++||+.+|+.||+...+|++.+..... .+|.+++.||+|+. ...+...++++.+++..++.++.
T Consensus        94 qa~vLVFSTTDr~SFea~~~w~~kv~~e~~-~IPtV~vqNKIDlv-eds~~~~~evE~lak~l~~RlyR  160 (246)
T KOG4252|consen   94 QASVLVFSTTDRYSFEATLEWYNKVQKETE-RIPTVFVQNKIDLV-EDSQMDKGEVEGLAKKLHKRLYR  160 (246)
T ss_pred             cceEEEEecccHHHHHHHHHHHHHHHHHhc-cCCeEEeeccchhh-HhhhcchHHHHHHHHHhhhhhhh
Confidence            999999999999999999999999988777 89999999999998 66778888899999988876654

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

Probab=99.91  E-value=1.2e-23  Score=140.62  Aligned_cols=113  Identities=26%  Similarity=0.576  Sum_probs=93.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      ||+++|.+|||||||++++.++.. ....++.+...  ..+..++  ..+.+||+||+..+...+..++.++|++++|||
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D   75 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNV--ETVEYKN--VSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVD   75 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcce--EEEEECC--EEEEEEECCCChhhHHHHHHHhccCCEEEEEEE
Confidence            689999999999999999998874 34455555333  3444444  689999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCC
Q 031411           97 VTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE  134 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~  134 (160)
                      ++++++++....|+..+.... ..+.|+++++||+|+..
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~  114 (158)
T cd00878          76 SSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPG  114 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcc
Confidence            999999999999888876643 35889999999999964

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.91  E-value=1.2e-23  Score=142.97  Aligned_cols=115  Identities=25%  Similarity=0.452  Sum_probs=94.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .++|+++|++++|||||++++..+.+.. +.++.+...  ..+..++  +++.+||+||+..+...+..+++++|++++|
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~--~~~~~~~--~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V   89 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNV--EEIVYKN--IRFLMWDIGGQESLRSSWNTYYTNTDAVILV   89 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccce--EEEEECC--eEEEEEECCCCHHHHHHHHHHhhcCCEEEEE
Confidence            4799999999999999999999887764 455555433  3444444  7899999999999988899999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCC
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE  134 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~  134 (160)
                      +|+++++++.....++..+.+.. ..+.|+++++||+|+.+
T Consensus        90 ~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~  130 (174)
T cd04153          90 IDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG  130 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCC
Confidence            99999999988888887775533 24689999999999964

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.91  E-value=4.3e-23  Score=142.02  Aligned_cols=129  Identities=22%  Similarity=0.359  Sum_probs=102.7

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ....+|+++|++|||||||++++.++.+. .+.++.+.  ....+..++  ..+.+||+||+..+...+..+++++|+++
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~--~~~~i~~~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~ii   91 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHP--TSEELTIGN--IKFKTFDLGGHEQARRLWKDYFPEVDGIV   91 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCc--ceEEEEECC--EEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            34689999999999999999999987764 34444442  334555555  67899999999988888889999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhh
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILL  149 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~  149 (160)
                      +|+|.++.++++....|+..+.+.. ..+.|+++++||+|+..   .+..++++++..
T Consensus        92 lV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~---~~~~~~~~~~~~  146 (190)
T cd00879          92 FLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG---AVSEEELRQALG  146 (190)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC---CcCHHHHHHHhC
Confidence            9999999999998888888886543 25689999999999962   455666766664

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.91  E-value=8.9e-23  Score=136.60  Aligned_cols=113  Identities=27%  Similarity=0.506  Sum_probs=89.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      ||+++|++++|||||++++..+.+.. ..++.+.+.  ..+...  ...+.+||+||+..+..++..++.++|++++|+|
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~--~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d   75 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVT-TIPTIGFNV--ETVTYK--NLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVD   75 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcC-cCCccCcCe--EEEEEC--CEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEE
Confidence            68999999999999999998776653 345544333  233443  3689999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCCC
Q 031411           97 VTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDE  134 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~-~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ++++.++....+++..+.+ ....+.|+++++||+|+.+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~  114 (158)
T cd04151          76 STDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPG  114 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCC
Confidence            9998888877776665543 2224789999999999963

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.

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

Probab=99.90  E-value=2.6e-23  Score=138.05  Aligned_cols=131  Identities=23%  Similarity=0.499  Sum_probs=111.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ....+|+++|..++||||+++++..++.... .||.+  ++...+.+.+  ++|.+||.+|+.++...|..++.+.+++|
T Consensus        15 ~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiG--fnVE~v~ykn--~~f~vWDvGGq~k~R~lW~~Y~~~t~~lI   89 (181)
T KOG0070|consen   15 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIG--FNVETVEYKN--ISFTVWDVGGQEKLRPLWKHYFQNTQGLI   89 (181)
T ss_pred             cceEEEEEEeccCCCceeeeEeeccCCcccC-CCccc--cceeEEEEcc--eEEEEEecCCCcccccchhhhccCCcEEE
Confidence            4568999999999999999999998887655 67776  5566777766  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHh
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETIL  148 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~  148 (160)
                      +|+|.+|++.+.+.++.+..+..+.. .+.|+++.+||.|+++.....+..+...+.
T Consensus        90 fVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als~~ei~~~L~l~  146 (181)
T KOG0070|consen   90 FVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALSAAEITNKLGLH  146 (181)
T ss_pred             EEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCCHHHHHhHhhhh
Confidence            99999999999999999988877665 688999999999998666655555444433

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.90  E-value=1.1e-22  Score=135.41  Aligned_cols=113  Identities=27%  Similarity=0.580  Sum_probs=95.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEEC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDV   97 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   97 (160)
                      |+++|++|+|||||++++.+..+...+.++.+.+..  .+...+  +.+.+||+||+..+...+..++.++|++++|+|+
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~   77 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMR--KVTKGN--VTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDA   77 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceE--EEEECC--EEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEEC
Confidence            789999999999999999999888777777775543  344444  7899999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCC
Q 031411           98 TDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE  134 (160)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~  134 (160)
                      +++.++.....|+..+... ...+.|+++++||+|+.+
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  115 (159)
T cd04159          78 ADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPG  115 (159)
T ss_pred             CCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC
Confidence            9999998888888877543 225789999999999864

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.

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

Probab=99.89  E-value=1.1e-23  Score=134.74  Aligned_cols=142  Identities=23%  Similarity=0.440  Sum_probs=113.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      .++.+.++|..++|||||.|.+..+.+.+...++.+  ++...++..+  +.+.+||.||++++..+|..+.++++++++
T Consensus        19 ~emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvG--fnmrk~tkgn--vtiklwD~gGq~rfrsmWerycR~v~aivY   94 (186)
T KOG0075|consen   19 EEMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVG--FNMRKVTKGN--VTIKLWDLGGQPRFRSMWERYCRGVSAIVY   94 (186)
T ss_pred             heeeEEEEeeccCCcceEEEEEeeccchhhhccccc--ceeEEeccCc--eEEEEEecCCCccHHHHHHHHhhcCcEEEE
Confidence            357899999999999999999999999888888888  4445554444  889999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHHHh----hhcceEEEEee
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHETIL----LTVQVHLVILK  159 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~----~~~~~~~~~~k  159 (160)
                      |+|+++++.++..+..+..+... .-.++|.+|+|||.|++++.......+...+.    ++..|..+|+|
T Consensus        95 ~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~~~li~rmgL~sitdREvcC~siSck  165 (186)
T KOG0075|consen   95 VVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSKIALIERMGLSSITDREVCCFSISCK  165 (186)
T ss_pred             EeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccccHHHHHHHhCccccccceEEEEEEEEc
Confidence            99999999998888888877543 34689999999999998665544443333222    23445666654

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

Probab=99.89  E-value=5.5e-22  Score=139.29  Aligned_cols=121  Identities=45%  Similarity=0.735  Sum_probs=106.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|+.|+|||||++++..+.+...+.++.+..+........+..+.+.+||++|++++..++..++.++++++++|
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~   85 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVY   85 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEE
Confidence            89999999999999999999999999888888776666666655555788999999999999999999999999999999


Q ss_pred             ECCC-hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc
Q 031411           96 DVTD-ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK  136 (160)
Q Consensus        96 d~~~-~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~  136 (160)
                      |..+ ..+.+....|...+....+.+.|+++++||+|+....
T Consensus        86 d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~  127 (219)
T COG1100          86 DSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQ  127 (219)
T ss_pred             ecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccch
Confidence            9999 5666777889999988776678999999999997543

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.89  E-value=6e-22  Score=131.38  Aligned_cols=119  Identities=39%  Similarity=0.589  Sum_probs=100.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|.+|+|||||++.+..+.+...+.++.+.+.....+..++..+.+.+||+||+..+..++...+..++.++.++
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~   81 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVF   81 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEE
Confidence            79999999999999999999998877777778887777766777777788999999999999888888899999999999


Q ss_pred             ECCCh-hhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           96 DVTDE-SSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        96 d~~~~-~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      |.... .++.... .|...+......+.|+++++||+|+..
T Consensus        82 d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  122 (161)
T TIGR00231        82 DIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRD  122 (161)
T ss_pred             EEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCc
Confidence            99876 6666555 677777665544889999999999963

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.

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

Probab=99.88  E-value=3.1e-22  Score=127.13  Aligned_cols=130  Identities=23%  Similarity=0.505  Sum_probs=107.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .++|+++|..++||||++.+|.-+.. ....+|.+  ++...+++.+  +.|++||.+|+++.+..|..++.+..++|||
T Consensus        17 E~~ilmlGLd~aGKTtiLyKLkl~~~-~~~ipTvG--FnvetVtykN--~kfNvwdvGGqd~iRplWrhYy~gtqglIFV   91 (180)
T KOG0071|consen   17 EMRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVG--FNVETVTYKN--VKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   91 (180)
T ss_pred             cceEEEEecccCCceehhhHHhcCCC-cccccccc--eeEEEEEeee--eEEeeeeccCchhhhHHHHhhccCCceEEEE
Confidence            58999999999999999999987663 34466666  6667778877  7899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhh
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILL  149 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~  149 (160)
                      +|+++.+.+++.+..+..+.++.. .+.|++|++||.|+++...+.+..+..++-+
T Consensus        92 ~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~leLe~  147 (180)
T KOG0071|consen   92 VDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKLELER  147 (180)
T ss_pred             EeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHhcccc
Confidence            999999999999988888866543 6899999999999986555444444433333

>cd04155 Arl3 Arl3 subfamily

Probab=99.88  E-value=2.8e-21  Score=130.96  Aligned_cols=119  Identities=22%  Similarity=0.428  Sum_probs=94.6

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      ..+..++|+++|++|+|||||++++.+..+. ...++.+.  ....+..++  ..+.+||++|+..+...+..+++.+|+
T Consensus        10 ~~~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~--~~~~i~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~   84 (173)
T cd04155          10 KSSEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGF--NIKTVQSDG--FKLNVWDIGGQRAIRPYWRNYFENTDC   84 (173)
T ss_pred             ccCCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCc--ceEEEEECC--EEEEEEECCCCHHHHHHHHHHhcCCCE
Confidence            3445799999999999999999999987653 23444443  334455555  678999999998888888888999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCC
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE  134 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~  134 (160)
                      +++|+|+++..+++....|+..+... ...++|+++++||+|+.+
T Consensus        85 ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  129 (173)
T cd04155          85 LIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLAT  129 (173)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCcc
Confidence            99999999988898888877776543 235789999999999863

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.

>PTZ00099 rab6; Provisional

Probab=99.88  E-value=4.7e-21  Score=130.44  Aligned_cols=121  Identities=36%  Similarity=0.630  Sum_probs=104.6

Q ss_pred             CCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhc
Q 031411           38 GSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA  117 (160)
Q Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~  117 (160)
                      +.|.+.+.+|.+.++....+..++..+.+.+|||+|++++..++..+++++|++++|||.+++.+|+.+..|+..+....
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~   82 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNER   82 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            45667788899888888888889989999999999999999999999999999999999999999999999999997765


Q ss_pred             CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEE--EEee
Q 031411          118 SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHL--VILK  159 (160)
Q Consensus       118 ~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~--~~~k  159 (160)
                      ..++|+++++||+|+. ....+..+++.+++..+++.+  +|||
T Consensus        83 ~~~~piilVgNK~DL~-~~~~v~~~e~~~~~~~~~~~~~e~SAk  125 (176)
T PTZ00099         83 GKDVIIALVGNKTDLG-DLRKVTYEEGMQKAQEYNTMFHETSAK  125 (176)
T ss_pred             CCCCeEEEEEECcccc-cccCCCHHHHHHHHHHcCCEEEEEECC
Confidence            5578999999999997 345578888999998887655  4554

>cd01898 Obg Obg subfamily

Probab=99.88  E-value=1.7e-21  Score=131.53  Aligned_cols=140  Identities=17%  Similarity=0.179  Sum_probs=92.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcc----cccccchhh---ccCCc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE----RFRTITTAY---YRGAM   89 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~----~~~~~~~~~---~~~~~   89 (160)
                      +|+++|.+|+|||||+++|.+........+..+.+.....+..++. ..+.+|||||..    ....+...+   +..+|
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~~-~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d   80 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDDG-RSFVVADIPGLIEGASEGKGLGHRFLRHIERTR   80 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCCC-CeEEEEecCcccCcccccCCchHHHHHHHHhCC
Confidence            6899999999999999999976542221122222232233334442 478999999963    222233333   44699


Q ss_pred             EEEEEEECCCh-hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCccCCChhHHHHHhhh---cceEEEEee
Q 031411           90 GILLVYDVTDE-SSFNNIRNWIRNIEQHAS--DNVNKILVGNKADMDESKREAPFCLHETILLT---VQVHLVILK  159 (160)
Q Consensus        90 ~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~---~~~~~~~~k  159 (160)
                      ++++|+|++++ ++++.+..|++.+.....  .+.|+++++||+|+.+...  ..+..+.+..+   ..+..+++|
T Consensus        81 ~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~Sa~  154 (170)
T cd01898          81 LLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEE--LFELLKELLKELWGKPVFPISAL  154 (170)
T ss_pred             EEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchh--hHHHHHHHHhhCCCCCEEEEecC
Confidence            99999999998 789999999998876543  3689999999999963322  23334444444   234556654

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.

>cd01890 LepA LepA subfamily

Probab=99.87  E-value=2.4e-21  Score=132.03  Aligned_cols=114  Identities=25%  Similarity=0.350  Sum_probs=83.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC-------CCCcccc------ceeeeEEEE--EEEE---CCEEEEEEEecCCCccccc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS-------FTTSFIT------TIGIDFKIR--TIEL---DGKRIKLQIWDTAGQERFR   78 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~-------~~~~~~~------~~~~~~~~~--~~~~---~~~~~~~~~~D~~g~~~~~   78 (160)
                      +|+++|..++|||||+++|.+..       +...+.+      +.+..+...  .+.+   ++..+.+.+|||||++++.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            79999999999999999998632       1111111      111222222  2222   5567889999999999998


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           79 TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        79 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ..+..++.++|++++|||+++..+++....|....    ..++|+++++||+|+.+
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~----~~~~~iiiv~NK~Dl~~  133 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL----ENNLEIIPVINKIDLPS  133 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH----HcCCCEEEEEECCCCCc
Confidence            88888999999999999999876666665554332    23789999999999963

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.

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

Probab=99.87  E-value=1.7e-21  Score=134.68  Aligned_cols=129  Identities=20%  Similarity=0.247  Sum_probs=89.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc--CCCCCcc------------ccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD--GSFTTSF------------ITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT   81 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~   81 (160)
                      .+|+++|.+++|||||+++|..  +.+....            ..+.+.+............+.+.+|||||++++...+
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~   82 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEV   82 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHH
Confidence            4899999999999999999997  4443321            1122333333333333345789999999999998889


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHh
Q 031411           82 TAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETIL  148 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~  148 (160)
                      ..+++++|++++|||+++.. +.....++..+..   .++|+++++||+|+.+.......+++.++.
T Consensus        83 ~~~~~~~d~~ilV~d~~~~~-~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~  145 (194)
T cd01891          83 ERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPDARPEEVVDEVFDLF  145 (194)
T ss_pred             HHHHHhcCEEEEEEECCCCc-cHHHHHHHHHHHH---cCCCEEEEEECCCCCCCCHHHHHHHHHHHH
Confidence            99999999999999998732 2333334443332   378999999999996433333345555554

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

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

Probab=99.87  E-value=6.1e-21  Score=128.69  Aligned_cols=137  Identities=18%  Similarity=0.157  Sum_probs=87.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc---------cchhhccC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT---------ITTAYYRG   87 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~---------~~~~~~~~   87 (160)
                      +|+++|.+|+|||||++++.+..+.....+..+.+.........  .+.+.+|||||+.....         ........
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~   79 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDYK--YLRWQVIDTPGLLDRPLEERNTIEMQAITALAHL   79 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeEEEEccC--ceEEEEEECCCcCCccccCCchHHHHHHHHHHhc
Confidence            79999999999999999999987643322222222222233333  36899999999742110         00011123


Q ss_pred             CcEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc--ceEEEEee
Q 031411           88 AMGILLVYDVTDESS--FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTV--QVHLVILK  159 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~--~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~~k  159 (160)
                      .|++++|+|++++.+  ++....|+..+..... +.|+++++||+|+.+...   ..+.+++....  .+..+|||
T Consensus        80 ~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~-~~pvilv~NK~Dl~~~~~---~~~~~~~~~~~~~~~~~~Sa~  151 (168)
T cd01897          80 RAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFK-NKPVIVVLNKIDLLTFED---LSEIEEEEELEGEEVLKISTL  151 (168)
T ss_pred             cCcEEEEEeCCcccccchHHHHHHHHHHHhhcC-cCCeEEEEEccccCchhh---HHHHHHhhhhccCceEEEEec
Confidence            689999999998754  4666778888766543 789999999999963322   22244444433  35556665

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>cd01878 HflX HflX subfamily

Probab=99.87  E-value=4.2e-21  Score=133.58  Aligned_cols=120  Identities=22%  Similarity=0.210  Sum_probs=86.8

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc---------cccchh
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF---------RTITTA   83 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~---------~~~~~~   83 (160)
                      +..++|+++|++|||||||++++.+...........+.+.....+...+. ..+.+||+||....         ... ..
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~-~~  116 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRST-LE  116 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHH-HH
Confidence            45689999999999999999999987644332223333344444444442 37899999997321         111 11


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           84 YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+.++|++++|+|++++.+++....|...+......+.|+++++||+|+.+
T Consensus       117 ~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~  167 (204)
T cd01878         117 EVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLD  167 (204)
T ss_pred             HHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCC
Confidence            356899999999999988888877777777665555789999999999963

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.

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

Probab=99.87  E-value=3.3e-21  Score=134.05  Aligned_cols=118  Identities=19%  Similarity=0.396  Sum_probs=89.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC-cEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA-MGILLVY   95 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~-~~~i~v~   95 (160)
                      +|+++|++++|||+|+++|..+.+.....++.. ..........+....+.+||+||+.++...+..+++.+ +++|+|+
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~~~-~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~Vv   80 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSIEP-NVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVV   80 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcEee-cceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEE
Confidence            689999999999999999999877665444321 22211121113346799999999999988888889998 9999999


Q ss_pred             ECCCh-hhHHHHHHHHHHHHHh---cCCCCcEEEEEeCCCCCCC
Q 031411           96 DVTDE-SSFNNIRNWIRNIEQH---ASDNVNKILVGNKADMDES  135 (160)
Q Consensus        96 d~~~~-~~~~~~~~~~~~~~~~---~~~~~pi~vv~~K~Dl~~~  135 (160)
                      |+.+. .++..+.+|+..+...   ...++|+++++||+|+...
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            99987 6777777777665432   2257999999999998643

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

>cd04171 SelB SelB subfamily

Probab=99.86  E-value=5.2e-21  Score=128.29  Aligned_cols=136  Identities=19%  Similarity=0.161  Sum_probs=86.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC---CCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG---SFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      .|+++|++++|||||+++|.+.   .+..+..++.+.+.....+...+ ...+.+|||||++++.......+.++|++++
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~   80 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLL   80 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEE
Confidence            6899999999999999999863   23323233334344334445542 2579999999998887666667889999999


Q ss_pred             EEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcc-CCChhHHHHHhhh-----cceEEEEee
Q 031411           94 VYDVTD---ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR-EAPFCLHETILLT-----VQVHLVILK  159 (160)
Q Consensus        94 v~d~~~---~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~-~~~~~~~~~~~~~-----~~~~~~~~k  159 (160)
                      |+|+++   +.+.+.+    ..+... . ..|+++++||+|+.+... ....++..++.+.     ..+.++|+|
T Consensus        81 V~d~~~~~~~~~~~~~----~~~~~~-~-~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  149 (164)
T cd04171          81 VVAADEGIMPQTREHL----EILELL-G-IKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAV  149 (164)
T ss_pred             EEECCCCccHhHHHHH----HHHHHh-C-CCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCC
Confidence            999986   3333322    222211 1 248999999999964321 1223344444433     345555554

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

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.86  E-value=8e-21  Score=140.61  Aligned_cols=142  Identities=17%  Similarity=0.138  Sum_probs=98.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc----cccc---hhhccCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF----RTIT---TAYYRGA   88 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~----~~~~---~~~~~~~   88 (160)
                      ..|.|+|.++||||||+++|++........+.++..+....+.+.+ ..++.+||+||...-    ..+.   ...++++
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~~-~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a  237 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDD-YKSFVIADIPGLIEGASEGAGLGHRFLKHIERT  237 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeCC-CcEEEEEeCCCccCCCCccccHHHHHHHHhhhc
Confidence            5689999999999999999998654433334445555555555532 246899999996321    1222   3345689


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc--ceEEEEee
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHAS--DNVNKILVGNKADMDESKREAPFCLHETILLTV--QVHLVILK  159 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~~k  159 (160)
                      +++++|+|+++.++++.+..|..++..+.+  .+.|+++++||+|+.+. .....++.+.++...  .+.++||+
T Consensus       238 ~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~-~~~~~~~~~~~~~~~~~~i~~iSAk  311 (335)
T PRK12299        238 RLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDE-EEEREKRAALELAALGGPVFLISAV  311 (335)
T ss_pred             CEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCc-hhHHHHHHHHHHHhcCCCEEEEEcC
Confidence            999999999988889999999999977654  46899999999999633 222333344444443  45566664

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.85  E-value=7.2e-21  Score=122.95  Aligned_cols=147  Identities=23%  Similarity=0.490  Sum_probs=126.6

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ....-.+||.++|++..|||||+-++..+.+++++..+.+.++..+.+...+..+.|.+||++|++++..+.+....++-
T Consensus        15 ~~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsv   94 (205)
T KOG1673|consen   15 VSNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSV   94 (205)
T ss_pred             cccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcE
Confidence            34456699999999999999999999999998999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC----CCCccCCChhHHHHHhhhcceEEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM----DESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl----~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +++++||.+.+.++..+.+|+++........+|++ +|+|-|+    +++.......+++++++-.++..++
T Consensus        95 aIlFmFDLt~r~TLnSi~~WY~QAr~~NktAiPil-vGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F  165 (205)
T KOG1673|consen   95 AILFMFDLTRRSTLNSIKEWYRQARGLNKTAIPIL-VGTKYDLFIDLPPELQETISRQARKYAKVMNASLFF  165 (205)
T ss_pred             EEEEEEecCchHHHHHHHHHHHHHhccCCccceEE-eccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEE
Confidence            99999999999999999999999988777677765 6899995    4333444556688888888765444

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.85  E-value=3.8e-20  Score=137.97  Aligned_cols=119  Identities=24%  Similarity=0.265  Sum_probs=88.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc---------ccccchh
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER---------FRTITTA   83 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~---------~~~~~~~   83 (160)
                      +..++|+++|.+|+|||||+|+|.+........+..+.++....+...+. ..+.+|||+|..+         +... ..
T Consensus       187 ~~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~-~~i~l~DT~G~~~~l~~~lie~f~~t-le  264 (351)
T TIGR03156       187 ADVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDG-GEVLLTDTVGFIRDLPHELVAAFRAT-LE  264 (351)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCC-ceEEEEecCcccccCCHHHHHHHHHH-HH
Confidence            34589999999999999999999987654433344455666667777432 4789999999621         2111 12


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           84 YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .+.++|++++|+|++++.+.+.+..|...+......+.|+++|+||+|+.
T Consensus       265 ~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~  314 (351)
T TIGR03156       265 EVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLL  314 (351)
T ss_pred             HHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCC
Confidence            46789999999999998888877767666655544578999999999996

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).

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

Probab=99.85  E-value=2.3e-20  Score=125.72  Aligned_cols=114  Identities=20%  Similarity=0.157  Sum_probs=81.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC-CEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD-GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      .|+++|.+++|||||+++|..+.+.....++.+.+.....+..+ +....+.+|||||+..+..++...+..+|++++|+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~   81 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVV   81 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEE
Confidence            58999999999999999999887765433334433333344433 13468999999999888888888889999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      |+++....+.. ..+..+..   .+.|+++++||+|+.+
T Consensus        82 d~~~~~~~~~~-~~~~~~~~---~~~p~ivv~NK~Dl~~  116 (168)
T cd01887          82 AADDGVMPQTI-EAIKLAKA---ANVPFIVALNKIDKPN  116 (168)
T ss_pred             ECCCCccHHHH-HHHHHHHH---cCCCEEEEEEceeccc
Confidence            99874321111 11222222   3689999999999863

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.84  E-value=9.9e-20  Score=119.54  Aligned_cols=115  Identities=57%  Similarity=0.979  Sum_probs=92.3

Q ss_pred             EEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECC
Q 031411           20 LIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVT   98 (160)
Q Consensus        20 v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   98 (160)
                      ++|++|+|||||++++.+... .....++. .+..............+.+||+||+..+...+...+..+|++++|+|.+
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            589999999999999998776 44444444 5666666666666789999999998888877788899999999999999


Q ss_pred             ChhhHHHHHHHHH-HHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           99 DESSFNNIRNWIR-NIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        99 ~~~~~~~~~~~~~-~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ++.+++....|.. ........+.|+++++||+|+.+.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~  117 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEE  117 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccc
Confidence            9999988888732 233334458999999999998633

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

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.84  E-value=1.6e-19  Score=138.23  Aligned_cols=115  Identities=27%  Similarity=0.298  Sum_probs=87.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc--------hh
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT--------TA   83 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~--------~~   83 (160)
                      ...++|+++|++|+|||||+|+|.+... .....++.+.+.....+..++  ..+.+|||||.......+        ..
T Consensus       201 ~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g--~~v~l~DTaG~~~~~~~ie~~gi~~~~~  278 (442)
T TIGR00450       201 DDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNG--ILIKLLDTAGIREHADFVERLGIEKSFK  278 (442)
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECC--EEEEEeeCCCcccchhHHHHHHHHHHHH
Confidence            4458999999999999999999998653 223334555666666777777  567899999986544322        35


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           84 YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +++++|++++|||++++.+++..  |+..+..   .+.|+++++||+|+.+
T Consensus       279 ~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~  324 (442)
T TIGR00450       279 AIKQADLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKI  324 (442)
T ss_pred             HHhhCCEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCC
Confidence            67899999999999988877665  6655532   3679999999999963

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.84  E-value=1.9e-20  Score=123.10  Aligned_cols=119  Identities=20%  Similarity=0.209  Sum_probs=81.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcc-----cccccchhhccCCcEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE-----RFRTITTAYYRGAMGI   91 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~-----~~~~~~~~~~~~~~~~   91 (160)
                      ||+++|++|+|||||++++.+..+.  +.++.+.       .+..     .+||+||+.     .+..+.. .++++|++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~--~~~t~~~-------~~~~-----~~iDt~G~~~~~~~~~~~~~~-~~~~ad~v   66 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL--YKKTQAV-------EYND-----GAIDTPGEYVENRRLYSALIV-TAADADVI   66 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc--cccceeE-------EEcC-----eeecCchhhhhhHHHHHHHHH-HhhcCCEE
Confidence            8999999999999999999987642  2222222       2222     589999973     2333322 47899999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce---EEEEee
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV---HLVILK  159 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~~k  159 (160)
                      ++|||++++.++.. ..|...+      ..|+++++||+|+.+  .....+++++++.+++.   ..+|||
T Consensus        67 ilv~d~~~~~s~~~-~~~~~~~------~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~  128 (142)
T TIGR02528        67 ALVQSATDPESRFP-PGFASIF------VKPVIGLVTKIDLAE--ADVDIERAKELLETAGAEPIFEISSV  128 (142)
T ss_pred             EEEecCCCCCcCCC-hhHHHhc------cCCeEEEEEeeccCC--cccCHHHHHHHHHHcCCCcEEEEecC
Confidence            99999999888754 2343322      239999999999963  23456667777777654   344554

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.

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.84  E-value=3e-19  Score=115.20  Aligned_cols=137  Identities=26%  Similarity=0.422  Sum_probs=109.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCC--CccccceeeeEEEEEEEE-CCEEEEEEEecCCCcccc-cccchhhccCCcE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFT--TSFITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQERF-RTITTAYYRGAMG   90 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~-~~~~~~~~~~~~~   90 (160)
                      ..|++++|..++|||++++.+.-++..  .+..+|.. +.+...+.. .+.+..+.++||.|-+.+ ..+...++.-+|+
T Consensus         9 ~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiE-DiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDa   87 (198)
T KOG3883|consen    9 VCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIE-DIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADA   87 (198)
T ss_pred             ceEEEEECCccccHHHHHHHHHhccCCCCCccccchh-hheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCce
Confidence            479999999999999999999854433  33445544 444455444 355678999999998777 5667888999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQV  153 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~  153 (160)
                      +++||+..+++||+.+.-....+.++.. +.+||+|++||+|+. ...++..+-++.||+.-.+
T Consensus        88 fVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~-~p~~vd~d~A~~Wa~rEkv  150 (198)
T KOG3883|consen   88 FVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRA-EPREVDMDVAQIWAKREKV  150 (198)
T ss_pred             EEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcc-cchhcCHHHHHHHHhhhhe
Confidence            9999999999999998887777877653 568999999999997 6678888899999987554

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

Probab=99.83  E-value=1.9e-19  Score=120.10  Aligned_cols=129  Identities=16%  Similarity=0.143  Sum_probs=88.1

Q ss_pred             EEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc------chhhc--cCCcEE
Q 031411           20 LIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI------TTAYY--RGAMGI   91 (160)
Q Consensus        20 v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~------~~~~~--~~~~~~   91 (160)
                      ++|.+|+|||||++++.+..+.....++.+.+.....+..++  ..+.+|||||+..+...      +..++  .++|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            589999999999999998765544445555555556666666  47899999998766542      44555  489999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc--eEEEEe
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQ--VHLVIL  158 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~  158 (160)
                      ++++|+.+++..   ..|+..+..   .+.|+++++||+|+.+... .. .+.++++...+  +..+++
T Consensus        79 i~v~d~~~~~~~---~~~~~~~~~---~~~~~iiv~NK~Dl~~~~~-~~-~~~~~~~~~~~~~~~~iSa  139 (158)
T cd01879          79 VNVVDATNLERN---LYLTLQLLE---LGLPVVVALNMIDEAEKRG-IK-IDLDKLSELLGVPVVPTSA  139 (158)
T ss_pred             EEEeeCCcchhH---HHHHHHHHH---cCCCEEEEEehhhhccccc-ch-hhHHHHHHhhCCCeEEEEc
Confidence            999999876443   234444433   3689999999999964322 22 22445665555  444444

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.83  E-value=1.8e-19  Score=133.32  Aligned_cols=141  Identities=14%  Similarity=0.103  Sum_probs=96.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc----cccchh---hccCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF----RTITTA---YYRGA   88 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~----~~~~~~---~~~~~   88 (160)
                      ..|+++|.+++|||||+++|.+........+.++.......+.+++ ..++.+||+||....    ..+...   .++++
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhiera  236 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIERT  236 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHHhh
Confidence            6789999999999999999998654332223333444545555544 257899999996421    122223   35579


Q ss_pred             cEEEEEEECCCh---hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc--eEEEEee
Q 031411           89 MGILLVYDVTDE---SSFNNIRNWIRNIEQHAS--DNVNKILVGNKADMDESKREAPFCLHETILLTVQ--VHLVILK  159 (160)
Q Consensus        89 ~~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~k  159 (160)
                      +++++|+|+++.   ++++.+..|..++..+..  .+.|+++++||+|+.+..  ...+..++++.+.+  +..+||+
T Consensus       237 d~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~--~~~~~~~~l~~~~~~~vi~iSAk  312 (329)
T TIGR02729       237 RVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEE--ELAELLKELKKALGKPVFPISAL  312 (329)
T ss_pred             CEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChH--HHHHHHHHHHHHcCCcEEEEEcc
Confidence            999999999976   678888888888876543  468999999999996432  12334455555544  4556654

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.

>PRK04213 GTP-binding protein; Provisional

Probab=99.83  E-value=2e-20  Score=129.86  Aligned_cols=126  Identities=16%  Similarity=0.169  Sum_probs=79.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCC-----------cccccccch
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG-----------QERFRTITT   82 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g-----------~~~~~~~~~   82 (160)
                      ..++|+++|.+|+|||||++++.+..+.....++.+..  ...+...    .+.+|||||           ++++...+.
T Consensus         8 ~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t~~--~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   81 (201)
T PRK04213          8 RKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVTRK--PNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEIV   81 (201)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCceeeC--ceEEeec----ceEEEeCCccccccccCHHHHHHHHHHHH
Confidence            45799999999999999999999887665555544433  2233332    589999999           445555444


Q ss_pred             hhcc----CCcEEEEEEECCChhhH-HH---------HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHh
Q 031411           83 AYYR----GAMGILLVYDVTDESSF-NN---------IRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETIL  148 (160)
Q Consensus        83 ~~~~----~~~~~i~v~d~~~~~~~-~~---------~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~  148 (160)
                      .++.    .++++++|+|..+...+ +.         -.+.+..+.   ..++|+++++||+|+.+..    .+..++++
T Consensus        82 ~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~p~iiv~NK~Dl~~~~----~~~~~~~~  154 (201)
T PRK04213         82 RYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLR---ELGIPPIVAVNKMDKIKNR----DEVLDEIA  154 (201)
T ss_pred             HHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHH---HcCCCeEEEEECccccCcH----HHHHHHHH
Confidence            4443    46788889888643221 00         011111111   2478999999999996332    23445555


Q ss_pred             hhcc
Q 031411          149 LTVQ  152 (160)
Q Consensus       149 ~~~~  152 (160)
                      ...+
T Consensus       155 ~~~~  158 (201)
T PRK04213        155 ERLG  158 (201)
T ss_pred             HHhc
Confidence            4444

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

Probab=99.82  E-value=2.1e-19  Score=121.83  Aligned_cols=112  Identities=24%  Similarity=0.284  Sum_probs=79.4

Q ss_pred             EEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC-CEEEEEEEecCCCccc----ccccc---hhhccCCcEE
Q 031411           20 LIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD-GKRIKLQIWDTAGQER----FRTIT---TAYYRGAMGI   91 (160)
Q Consensus        20 v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~----~~~~~---~~~~~~~~~~   91 (160)
                      ++|++|+|||||+++|.+........+..+.+.....+..+ +  ..+.+||+||...    .+.++   ...+.++|++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~i   78 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVPDG--ARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAI   78 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcCCC--CeEEEEeccccchhhhcCCCccHHHHHHHhccCEE
Confidence            58999999999999999876422222222233333444455 4  5789999999632    22222   2346789999


Q ss_pred             EEEEECCCh------hhHHHHHHHHHHHHHhcC-------CCCcEEEEEeCCCCC
Q 031411           92 LLVYDVTDE------SSFNNIRNWIRNIEQHAS-------DNVNKILVGNKADMD  133 (160)
Q Consensus        92 i~v~d~~~~------~~~~~~~~~~~~~~~~~~-------~~~pi~vv~~K~Dl~  133 (160)
                      ++|+|+.++      .+++.+..|...+.....       .+.|+++++||+|+.
T Consensus        79 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~  133 (176)
T cd01881          79 LHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLD  133 (176)
T ss_pred             EEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcC
Confidence            999999987      578888888887765432       368999999999996

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

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

Probab=99.82  E-value=1.6e-19  Score=115.04  Aligned_cols=117  Identities=28%  Similarity=0.525  Sum_probs=99.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      .+.+||+++|..++|||||+..|..-+ +....++.+  ++.+.+..++ .+++++||.+|+......|..++.+.|++|
T Consensus        15 ~rEirilllGldnAGKTT~LKqL~sED-~~hltpT~G--Fn~k~v~~~g-~f~LnvwDiGGqr~IRpyWsNYyenvd~lI   90 (185)
T KOG0074|consen   15 RREIRILLLGLDNAGKTTFLKQLKSED-PRHLTPTNG--FNTKKVEYDG-TFHLNVWDIGGQRGIRPYWSNYYENVDGLI   90 (185)
T ss_pred             cceEEEEEEecCCCcchhHHHHHccCC-hhhccccCC--cceEEEeecC-cEEEEEEecCCccccchhhhhhhhccceEE
Confidence            567999999999999999999998754 334455555  5667777766 479999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMD  133 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~  133 (160)
                      +|+|.+|+..|+++.+.+-++.... -..+|+++.+||.|+.
T Consensus        91 yVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdll  132 (185)
T KOG0074|consen   91 YVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLL  132 (185)
T ss_pred             EEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHH
Confidence            9999999999999988887776543 3578999999999985

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

Probab=99.81  E-value=3.5e-19  Score=121.64  Aligned_cols=141  Identities=18%  Similarity=0.216  Sum_probs=87.7

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcc----------cccccc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE----------RFRTIT   81 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~----------~~~~~~   81 (160)
                      ....++|+++|.+|+|||||++++.+..+.....++.+.......+..++   .+.+||+||..          .+..+.
T Consensus        15 ~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~~~~   91 (179)
T TIGR03598        15 PDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQKLI   91 (179)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHHHHH
Confidence            35668999999999999999999998764333233332222222233333   68999999942          222223


Q ss_pred             hhhcc---CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-ccCCChhHHHHHhhhc----ce
Q 031411           82 TAYYR---GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES-KREAPFCLHETILLTV----QV  153 (160)
Q Consensus        82 ~~~~~---~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-~~~~~~~~~~~~~~~~----~~  153 (160)
                      ..+++   .++++++|+|++++-+.... .++..+..   .+.|+++++||+|+.+. ......+++++.....    .+
T Consensus        92 ~~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~~~v  167 (179)
T TIGR03598        92 EEYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADDPSV  167 (179)
T ss_pred             HHHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCCCce
Confidence            33444   46899999999875443333 22233322   36899999999998632 2233455566666654    46


Q ss_pred             EEEEee
Q 031411          154 HLVILK  159 (160)
Q Consensus       154 ~~~~~k  159 (160)
                      ..+||+
T Consensus       168 ~~~Sa~  173 (179)
T TIGR03598       168 QLFSSL  173 (179)
T ss_pred             EEEECC
Confidence            666664

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.

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

Probab=99.81  E-value=1.1e-19  Score=120.28  Aligned_cols=131  Identities=19%  Similarity=0.220  Sum_probs=87.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccc------ccchhhc--cC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR------TITTAYY--RG   87 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~------~~~~~~~--~~   87 (160)
                      ++|+++|.||+|||||+|+|++........+..+.+.....+...+  ..+.++|+||.....      .+...++  ..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~--~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~   78 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD--QQVELVDLPGIYSLSSKSEEERVARDYLLSEK   78 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT--EEEEEEE----SSSSSSSHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC--ceEEEEECCCcccCCCCCcHHHHHHHHHhhcC
Confidence            5899999999999999999999887666677777777777788877  578999999954332      2223333  58


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      .|++++|+|++..+.   -.....++..   .++|++++.||+|...+.. .. .+..++++..++..+
T Consensus        79 ~D~ii~VvDa~~l~r---~l~l~~ql~e---~g~P~vvvlN~~D~a~~~g-~~-id~~~Ls~~Lg~pvi  139 (156)
T PF02421_consen   79 PDLIIVVVDATNLER---NLYLTLQLLE---LGIPVVVVLNKMDEAERKG-IE-IDAEKLSERLGVPVI  139 (156)
T ss_dssp             SSEEEEEEEGGGHHH---HHHHHHHHHH---TTSSEEEEEETHHHHHHTT-EE-E-HHHHHHHHTS-EE
T ss_pred             CCEEEEECCCCCHHH---HHHHHHHHHH---cCCCEEEEEeCHHHHHHcC-CE-ECHHHHHHHhCCCEE
Confidence            999999999976432   2222333332   3789999999999853222 22 235666666665443

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 ....

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

Probab=99.81  E-value=1.7e-18  Score=115.09  Aligned_cols=112  Identities=25%  Similarity=0.280  Sum_probs=79.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc--------chhhcc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI--------TTAYYR   86 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~--------~~~~~~   86 (160)
                      ++|+++|++|+|||||++++.+.... ....+..+.+.....+..++  ..+.+||+||...+...        ....+.
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~   79 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGG--IPVRLIDTAGIRETEDEIEKIGIERAREAIE   79 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCC--EEEEEEECCCcCCCcchHHHHHHHHHHHHHh
Confidence            58999999999999999999987542 12233333344444455554  57899999997654322        224567


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      .+|++++|+|++++.+......+..      ..+.|+++++||+|+.+.
T Consensus        80 ~~~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~  122 (157)
T cd04164          80 EADLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPD  122 (157)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCc
Confidence            8999999999998777666543332      347899999999999643

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.80  E-value=6.8e-19  Score=138.97  Aligned_cols=116  Identities=23%  Similarity=0.313  Sum_probs=85.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCC-------CCCccc------cceeeeEEE--EEEEE---CCEEEEEEEecCCCccc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGS-------FTTSFI------TTIGIDFKI--RTIEL---DGKRIKLQIWDTAGQER   76 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~-------~~~~~~------~~~~~~~~~--~~~~~---~~~~~~~~~~D~~g~~~   76 (160)
                      .-+|+++|+.++|||||+++|+...       +...+.      ...+++...  ..+.+   ++..+.+.+|||||+..
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            4589999999999999999998642       111111      111222322  22322   45668999999999999


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           77 FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +...+..++..+|++++|+|+++..+.+....|...+.    .++|+++++||+|+.+
T Consensus        83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~  136 (595)
T TIGR01393        83 FSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPS  136 (595)
T ss_pred             HHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCc
Confidence            98888899999999999999998766666666654432    3789999999999963

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.80  E-value=9.3e-19  Score=134.51  Aligned_cols=113  Identities=27%  Similarity=0.256  Sum_probs=84.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc--------chhh
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI--------TTAY   84 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~--------~~~~   84 (160)
                      ..++|+++|.+|+|||||+|+|.+... .....+..+.+.....+..++  ..+.+|||||...+...        ....
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~i~l~DT~G~~~~~~~ie~~gi~~~~~~  291 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG--IPLRLIDTAGIRETDDEVEKIGIERSREA  291 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECC--eEEEEEeCCCCCCCccHHHHHHHHHHHHH
Confidence            347999999999999999999998764 233344445556666667766  56899999998654432        1235


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           85 YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +..+|++++|+|++++.+++....|..      ..+.|+++|+||+|+.+
T Consensus       292 ~~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~  335 (449)
T PRK05291        292 IEEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTG  335 (449)
T ss_pred             HHhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhccc
Confidence            788999999999998887775544433      34789999999999963

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.80  E-value=1.8e-18  Score=136.09  Aligned_cols=118  Identities=20%  Similarity=0.195  Sum_probs=86.8

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      ..+..+|+++|..++|||||+++|.+..+.....++.+.+.....+..++. ..+.+||||||+.|..++......+|++
T Consensus        84 ~~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDia  162 (587)
T TIGR00487        84 VERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIV  162 (587)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEE
Confidence            345579999999999999999999987776554444554444445555442 2789999999999999888889999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ++|+|+++...-+...    .+......++|+++++||+|+.+
T Consensus       163 ILVVda~dgv~~qT~e----~i~~~~~~~vPiIVviNKiDl~~  201 (587)
T TIGR00487       163 VLVVAADDGVMPQTIE----AISHAKAANVPIIVAINKIDKPE  201 (587)
T ss_pred             EEEEECCCCCCHhHHH----HHHHHHHcCCCEEEEEECccccc
Confidence            9999988632222211    11222224789999999999963

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.80  E-value=1.6e-18  Score=118.73  Aligned_cols=112  Identities=21%  Similarity=0.190  Sum_probs=81.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccc----------------cceeeeEEEEEEEECCEEEEEEEecCCCccccccc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFI----------------TTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI   80 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~   80 (160)
                      +|+++|.+|+|||||++.|.+........                ...+.......+...+  ..+.+||+||+..+...
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~   78 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPD--RRVNFIDTPGHEDFSSE   78 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCC--EEEEEEeCCCcHHHHHH
Confidence            58999999999999999998766543321                1122233333333333  67999999999888888


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           81 TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        81 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +...+..+|++++++|+.++.... ..+++..+..   .+.|+++++||+|+..
T Consensus        79 ~~~~~~~~d~~i~v~d~~~~~~~~-~~~~~~~~~~---~~~~i~iv~nK~D~~~  128 (189)
T cd00881          79 VIRGLSVSDGAILVVDANEGVQPQ-TREHLRIARE---GGLPIIVAINKIDRVG  128 (189)
T ss_pred             HHHHHHhcCEEEEEEECCCCCcHH-HHHHHHHHHH---CCCCeEEEEECCCCcc
Confidence            888899999999999998765433 2234433333   4789999999999974

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.80  E-value=4.5e-18  Score=129.08  Aligned_cols=137  Identities=18%  Similarity=0.142  Sum_probs=93.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc----ccccchhh---ccCCc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----FRTITTAY---YRGAM   89 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----~~~~~~~~---~~~~~   89 (160)
                      .|+|+|.++||||||+++|++........+.++..+....+..++ ..+|.+||+||...    ...+...+   +++++
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~~-~~~~~laD~PGliega~~~~gLg~~fLrhier~~  238 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDD-GRSFVMADIPGLIEGASEGVGLGHQFLRHIERTR  238 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEeC-CceEEEEECCCCcccccccchHHHHHHHHHhhCC
Confidence            899999999999999999998764333233344445444455542 24799999999532    22233333   55699


Q ss_pred             EEEEEEECCCh---hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc--ceEEEEee
Q 031411           90 GILLVYDVTDE---SSFNNIRNWIRNIEQHAS--DNVNKILVGNKADMDESKREAPFCLHETILLTV--QVHLVILK  159 (160)
Q Consensus        90 ~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~~k  159 (160)
                      ++++|+|+++.   +.++.+..|..++..+.+  .+.|++|++||+|+.+.     .+..++++...  .+..+||+
T Consensus       239 llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~-----~e~l~~l~~~l~~~i~~iSA~  310 (424)
T PRK12297        239 VIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA-----EENLEEFKEKLGPKVFPISAL  310 (424)
T ss_pred             EEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC-----HHHHHHHHHHhCCcEEEEeCC
Confidence            99999999864   677888888888877643  46899999999998421     23345555544  34556654

>cd01889 SelB_euk SelB subfamily

Probab=99.79  E-value=9.5e-19  Score=120.74  Aligned_cols=114  Identities=20%  Similarity=0.218  Sum_probs=73.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC----CC---CCccccceeeeEEEEEEEEC------------CEEEEEEEecCCCccc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG----SF---TTSFITTIGIDFKIRTIELD------------GKRIKLQIWDTAGQER   76 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~----~~---~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~D~~g~~~   76 (160)
                      +||+++|+.++|||||+++|...    .+   ..+..+..+.+.....+.+.            +....+.+|||||+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            48999999999999999999862    11   12222223333333333332            3357899999999865


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           77 FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +..........+|++++|+|+.+.........+.  +...  .+.|+++++||+|+.
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~--~~~~~iiv~NK~Dl~  133 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV--IGEI--LCKKLIVVLNKIDLI  133 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH--HHHH--cCCCEEEEEECcccC
Confidence            4333333456789999999998754333322222  1111  256999999999986

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

>PRK15494 era GTPase Era; Provisional

Probab=99.79  E-value=1.7e-18  Score=128.81  Aligned_cols=136  Identities=20%  Similarity=0.232  Sum_probs=87.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEECCEEEEEEEecCCCccc-ccccc-------hh
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER-FRTIT-------TA   83 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~-~~~~~-------~~   83 (160)
                      ....+|+++|.+|+|||||+|+|.+..+.. +..+..+.+.....+..++  .++.+|||||... +..+.       ..
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~--~qi~~~DTpG~~~~~~~l~~~~~r~~~~  127 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKD--TQVILYDTPGIFEPKGSLEKAMVRCAWS  127 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCC--eEEEEEECCCcCCCcccHHHHHHHHHHH
Confidence            455799999999999999999999876642 1122222333344455555  4789999999743 22221       12


Q ss_pred             hccCCcEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc----ceEEEEe
Q 031411           84 YYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTV----QVHLVIL  158 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~----~~~~~~~  158 (160)
                      .+.++|++++|+|..+  +++... .|+..+..   .+.|.++++||+|+.+.    ...++.+++.+.    .+.++||
T Consensus       128 ~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~---~~~p~IlViNKiDl~~~----~~~~~~~~l~~~~~~~~i~~iSA  198 (339)
T PRK15494        128 SLHSADLVLLIIDSLK--SFDDITHNILDKLRS---LNIVPIFLLNKIDIESK----YLNDIKAFLTENHPDSLLFPISA  198 (339)
T ss_pred             HhhhCCEEEEEEECCC--CCCHHHHHHHHHHHh---cCCCEEEEEEhhcCccc----cHHHHHHHHHhcCCCcEEEEEec
Confidence            3679999999999765  344443 34444433   24577889999999632    245566665543    3466666


Q ss_pred             e
Q 031411          159 K  159 (160)
Q Consensus       159 k  159 (160)
                      |
T Consensus       199 k  199 (339)
T PRK15494        199 L  199 (339)
T ss_pred             c
Confidence            4

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.79  E-value=3.6e-18  Score=132.23  Aligned_cols=114  Identities=24%  Similarity=0.252  Sum_probs=81.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccc--------ccccchhh
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER--------FRTITTAY   84 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~--------~~~~~~~~   84 (160)
                      ...+|+++|.+|+|||||+|+|.+.... ....++.+.+........++  ..+.+|||||...        +...+..+
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~  114 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNG--RRFTVVDTGGWEPDAKGLQASVAEQAEVA  114 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECC--cEEEEEeCCCcCCcchhHHHHHHHHHHHH
Confidence            3479999999999999999999986532 23344444555555556666  4688999999752        23334557


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           85 YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +..+|++++|||+++..++.. ..+...+..   .+.|+++|+||+|+.
T Consensus       115 ~~~aD~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~  159 (472)
T PRK03003        115 MRTADAVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDE  159 (472)
T ss_pred             HHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCC
Confidence            889999999999998655432 233333332   378999999999986

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

Probab=99.79  E-value=1.4e-18  Score=115.77  Aligned_cols=141  Identities=26%  Similarity=0.517  Sum_probs=118.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      -..++++++|..+.||||++++...+.|...+..+.+.+.....+..+...++|..|||.|++.+......++-+..+.+
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAi   87 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAI   87 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeE
Confidence            35689999999999999999999999999999999998777666655655689999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++||...+-.+.++..|-..+.+.+. ++||+++|||.|..+..   ...+...+.+..++.|+.
T Consensus        88 imFdVtsr~t~~n~~rwhrd~~rv~~-NiPiv~cGNKvDi~~r~---~k~k~v~~~rkknl~y~~  148 (216)
T KOG0096|consen   88 IMFDVTSRFTYKNVPRWHRDLVRVRE-NIPIVLCGNKVDIKARK---VKAKPVSFHRKKNLQYYE  148 (216)
T ss_pred             EEeeeeehhhhhcchHHHHHHHHHhc-CCCeeeeccceeccccc---cccccceeeecccceeEE
Confidence            99999999999999999999988888 69999999999985322   222333445555655543

>TIGR00436 era GTP-binding protein Era

Probab=99.79  E-value=2.5e-18  Score=124.53  Aligned_cols=134  Identities=16%  Similarity=0.098  Sum_probs=84.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc--------cchhhccC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT--------ITTAYYRG   87 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~--------~~~~~~~~   87 (160)
                      +|+++|.+|+|||||+|+|.+..... +..+.++.+........++  .++.+|||||......        .....+.+
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~--~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~   79 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGA--SQIIFIDTPGFHEKKHSLNRLMMKEARSAIGG   79 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcCC--cEEEEEECcCCCCCcchHHHHHHHHHHHHHhh
Confidence            68999999999999999999876532 2222222222212222233  4789999999653211        12345789


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc---ceEEEEee
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTV---QVHLVILK  159 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~---~~~~~~~k  159 (160)
                      +|++++|+|+++..+.+  ..++..+..   .+.|+++++||+|+.+.  ....+...+++...   .+.++|||
T Consensus        80 aDvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~~--~~~~~~~~~~~~~~~~~~v~~iSA~  147 (270)
T TIGR00436        80 VDLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKFK--DKLLPLIDKYAILEDFKDIVPISAL  147 (270)
T ss_pred             CCEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCCH--HHHHHHHHHHHhhcCCCceEEEecC
Confidence            99999999999876654  333333332   36799999999999622  11223344444433   45667765

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.78  E-value=2.8e-18  Score=132.87  Aligned_cols=115  Identities=24%  Similarity=0.282  Sum_probs=84.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccc----------ccccc-
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----------FRTIT-   81 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----------~~~~~-   81 (160)
                      ..++|+++|.+++|||||+++|.+.... ....++.+.+.....+..++.  .+.+|||+|..+          +..+. 
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~--~~~l~DTaG~~~~~~~~~~~e~~~~~~~  287 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGK--TWRFVDTAGLRRRVKQASGHEYYASLRT  287 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCE--EEEEEECCCccccccccchHHHHHHHHH
Confidence            4689999999999999999999987642 334455555555566667774  567999999532          22221 


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           82 TAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ..+++++|++++|+|+++..+++.+. ++..+..   .+.|+++++||+|+.+
T Consensus       288 ~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~~  336 (472)
T PRK03003        288 HAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLVD  336 (472)
T ss_pred             HHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCC
Confidence            23568999999999999987777653 4444432   4789999999999964

>PRK11058 GTPase HflX; Provisional

Probab=99.78  E-value=2.8e-18  Score=130.74  Aligned_cols=118  Identities=25%  Similarity=0.255  Sum_probs=85.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc--cccch------hhcc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF--RTITT------AYYR   86 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~--~~~~~------~~~~   86 (160)
                      ..+|+++|.+|+|||||+|+|.+........+..+.+.....+...+. ..+.+|||+|..+.  ...+.      ..+.
T Consensus       197 ~p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~  275 (426)
T PRK11058        197 VPTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETR  275 (426)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhh
Confidence            368999999999999999999987654433444555666556666542 26789999997331  12222      2357


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .+|++++|+|++++.+++.+..|...+......+.|+++++||+|+.
T Consensus       276 ~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~  322 (426)
T PRK11058        276 QATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDML  322 (426)
T ss_pred             cCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCC
Confidence            89999999999998888777655554544434478999999999996

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.78  E-value=3.5e-18  Score=137.64  Aligned_cols=114  Identities=20%  Similarity=0.213  Sum_probs=86.9

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      ..+...|+++|..++|||||+++|....+........+.+.....+.+++  ..++|||||||..|..++...+..+|++
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDia  364 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDIV  364 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCEE
Confidence            45667999999999999999999988766554444444444444555555  5789999999999999998889999999


Q ss_pred             EEEEECCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           92 LLVYDVTDE---SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        92 i~v~d~~~~---~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ++|||+++.   .+.+.+       ......++|++|++||+|+.+
T Consensus       365 ILVVdAddGv~~qT~e~i-------~~a~~~~vPiIVviNKiDl~~  403 (787)
T PRK05306        365 VLVVAADDGVMPQTIEAI-------NHAKAAGVPIIVAINKIDKPG  403 (787)
T ss_pred             EEEEECCCCCCHhHHHHH-------HHHHhcCCcEEEEEECccccc
Confidence            999999873   333322       222224789999999999964

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.78  E-value=8.6e-18  Score=111.77  Aligned_cols=131  Identities=25%  Similarity=0.374  Sum_probs=95.4

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCC--------Cccc----cceeeeEEEEEEEECCEEEEEEEecCCCcccccc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFT--------TSFI----TTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT   79 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~--------~~~~----~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~   79 (160)
                      .....||++.|+.++||||+++.+......        .+..    .+..+++  ..+..++ ...+.+++||||++++.
T Consensus         7 k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~--g~~~~~~-~~~v~LfgtPGq~RF~f   83 (187)
T COG2229           7 KMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDF--GSIELDE-DTGVHLFGTPGQERFKF   83 (187)
T ss_pred             cccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecc--cceEEcC-cceEEEecCCCcHHHHH
Confidence            345689999999999999999999876531        1111    2222333  2333433 24688999999999999


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHh
Q 031411           80 ITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETIL  148 (160)
Q Consensus        80 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~  148 (160)
                      +|...+++++++++++|.+.+..+ +..+.+.-+....  .+|++|.+||.||.+........++.+++
T Consensus        84 m~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~--~ip~vVa~NK~DL~~a~ppe~i~e~l~~~  149 (187)
T COG2229          84 MWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRN--PIPVVVAINKQDLFDALPPEKIREALKLE  149 (187)
T ss_pred             HHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhcc--CCCEEEEeeccccCCCCCHHHHHHHHHhc
Confidence            999999999999999999998887 4444444443322  28999999999998666655555565555

>cd01895 EngA2 EngA2 subfamily

Probab=99.77  E-value=1.7e-17  Score=111.86  Aligned_cols=114  Identities=29%  Similarity=0.271  Sum_probs=76.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc----------c-ch
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT----------I-TT   82 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~----------~-~~   82 (160)
                      .++|+++|.+|+|||||++++.+.... ....+..+.......+..++  ..+.+||+||......          . ..
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDG--KKYTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECC--eeEEEEECCCCccccchhccHHHHHHHHHH
Confidence            478999999999999999999986532 12222233333334445555  3578999999643311          0 12


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           83 AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ..+..+|++++|+|++++.+.... .++..+..   .+.|+++++||+|+.+
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~-~~~~~~~~---~~~~~iiv~nK~Dl~~  127 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDL-RIAGLILE---EGKALVIVVNKWDLVE  127 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHH-HHHHHHHh---cCCCEEEEEeccccCC
Confidence            346789999999999987665443 23322222   3689999999999963

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.77  E-value=9.3e-18  Score=126.60  Aligned_cols=141  Identities=16%  Similarity=0.134  Sum_probs=95.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccc-------ccchhhccCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR-------TITTAYYRGA   88 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~-------~~~~~~~~~~   88 (160)
                      ..|.|+|.+|+|||||+|+|++........+.++.......+...+ ..++.++|+||...-.       ......++++
T Consensus       160 adValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~-~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~ra  238 (390)
T PRK12298        160 ADVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDD-ERSFVVADIPGLIEGASEGAGLGIRFLKHLERC  238 (390)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeCC-CcEEEEEeCCCccccccchhhHHHHHHHHHHhC
Confidence            3799999999999999999998765444344444445544555543 2368999999964211       1112357889


Q ss_pred             cEEEEEEECC---ChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc----ceEEEEee
Q 031411           89 MGILLVYDVT---DESSFNNIRNWIRNIEQHAS--DNVNKILVGNKADMDESKREAPFCLHETILLTV----QVHLVILK  159 (160)
Q Consensus        89 ~~~i~v~d~~---~~~~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~----~~~~~~~k  159 (160)
                      +++++++|++   +.+.++.+..|+.++..+..  .+.|+++++||+|+.+...  ..+..+++....    .+.++||+
T Consensus       239 dvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~e--l~~~l~~l~~~~~~~~~Vi~ISA~  316 (390)
T PRK12298        239 RVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEE--AEERAKAIVEALGWEGPVYLISAA  316 (390)
T ss_pred             CEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHH--HHHHHHHHHHHhCCCCCEEEEECC
Confidence            9999999998   45677788888888876542  3679999999999963321  123344444442    35666664

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.77  E-value=6.8e-18  Score=119.88  Aligned_cols=126  Identities=18%  Similarity=0.152  Sum_probs=86.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCC------------------CccccceeeeEEEEEEEECCEEEEEEEecCCCccccc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFT------------------TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR   78 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~   78 (160)
                      +|+++|..++|||||+++|+.....                  .+.....++......+..++  .++.+|||||+..+.
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~--~~i~liDTPG~~~f~   78 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWED--TKVNLIDTPGHMDFI   78 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECC--EEEEEEeCCCccchH
Confidence            5899999999999999999753110                  01111122223333444444  689999999999888


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHh
Q 031411           79 TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETIL  148 (160)
Q Consensus        79 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~  148 (160)
                      ..+...++.+|++++|+|+.+.... ...+++..+..   .++|+++++||+|+.+.......+++++..
T Consensus        79 ~~~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~---~~~P~iivvNK~D~~~a~~~~~~~~i~~~~  144 (237)
T cd04168          79 AEVERSLSVLDGAILVISAVEGVQA-QTRILWRLLRK---LNIPTIIFVNKIDRAGADLEKVYQEIKEKL  144 (237)
T ss_pred             HHHHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHH---cCCCEEEEEECccccCCCHHHHHHHHHHHH
Confidence            8888899999999999999876433 33444444443   378999999999997544444444444433

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.77  E-value=4.5e-18  Score=130.78  Aligned_cols=118  Identities=14%  Similarity=0.155  Sum_probs=82.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc----cccc---chhhccC
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----FRTI---TTAYYRG   87 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----~~~~---~~~~~~~   87 (160)
                      ..+|+|+|.+|+|||||+++|++........+.++..+....+...+  .+|.+||+||...    ...+   ....+++
T Consensus       159 ~adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~~~--~~f~laDtPGliegas~g~gLg~~fLrhier  236 (500)
T PRK12296        159 VADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQAGD--TRFTVADVPGLIPGASEGKGLGLDFLRHIER  236 (500)
T ss_pred             cceEEEEEcCCCCHHHHHHHHhcCCccccccCcccccceEEEEEECC--eEEEEEECCCCccccchhhHHHHHHHHHHHh
Confidence            36899999999999999999998654433334445555555666666  5799999999521    1111   1224678


Q ss_pred             CcEEEEEEECCC----hhhHHHHHHHHHHHHHhc-----------CCCCcEEEEEeCCCCCC
Q 031411           88 AMGILLVYDVTD----ESSFNNIRNWIRNIEQHA-----------SDNVNKILVGNKADMDE  134 (160)
Q Consensus        88 ~~~~i~v~d~~~----~~~~~~~~~~~~~~~~~~-----------~~~~pi~vv~~K~Dl~~  134 (160)
                      ++++++|+|+++    ++.++.+..|..++..+.           ..+.|++|++||+|+++
T Consensus       237 advLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~d  298 (500)
T PRK12296        237 CAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPD  298 (500)
T ss_pred             cCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchh
Confidence            999999999975    235555555555554433           13689999999999963

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.77  E-value=9.5e-18  Score=132.39  Aligned_cols=126  Identities=21%  Similarity=0.245  Sum_probs=91.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc---CCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD---GSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +.|+++|..++|||||+++|.+   +.+.++..++.+.+.....+..++  ..+.+||+||+++|.......+.++|+++
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aI   78 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAAL   78 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEE
Confidence            4689999999999999999996   334455556666666656666666  68999999999998887788889999999


Q ss_pred             EEEECCC---hhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCcc-CCChhHHHHHhhh
Q 031411           93 LVYDVTD---ESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDESKR-EAPFCLHETILLT  150 (160)
Q Consensus        93 ~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~~~~-~~~~~~~~~~~~~  150 (160)
                      +|+|+++   +.+.+.+.    .+..   .++| +++++||+|+.+... ....++++++...
T Consensus        79 LVVDa~~G~~~qT~ehl~----il~~---lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~  134 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHLA----VLDL---LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNS  134 (581)
T ss_pred             EEEECCCCCcHHHHHHHH----HHHH---cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHH
Confidence            9999987   44444432    2221   2567 999999999974332 1223445555543

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.

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.76  E-value=1.8e-18  Score=113.01  Aligned_cols=120  Identities=21%  Similarity=0.365  Sum_probs=100.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..-|++++|..|+|||||++.|..+...+. .||.  ++++..+.+.+  .+|+.+|++||....+.|..++..+|++++
T Consensus        19 K~gKllFlGLDNAGKTTLLHMLKdDrl~qh-vPTl--HPTSE~l~Ig~--m~ftt~DLGGH~qArr~wkdyf~~v~~iv~   93 (193)
T KOG0077|consen   19 KFGKLLFLGLDNAGKTTLLHMLKDDRLGQH-VPTL--HPTSEELSIGG--MTFTTFDLGGHLQARRVWKDYFPQVDAIVY   93 (193)
T ss_pred             cCceEEEEeecCCchhhHHHHHcccccccc-CCCc--CCChHHheecC--ceEEEEccccHHHHHHHHHHHHhhhceeEe
Confidence            345899999999999999999998775543 3433  35556667766  689999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccC
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKRE  138 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~  138 (160)
                      .+|+.+.+.|.+.++.+..+.... -..+|+++++||+|.+....+
T Consensus        94 lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~se  139 (193)
T KOG0077|consen   94 LVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAASE  139 (193)
T ss_pred             eeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcccH
Confidence            999999999999998888876644 358999999999999865543

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.76  E-value=1.3e-17  Score=117.20  Aligned_cols=121  Identities=19%  Similarity=0.187  Sum_probs=81.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCC----------------CccccceeeeEEEEEEEEC--------CEEEEEEEecCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFT----------------TSFITTIGIDFKIRTIELD--------GKRIKLQIWDTA   72 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~----------------~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~D~~   72 (160)
                      +|+++|..++|||||+++|+.....                .+.....++......+.+.        ++.+.+.+||||
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            7999999999999999999753211                0111111222222222232        346889999999


Q ss_pred             CcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCCh
Q 031411           73 GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPF  141 (160)
Q Consensus        73 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~  141 (160)
                      |+..+.......+..+|++++|+|+.+....+... .+....   ..++|+++++||+|+...+.....
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~-~l~~~~---~~~~p~ilviNKiD~~~~e~~~~~  146 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTET-VLRQAL---KERVKPVLVINKIDRLILELKLSP  146 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHH-HHHHHH---HcCCCEEEEEECCCcchhhhcCCH
Confidence            99999988899999999999999998765544322 222222   236799999999998633333433

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.76  E-value=9.3e-19  Score=115.09  Aligned_cols=129  Identities=25%  Similarity=0.420  Sum_probs=99.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc---CCC----CCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhcc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD---GSF----TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYR   86 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~---~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~   86 (160)
                      ..+.++++|..++|||||+.....   ..+    +..-.++.+  .+..++.+++  ..+.+||.+|++..+++|..++.
T Consensus        16 e~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvg--Lnig~i~v~~--~~l~fwdlgGQe~lrSlw~~yY~   91 (197)
T KOG0076|consen   16 EDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVG--LNIGTIEVCN--APLSFWDLGGQESLRSLWKKYYW   91 (197)
T ss_pred             hhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccc--eeecceeecc--ceeEEEEcCChHHHHHHHHHHHH
Confidence            347899999999999999987753   122    233445555  3444555554  57899999999999999999999


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHH
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHET  146 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~  146 (160)
                      .+|++++++|+++++.|+.....+..+..+ .-.+.|+++++||.|+.+.....+.+....
T Consensus        92 ~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~~~El~~~~~  152 (197)
T KOG0076|consen   92 LAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAMEAAELDGVFG  152 (197)
T ss_pred             HhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhhHHHHHHHhh
Confidence            999999999999999999988888887554 346899999999999975444444433333

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.76  E-value=8.3e-18  Score=134.51  Aligned_cols=116  Identities=20%  Similarity=0.202  Sum_probs=85.5

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeee--EEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGID--FKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      .++..+|+++|..++|||||+++|....+.....++.+.+  .+...+..++....+.||||||+..|..++...+..+|
T Consensus       241 ~~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aD  320 (742)
T CHL00189        241 INRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTD  320 (742)
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCC
Confidence            3455799999999999999999999876654433333322  23333344444578999999999999999998999999


Q ss_pred             EEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           90 GILLVYDVTDE---SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        90 ~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ++++|+|+.+.   .+++.+.    .+   ...++|+++++||+|+.+
T Consensus       321 iaILVVDA~dGv~~QT~E~I~----~~---k~~~iPiIVViNKiDl~~  361 (742)
T CHL00189        321 IAILIIAADDGVKPQTIEAIN----YI---QAANVPIIVAINKIDKAN  361 (742)
T ss_pred             EEEEEEECcCCCChhhHHHHH----HH---HhcCceEEEEEECCCccc
Confidence            99999999874   3333322    12   224789999999999964

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

Probab=99.75  E-value=1.5e-17  Score=127.41  Aligned_cols=137  Identities=20%  Similarity=0.102  Sum_probs=88.2

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhc--CCCC-----------------------------CccccceeeeEEEEEEEEC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSD--GSFT-----------------------------TSFITTIGIDFKIRTIELD   60 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~~~   60 (160)
                      ....++|+++|..++|||||+++|+.  +...                             .+.....+.+.....+..+
T Consensus         4 ~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~   83 (426)
T TIGR00483         4 EKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETD   83 (426)
T ss_pred             CCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccC
Confidence            45669999999999999999999974  2111                             1122344444444444444


Q ss_pred             CEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHH--HHHhcCCCCcEEEEEeCCCCCCCcc-
Q 031411           61 GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRN--IEQHASDNVNKILVGNKADMDESKR-  137 (160)
Q Consensus        61 ~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~--~~~~~~~~~pi~vv~~K~Dl~~~~~-  137 (160)
                      +  ..+.+||+||++.+.......+..+|++++|+|+++.+++ ...++...  +..... ..|+++++||+|+.+... 
T Consensus        84 ~--~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~-~~~~t~~~~~~~~~~~-~~~iIVviNK~Dl~~~~~~  159 (426)
T TIGR00483        84 K--YEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFE-VQPQTREHAFLARTLG-INQLIVAINKMDSVNYDEE  159 (426)
T ss_pred             C--eEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcc-cCCchHHHHHHHHHcC-CCeEEEEEEChhccCccHH
Confidence            4  6899999999988766555567899999999999987532 11112111  222222 357999999999963221 


Q ss_pred             --CCChhHHHHHhhhcc
Q 031411          138 --EAPFCLHETILLTVQ  152 (160)
Q Consensus       138 --~~~~~~~~~~~~~~~  152 (160)
                        ....++++++++..+
T Consensus       160 ~~~~~~~ei~~~~~~~g  176 (426)
T TIGR00483       160 EFEAIKKEVSNLIKKVG  176 (426)
T ss_pred             HHHHHHHHHHHHHHHcC
Confidence              122455666666554

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.75  E-value=1.3e-17  Score=131.80  Aligned_cols=117  Identities=22%  Similarity=0.263  Sum_probs=83.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCC--CC-------------CccccceeeeEEEEEEEE---CCEEEEEEEecCCCcc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGS--FT-------------TSFITTIGIDFKIRTIEL---DGKRIKLQIWDTAGQE   75 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~--~~-------------~~~~~~~~~~~~~~~~~~---~~~~~~~~~~D~~g~~   75 (160)
                      ..-+++++|..++|||||+++|+...  ..             .+.....++......+.+   ++..+.+++|||||+.
T Consensus         6 ~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~   85 (600)
T PRK05433          6 NIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHV   85 (600)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcH
Confidence            34599999999999999999998631  11             011122222222222222   4556899999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           76 RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        76 ~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+...+...+..+|++++|+|+++....+....|....    ..++|+++++||+|+.+
T Consensus        86 dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~----~~~lpiIvViNKiDl~~  140 (600)
T PRK05433         86 DFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL----ENDLEIIPVLNKIDLPA  140 (600)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH----HCCCCEEEEEECCCCCc
Confidence            99888889999999999999999865555555554332    23789999999999963

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.75  E-value=6.8e-17  Score=124.01  Aligned_cols=115  Identities=30%  Similarity=0.250  Sum_probs=81.4

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc----------
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT----------   81 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~----------   81 (160)
                      ...++++++|.+++|||||+++|++.... ....+..+.+.....+..++.  .+.+|||||..+.....          
T Consensus       170 ~~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~liDT~G~~~~~~~~~~~e~~~~~~  247 (429)
T TIGR03594       170 DGPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGK--KYLLIDTAGIRRKGKVTEGVEKYSVLR  247 (429)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECCc--EEEEEECCCccccccchhhHHHHHHHH
Confidence            45689999999999999999999976532 223333444444445555663  68999999975543321          


Q ss_pred             -hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           82 -TAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        82 -~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                       ...++.+|++++|+|++++.+.... +++..+..   .+.|+++++||+|+.
T Consensus       248 ~~~~~~~ad~~ilV~D~~~~~~~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~  296 (429)
T TIGR03594       248 TLKAIERADVVLLVLDATEGITEQDL-RIAGLILE---AGKALVIVVNKWDLV  296 (429)
T ss_pred             HHHHHHhCCEEEEEEECCCCccHHHH-HHHHHHHH---cCCcEEEEEECcccC
Confidence             2357899999999999987665554 23333322   378999999999996

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>cd01894 EngA1 EngA1 subfamily

Probab=99.75  E-value=2.2e-17  Score=109.77  Aligned_cols=111  Identities=23%  Similarity=0.182  Sum_probs=74.1

Q ss_pred             EEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc--------cchhhccCCc
Q 031411           19 LLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT--------ITTAYYRGAM   89 (160)
Q Consensus        19 ~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~--------~~~~~~~~~~   89 (160)
                      +++|.+|+|||||+++|.+.... ....+..+.+........++  ..+.+|||||+..+..        .....+.++|
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d   78 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGG--REFILIDTGGIEPDDEGISKEIREQAELAIEEAD   78 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECC--eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCC
Confidence            47999999999999999976421 11222333334444555555  5789999999876543        2345678899


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ++++++|..+..+.... .....+..   .+.|+++++||+|+.+.
T Consensus        79 ~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~  120 (157)
T cd01894          79 VILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKE  120 (157)
T ss_pred             EEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCCh
Confidence            99999999765433322 12222222   25899999999999743

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.75  E-value=1.9e-17  Score=126.83  Aligned_cols=137  Identities=20%  Similarity=0.120  Sum_probs=85.3

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCC-------------------------------CCccccceeeeEEEEEEEEC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSF-------------------------------TTSFITTIGIDFKIRTIELD   60 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~   60 (160)
                      .+..++|+++|..++|||||+++|+....                               .++..+..+.+.....+..+
T Consensus         3 ~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~   82 (425)
T PRK12317          3 EKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETD   82 (425)
T ss_pred             CCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecC
Confidence            44569999999999999999999983211                               11123334444444444444


Q ss_pred             CEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcc--
Q 031411           61 GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNN-IRNWIRNIEQHASDNVNKILVGNKADMDESKR--  137 (160)
Q Consensus        61 ~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~--  137 (160)
                      +  +.+.+|||||++++.......+..+|++++|+|++++..+.. ..+++..+. ... ..|+++++||+|+.+...  
T Consensus        83 ~--~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~-~~~-~~~iivviNK~Dl~~~~~~~  158 (425)
T PRK12317         83 K--YYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLAR-TLG-INQLIVAINKMDAVNYDEKR  158 (425)
T ss_pred             C--eEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHH-HcC-CCeEEEEEEccccccccHHH
Confidence            4  689999999998776655556788999999999986312211 112222222 211 246999999999964221  


Q ss_pred             -CCChhHHHHHhhhcc
Q 031411          138 -EAPFCLHETILLTVQ  152 (160)
Q Consensus       138 -~~~~~~~~~~~~~~~  152 (160)
                       ....+++.++....+
T Consensus       159 ~~~~~~~i~~~l~~~g  174 (425)
T PRK12317        159 YEEVKEEVSKLLKMVG  174 (425)
T ss_pred             HHHHHHHHHHHHHhhC
Confidence             122345555554443

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.75  E-value=3.9e-17  Score=125.55  Aligned_cols=110  Identities=26%  Similarity=0.227  Sum_probs=79.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccc--------ccccchhhcc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER--------FRTITTAYYR   86 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~--------~~~~~~~~~~   86 (160)
                      .+|+++|.+|+|||||+++|.+.... ....+..+.+.....+..++  ..+.+|||||...        +......++.
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~   79 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAIE   79 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            58999999999999999999976532 22234444455555666666  6799999999876        2222345678


Q ss_pred             CCcEEEEEEECCChhhH--HHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           87 GAMGILLVYDVTDESSF--NNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~--~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .+|++++|+|+.++.+.  ..+.+|+..      .+.|+++++||+|+.
T Consensus        80 ~ad~il~vvd~~~~~~~~~~~~~~~l~~------~~~piilv~NK~D~~  122 (435)
T PRK00093         80 EADVILFVVDGRAGLTPADEEIAKILRK------SNKPVILVVNKVDGP  122 (435)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHHHHH------cCCcEEEEEECccCc
Confidence            99999999999875332  234444433      268999999999975

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.74  E-value=2.5e-17  Score=113.72  Aligned_cols=139  Identities=22%  Similarity=0.250  Sum_probs=82.8

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCc----------ccccccc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ----------ERFRTIT   81 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~----------~~~~~~~   81 (160)
                      .+..++|+++|.+|+|||||++++.+..+.....++.+..........   ...+.+||+||.          +.+..+.
T Consensus        21 ~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~~~~~   97 (196)
T PRK00454         21 PDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKWQKLI   97 (196)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHHHHHH
Confidence            446689999999999999999999987644333333332222222222   257999999994          2333333


Q ss_pred             hhhccC---CcEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc-cCCChhHHHHHhhh--cce
Q 031411           82 TAYYRG---AMGILLVYDVTDESSFNN--IRNWIRNIEQHASDNVNKILVGNKADMDESK-REAPFCLHETILLT--VQV  153 (160)
Q Consensus        82 ~~~~~~---~~~~i~v~d~~~~~~~~~--~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-~~~~~~~~~~~~~~--~~~  153 (160)
                      ..++..   .+++++++|.+++.....  +.+|+   .   ..+.|+++++||+|+.+.. .+...+++++....  ..+
T Consensus        98 ~~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l---~---~~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~  171 (196)
T PRK00454         98 EEYLRTRENLKGVVLLIDSRHPLKELDLQMIEWL---K---EYGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEV  171 (196)
T ss_pred             HHHHHhCccceEEEEEEecCCCCCHHHHHHHHHH---H---HcCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCce
Confidence            444443   467888898876533322  22232   2   1368999999999986332 22223334444443  345


Q ss_pred             EEEEee
Q 031411          154 HLVILK  159 (160)
Q Consensus       154 ~~~~~k  159 (160)
                      .+++++
T Consensus       172 ~~~Sa~  177 (196)
T PRK00454        172 ILFSSL  177 (196)
T ss_pred             EEEEcC
Confidence            555543

>PRK10218 GTP-binding protein; Provisional

Probab=99.74  E-value=7.1e-17  Score=127.43  Aligned_cols=131  Identities=19%  Similarity=0.201  Sum_probs=91.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc--CCCCCcc------------ccceeeeEEEEEEEECCEEEEEEEecCCCcccccc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD--GSFTTSF------------ITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT   79 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~   79 (160)
                      ...+|+++|..++|||||+++|+.  +.+....            ....++........+....+.+.+|||||+..|..
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~   83 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGG   83 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHH
Confidence            346999999999999999999986  3332211            12233344444444444457899999999999998


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHh
Q 031411           80 ITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETIL  148 (160)
Q Consensus        80 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~  148 (160)
                      .+..+++.+|++++|+|+.+....+ ...++..+..   .++|.++++||+|+.+.......+++.++.
T Consensus        84 ~v~~~l~~aDg~ILVVDa~~G~~~q-t~~~l~~a~~---~gip~IVviNKiD~~~a~~~~vl~ei~~l~  148 (607)
T PRK10218         84 EVERVMSMVDSVLLVVDAFDGPMPQ-TRFVTKKAFA---YGLKPIVVINKVDRPGARPDWVVDQVFDLF  148 (607)
T ss_pred             HHHHHHHhCCEEEEEEecccCccHH-HHHHHHHHHH---cCCCEEEEEECcCCCCCchhHHHHHHHHHH
Confidence            8999999999999999998743222 2233333322   378999999999997555545556666664

>cd01850 CDC_Septin CDC/Septin

Probab=99.74  E-value=3.1e-17  Score=118.90  Aligned_cols=138  Identities=19%  Similarity=0.245  Sum_probs=88.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCc----------cccceeeeEEEEEEEECCEEEEEEEecCCCcccc------
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTS----------FITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF------   77 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~------   77 (160)
                      ..++|+++|.+|+|||||+|+|.+..+...          ..++.........+..++..+.+.+|||||-...      
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~   82 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDC   82 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhh
Confidence            468999999999999999999998766433          2344445555556666787889999999992111      


Q ss_pred             -c-------------------ccchhhcc--CCcEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           78 -R-------------------TITTAYYR--GAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        78 -~-------------------~~~~~~~~--~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                       .                   ..+...+.  ++|+++++++.+.. .+... .+.+..+.   . .+|+++|+||+|+..
T Consensus        83 ~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~-~l~~~D~~~lk~l~---~-~v~vi~VinK~D~l~  157 (276)
T cd01850          83 WKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGH-GLKPLDIEFMKRLS---K-RVNIIPVIAKADTLT  157 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCC-CCCHHHHHHHHHHh---c-cCCEEEEEECCCcCC
Confidence             0                   01112333  46777777776541 11111 22233332   2 689999999999853


Q ss_pred             C-ccCCChhHHHHHhhhcceEEE
Q 031411          135 S-KREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus       135 ~-~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      . +.....+.+++.+..+++.++
T Consensus       158 ~~e~~~~k~~i~~~l~~~~i~~~  180 (276)
T cd01850         158 PEELKEFKQRIMEDIEEHNIKIY  180 (276)
T ss_pred             HHHHHHHHHHHHHHHHHcCCceE
Confidence            2 333445667777777777655

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.74  E-value=3.5e-17  Score=114.32  Aligned_cols=138  Identities=19%  Similarity=0.091  Sum_probs=83.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCC-C------------------------------ccccceeeeEEEEEEEECCEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFT-T------------------------------SFITTIGIDFKIRTIELDGKRIK   65 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~-~------------------------------~~~~~~~~~~~~~~~~~~~~~~~   65 (160)
                      ||+++|.+++|||||++.|+..... .                              +..+..+.+.....+..++  .+
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~--~~   78 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPK--RK   78 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCC--ce
Confidence            5899999999999999999742211 1                              0112233333333444444  57


Q ss_pred             EEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccC---CChh
Q 031411           66 LQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRE---APFC  142 (160)
Q Consensus        66 ~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~---~~~~  142 (160)
                      +.+|||||+..+.......+..+|++++|+|+++...-+ .......+.. .. ..++++++||+|+.+....   ....
T Consensus        79 ~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~-~~~~~~~~~~-~~-~~~iIvviNK~D~~~~~~~~~~~i~~  155 (208)
T cd04166          79 FIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQ-TRRHSYILSL-LG-IRHVVVAVNKMDLVDYSEEVFEEIVA  155 (208)
T ss_pred             EEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHh-HHHHHHHHHH-cC-CCcEEEEEEchhcccCCHHHHHHHHH
Confidence            889999999877655566788999999999998653211 1111111221 11 2357888999999642221   1223


Q ss_pred             HHHHHhhhcc-----eEEEEee
Q 031411          143 LHETILLTVQ-----VHLVILK  159 (160)
Q Consensus       143 ~~~~~~~~~~-----~~~~~~k  159 (160)
                      +.+++...++     +..+||+
T Consensus       156 ~~~~~~~~~~~~~~~ii~iSA~  177 (208)
T cd04166         156 DYLAFAAKLGIEDITFIPISAL  177 (208)
T ss_pred             HHHHHHHHcCCCCceEEEEeCC
Confidence            4555555544     4566654

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.

>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=99.74  E-value=9.9e-18  Score=115.32  Aligned_cols=116  Identities=23%  Similarity=0.243  Sum_probs=79.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC------------------CccccceeeeEEEEEEEECCEEEEEEEecCCCcc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT------------------TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE   75 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~   75 (160)
                      ...+|+++|+.++|||||+++|+.....                  .+.....+.......+..+.....++++|+||+.
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~   81 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHE   81 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSH
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeeccccccc
Confidence            4689999999999999999999853211                  1111222233344444411223689999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           76 RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        76 ~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .+.......+..+|++++|+|+.+..... ..+.+..+..   .++|++++.||+|+.
T Consensus        82 ~f~~~~~~~~~~~D~ailvVda~~g~~~~-~~~~l~~~~~---~~~p~ivvlNK~D~~  135 (188)
T PF00009_consen   82 DFIKEMIRGLRQADIAILVVDANDGIQPQ-TEEHLKILRE---LGIPIIVVLNKMDLI  135 (188)
T ss_dssp             HHHHHHHHHHTTSSEEEEEEETTTBSTHH-HHHHHHHHHH---TT-SEEEEEETCTSS
T ss_pred             ceeecccceecccccceeeeecccccccc-cccccccccc---cccceEEeeeeccch
Confidence            88887888899999999999998653322 2222223322   378999999999997

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 ....

>cd04169 RF3 RF3 subfamily

Probab=99.74  E-value=7.1e-17  Score=116.49  Aligned_cols=114  Identities=17%  Similarity=0.144  Sum_probs=77.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC-C---------------------ccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT-T---------------------SFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~-~---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      -+|+++|..++|||||+++|+..... .                     +.....++......+..++  +.+.+|||||
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~--~~i~liDTPG   80 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRD--CVINLLDTPG   80 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCC--EEEEEEECCC
Confidence            48999999999999999999742110 0                     0011112222233344444  7899999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           74 QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      +.++.......++.+|++++|+|+++.... ....++.....   .++|+++++||+|+.+.
T Consensus        81 ~~df~~~~~~~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~~---~~~P~iivvNK~D~~~a  138 (267)
T cd04169          81 HEDFSEDTYRTLTAVDSAVMVIDAAKGVEP-QTRKLFEVCRL---RGIPIITFINKLDREGR  138 (267)
T ss_pred             chHHHHHHHHHHHHCCEEEEEEECCCCccH-HHHHHHHHHHh---cCCCEEEEEECCccCCC
Confidence            988877667778999999999999875322 22233333322   37899999999998644

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>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=99.73  E-value=3.6e-18  Score=115.49  Aligned_cols=117  Identities=22%  Similarity=0.385  Sum_probs=74.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEE-CCEEEEEEEecCCCcccccccchhh---ccCCcE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQERFRTITTAY---YRGAMG   90 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~~~~~~~~---~~~~~~   90 (160)
                      +-.|+++|+.|+|||+|+.+|..+...+...+..   ... .... +...-.+.++|+|||.+........   ...+.+
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~e---~n~-~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~   78 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTSME---NNI-AYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKG   78 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B---SS---EEE-ECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEE
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeecccc---CCc-eEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCE
Confidence            3479999999999999999999987665544432   221 1222 1222468899999999887644443   788999


Q ss_pred             EEEEEECCC-hhhHHHHHHHHHHHHHh---cCCCCcEEEEEeCCCCCCC
Q 031411           91 ILLVYDVTD-ESSFNNIRNWIRNIEQH---ASDNVNKILVGNKADMDES  135 (160)
Q Consensus        91 ~i~v~d~~~-~~~~~~~~~~~~~~~~~---~~~~~pi~vv~~K~Dl~~~  135 (160)
                      +|+|+|++. +..+..+.+.+-.+...   ....+|++|++||.|+...
T Consensus        79 IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A  127 (181)
T PF09439_consen   79 IIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTA  127 (181)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred             EEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccccc
Confidence            999999974 44555666655555332   2467899999999999743

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.

>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=99.73  E-value=2.1e-16  Score=112.11  Aligned_cols=83  Identities=27%  Similarity=0.282  Sum_probs=59.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccc-------ccchhhccCCc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR-------TITTAYYRGAM   89 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~-------~~~~~~~~~~~   89 (160)
                      +++++|++|+|||||+++|.+........+..+.+.....+.+++  ..+++||+||.....       ......++++|
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~~--~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad   79 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYKG--AKIQLLDLPGIIEGAADGKGRGRQVIAVARTAD   79 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEECC--eEEEEEECCCcccccccchhHHHHHHHhhccCC
Confidence            789999999999999999998654322223333344444555666  578999999974332       12345688999


Q ss_pred             EEEEEEECCChh
Q 031411           90 GILLVYDVTDES  101 (160)
Q Consensus        90 ~~i~v~d~~~~~  101 (160)
                      ++++|+|++++.
T Consensus        80 ~il~V~D~t~~~   91 (233)
T cd01896          80 LILMVLDATKPE   91 (233)
T ss_pred             EEEEEecCCcch
Confidence            999999998754

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.73  E-value=1.3e-17  Score=111.69  Aligned_cols=113  Identities=21%  Similarity=0.252  Sum_probs=74.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc----hhhccCCcEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT----TAYYRGAMGIL   92 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~----~~~~~~~~~~i   92 (160)
                      +|+++|.+++|||||+++|.+.. ... ..+       ..+.++..    .+||+||.......+    ...++++|+++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~-~~~-~~~-------~~v~~~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il   69 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNY-TLA-RKT-------QAVEFNDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLI   69 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC-ccC-ccc-------eEEEECCC----CcccCCccccCCHHHHHHHHHHHhcCCEEE
Confidence            79999999999999999987643 111 111       12223332    269999973222111    23368999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQ  152 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~  152 (160)
                      +|+|+++..++  +..|+..+    ..+.|+++++||+|+.+    ...++.++++.+.+
T Consensus        70 ~v~d~~~~~s~--~~~~~~~~----~~~~~ii~v~nK~Dl~~----~~~~~~~~~~~~~~  119 (158)
T PRK15467         70 YVHGANDPESR--LPAGLLDI----GVSKRQIAVISKTDMPD----ADVAATRKLLLETG  119 (158)
T ss_pred             EEEeCCCcccc--cCHHHHhc----cCCCCeEEEEEccccCc----ccHHHHHHHHHHcC
Confidence            99999987765  33354443    13679999999999963    34566677776665

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.73  E-value=3.4e-17  Score=113.99  Aligned_cols=142  Identities=16%  Similarity=0.149  Sum_probs=83.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCC---CCccccceeeeEEEEEEEEC---------------------------C----
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSF---TTSFITTIGIDFKIRTIELD---------------------------G----   61 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~---~~~~~~~~~~~~~~~~~~~~---------------------------~----   61 (160)
                      ++|+++|+.++|||||++.+.+...   ..+.....++......+.+.                           +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            4799999999999999999975421   12222222221111111110                           1    


Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcc-CCC
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR-EAP  140 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~-~~~  140 (160)
                      ...++.|||+||++.+.......+..+|++++|+|+.++.........+..+.. . ...|+++++||+|+.+... ...
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~-~-~~~~iiivvNK~Dl~~~~~~~~~  158 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEI-M-GLKHIIIVQNKIDLVKEEQALEN  158 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHH-c-CCCcEEEEEEchhccCHHHHHHH
Confidence            115789999999988877777777889999999999863211111112222221 1 1347999999999963221 222


Q ss_pred             hhHHHHHhhh-----cceEEEEee
Q 031411          141 FCLHETILLT-----VQVHLVILK  159 (160)
Q Consensus       141 ~~~~~~~~~~-----~~~~~~~~k  159 (160)
                      .++.+++...     ..+.++||+
T Consensus       159 ~~~i~~~~~~~~~~~~~i~~vSA~  182 (203)
T cd01888         159 YEQIKKFVKGTIAENAPIIPISAQ  182 (203)
T ss_pred             HHHHHHHHhccccCCCcEEEEeCC
Confidence            3445555443     345666664

eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel

>cd04167 Snu114p Snu114p subfamily

Probab=99.73  E-value=1.2e-16  Score=111.99  Aligned_cols=113  Identities=27%  Similarity=0.292  Sum_probs=79.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCc-------------------cccceeeeEEEEEEEE---CCEEEEEEEecCCCc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTS-------------------FITTIGIDFKIRTIEL---DGKRIKLQIWDTAGQ   74 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~-------------------~~~~~~~~~~~~~~~~---~~~~~~~~~~D~~g~   74 (160)
                      +|+++|+.++|||||+++|........                   .....++......+..   ++..+.+.+||+||+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            689999999999999999986433211                   1111111111112211   355689999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ..+.......+..+|++++|+|+.+..+... .+++.....   .+.|+++++||+|+.
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence            9888888888999999999999987655432 334444332   358999999999974

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.

>PRK00089 era GTPase Era; Reviewed

Probab=99.73  E-value=8.6e-17  Score=117.73  Aligned_cols=138  Identities=18%  Similarity=0.154  Sum_probs=81.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEECCEEEEEEEecCCCccccc--------ccchhh
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR--------TITTAY   84 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~--------~~~~~~   84 (160)
                      +.-.|+++|.+|+|||||+|+|.+..... +..+.++..........+  ..++.+|||||.....        ......
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~~--~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~   81 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTED--DAQIIFVDTPGIHKPKRALNRAMNKAAWSS   81 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEcC--CceEEEEECCCCCCchhHHHHHHHHHHHHH
Confidence            34679999999999999999999876532 111212211111112222  2689999999964322        223345


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHH-HHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc---ceEEEEee
Q 031411           85 YRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTV---QVHLVILK  159 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~~~~~~-~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~---~~~~~~~k  159 (160)
                      +.++|++++++|+++...  ....++ ..+.   ..+.|+++++||+|+... .....+..+++....   .+..+|++
T Consensus        82 ~~~~D~il~vvd~~~~~~--~~~~~i~~~l~---~~~~pvilVlNKiDl~~~-~~~l~~~~~~l~~~~~~~~i~~iSA~  154 (292)
T PRK00089         82 LKDVDLVLFVVDADEKIG--PGDEFILEKLK---KVKTPVILVLNKIDLVKD-KEELLPLLEELSELMDFAEIVPISAL  154 (292)
T ss_pred             HhcCCEEEEEEeCCCCCC--hhHHHHHHHHh---hcCCCEEEEEECCcCCCC-HHHHHHHHHHHHhhCCCCeEEEecCC
Confidence            788999999999987211  122222 2222   236799999999999622 122233344444432   34455553

>cd04163 Era Era subfamily

Probab=99.72  E-value=2e-16  Score=105.75  Aligned_cols=114  Identities=17%  Similarity=0.130  Sum_probs=72.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc--------cchhhcc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT--------ITTAYYR   86 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~--------~~~~~~~   86 (160)
                      ..+|+++|++|+|||||++++.+................ ...........+.+||+||......        .....+.
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   81 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNR-IRGIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALK   81 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceece-EEEEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHH
Confidence            478999999999999999999976542111111111111 1112222246789999999653322        2234577


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .+|++++|+|++++.+ +....+...+..   .+.|+++++||+|+.
T Consensus        82 ~~d~i~~v~d~~~~~~-~~~~~~~~~~~~---~~~~~iiv~nK~Dl~  124 (168)
T cd04163          82 DVDLVLFVVDASEPIG-EGDEFILELLKK---SKTPVILVLNKIDLV  124 (168)
T ss_pred             hCCEEEEEEECCCccC-chHHHHHHHHHH---hCCCEEEEEEchhcc
Confidence            8999999999987621 112223333332   257999999999996

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.72  E-value=3e-16  Score=126.95  Aligned_cols=130  Identities=15%  Similarity=0.141  Sum_probs=87.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc----------chhh
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI----------TTAY   84 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~----------~~~~   84 (160)
                      .++|+++|++|+|||||+|++++........+..+.+.....+..++  .++.+||+||...+...          ...+
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~~~~~--~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~   80 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFSTTD--HQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEeeEEEEEEcCc--eEEEEEECCCccccccccccccHHHHHHHHH
Confidence            46899999999999999999998665444445455444434444433  67899999998765432          1222


Q ss_pred             c--cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceE
Q 031411           85 Y--RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVH  154 (160)
Q Consensus        85 ~--~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~  154 (160)
                      +  ..+|++++|+|+++.+..   ..+..++.+   .++|+++++||+|+.++ ... ..+.+++.+..++.
T Consensus        81 l~~~~aD~vI~VvDat~ler~---l~l~~ql~e---~giPvIvVlNK~Dl~~~-~~i-~id~~~L~~~LG~p  144 (772)
T PRK09554         81 ILSGDADLLINVVDASNLERN---LYLTLQLLE---LGIPCIVALNMLDIAEK-QNI-RIDIDALSARLGCP  144 (772)
T ss_pred             HhccCCCEEEEEecCCcchhh---HHHHHHHHH---cCCCEEEEEEchhhhhc-cCc-HHHHHHHHHHhCCC
Confidence            2  479999999999875432   234444433   37899999999998632 222 24466677766654

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.72  E-value=9.4e-17  Score=126.74  Aligned_cols=126  Identities=21%  Similarity=0.261  Sum_probs=88.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc--CCCCC--------------ccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD--GSFTT--------------SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI   80 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~--~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~   80 (160)
                      +|+++|..++|||||+++|+.  +.+..              +.....++......+.+++  +.+++|||||+..|...
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~--~kinlIDTPGh~DF~~e   80 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNG--TKINIVDTPGHADFGGE   80 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECC--EEEEEEECCCHHHHHHH
Confidence            799999999999999999985  22211              1122233333333445554  78999999999999888


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHh
Q 031411           81 TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETIL  148 (160)
Q Consensus        81 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~  148 (160)
                      +...+..+|++++|+|+.+. .......|+..+..   .++|+++++||+|+.+.......+++.++.
T Consensus        81 v~~~l~~aD~alLVVDa~~G-~~~qT~~~l~~a~~---~~ip~IVviNKiD~~~a~~~~v~~ei~~l~  144 (594)
T TIGR01394        81 VERVLGMVDGVLLLVDASEG-PMPQTRFVLKKALE---LGLKPIVVINKIDRPSARPDEVVDEVFDLF  144 (594)
T ss_pred             HHHHHHhCCEEEEEEeCCCC-CcHHHHHHHHHHHH---CCCCEEEEEECCCCCCcCHHHHHHHHHHHH
Confidence            88899999999999999763 23444555555544   378999999999996433322344555554

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.72  E-value=2e-16  Score=121.41  Aligned_cols=110  Identities=28%  Similarity=0.338  Sum_probs=77.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcc--------cccccchhhccC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE--------RFRTITTAYYRG   87 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~--------~~~~~~~~~~~~   87 (160)
                      +|+++|.+|+|||||+|+|.+.... ....+..+.+.....+..++  ..+.+|||||..        .+......+++.
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~--~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~   78 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGG--REFILIDTGGIEEDDDGLDKQIREQAEIAIEE   78 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECC--eEEEEEECCCCCCcchhHHHHHHHHHHHHHhh
Confidence            5899999999999999999986532 22334444445555666666  469999999963        333445567889


Q ss_pred             CcEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           88 AMGILLVYDVTDESSFN--NIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~--~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +|++++|+|+.+..+..  .+.+|+..      .+.|+++++||+|+.+
T Consensus        79 ad~vl~vvD~~~~~~~~d~~i~~~l~~------~~~piilVvNK~D~~~  121 (429)
T TIGR03594        79 ADVILFVVDGREGLTPEDEEIAKWLRK------SGKPVILVANKIDGKK  121 (429)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHHHHHHH------hCCCEEEEEECccCCc
Confidence            99999999998743322  33334332      2679999999999863

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.

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

Probab=99.72  E-value=2.1e-16  Score=114.17  Aligned_cols=127  Identities=19%  Similarity=0.089  Sum_probs=85.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC------------------CCccccceeeeEEEEEEEECCEEEEEEEecCCCccccc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSF------------------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR   78 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~   78 (160)
                      +|+++|.+++|||||+++|+....                  +.+..+..+++.....+.+++  .++.+|||||+..+.
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG~~df~   78 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKD--HRINIIDTPGHVDFT   78 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECC--EEEEEEECCCcHHHH
Confidence            589999999999999999973111                  112233333444445555555  688999999998887


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhh
Q 031411           79 TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILL  149 (160)
Q Consensus        79 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~  149 (160)
                      ..+...+..+|++++|+|+.+...-.. ...+..+..   .++|++++.||+|+.+.......+++++...
T Consensus        79 ~~~~~~l~~aD~ailVVDa~~g~~~~t-~~~~~~~~~---~~~p~ivviNK~D~~~a~~~~~~~~l~~~l~  145 (270)
T cd01886          79 IEVERSLRVLDGAVAVFDAVAGVEPQT-ETVWRQADR---YNVPRIAFVNKMDRTGADFFRVVEQIREKLG  145 (270)
T ss_pred             HHHHHHHHHcCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECCCCCCCCHHHHHHHHHHHhC
Confidence            778889999999999999977432221 222333322   3689999999999974333333444444433

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.71  E-value=1.4e-16  Score=125.88  Aligned_cols=128  Identities=19%  Similarity=0.160  Sum_probs=88.1

Q ss_pred             cCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc------chhhc--cCCcEEEE
Q 031411           22 GDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI------TTAYY--RGAMGILL   93 (160)
Q Consensus        22 G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~------~~~~~--~~~~~~i~   93 (160)
                      |++|+|||||+|++.+........++.+.+.....+..++  .++.+||+||+..+...      ...++  .++|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~--~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG--EDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECC--eEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            8999999999999998876555566666666666667766  45899999998776543      23333  47899999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceE--EEEee
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVH--LVILK  159 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~--~~~~k  159 (160)
                      |+|+++.+.   ...+..++.   ..+.|+++++||+|+.++. ... .+.+++++..++.  .+|+|
T Consensus        79 VvDat~ler---~l~l~~ql~---~~~~PiIIVlNK~Dl~~~~-~i~-~d~~~L~~~lg~pvv~tSA~  138 (591)
T TIGR00437        79 VVDASNLER---NLYLTLQLL---ELGIPMILALNLVDEAEKK-GIR-IDEEKLEERLGVPVVPTSAT  138 (591)
T ss_pred             EecCCcchh---hHHHHHHHH---hcCCCEEEEEehhHHHHhC-CCh-hhHHHHHHHcCCCEEEEECC
Confidence            999986432   223333332   2478999999999986332 222 3466777776654  44543

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.71  E-value=1.7e-16  Score=128.16  Aligned_cols=115  Identities=23%  Similarity=0.294  Sum_probs=81.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccc----------ccccc-
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----------FRTIT-   81 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----------~~~~~-   81 (160)
                      ..++|+++|.+|+|||||+|+|.+.... ....++++.+.....+.+++.  .+.+|||||..+          +..+. 
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~--~~~liDTaG~~~~~~~~~~~e~~~~~r~  526 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGE--DWLFIDTAGIKRRQHKLTGAEYYSSLRT  526 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCC--EEEEEECCCcccCcccchhHHHHHHHHH
Confidence            4589999999999999999999987642 233344445555556666764  567999999532          11111 


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           82 TAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ...++++|++++|+|+++..+.+... ++..+..   .+.|+++++||+|+.+
T Consensus       527 ~~~i~~advvilViDat~~~s~~~~~-i~~~~~~---~~~piIiV~NK~DL~~  575 (712)
T PRK09518        527 QAAIERSELALFLFDASQPISEQDLK-VMSMAVD---AGRALVLVFNKWDLMD  575 (712)
T ss_pred             HHHhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEEchhcCC
Confidence            23468899999999999887776654 3333332   4789999999999963

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.70  E-value=6.7e-16  Score=118.72  Aligned_cols=115  Identities=29%  Similarity=0.243  Sum_probs=79.7

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc-----------
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI-----------   80 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~-----------   80 (160)
                      +..++|+++|.+++|||||+++|++... .....++.+.+.....+..++  ..+.+|||||..+....           
T Consensus       171 ~~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~lvDT~G~~~~~~~~~~~e~~~~~~  248 (435)
T PRK00093        171 DEPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDG--QKYTLIDTAGIRRKGKVTEGVEKYSVIR  248 (435)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECC--eeEEEEECCCCCCCcchhhHHHHHHHHH
Confidence            3569999999999999999999997542 233334444444444455555  46789999996432211           


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           81 TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        81 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ....+..+|++++|+|++++.+.... +++..+..   .+.|+++++||+|+.
T Consensus       249 ~~~~~~~ad~~ilViD~~~~~~~~~~-~i~~~~~~---~~~~~ivv~NK~Dl~  297 (435)
T PRK00093        249 TLKAIERADVVLLVIDATEGITEQDL-RIAGLALE---AGRALVIVVNKWDLV  297 (435)
T ss_pred             HHHHHHHCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCcEEEEEECccCC
Confidence            12357789999999999987665443 23333322   368999999999996

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

Probab=99.70  E-value=1.8e-19  Score=119.79  Aligned_cols=142  Identities=32%  Similarity=0.642  Sum_probs=120.3

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCE-EEEEEEecCCCcccccccchhhccCCcE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGK-RIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      ...-++++|+|.-++|||+++.+...+.+...+..+.+.++....+..++. .+++.+||..||+++..+..-+++.+++
T Consensus        22 r~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~  101 (229)
T KOG4423|consen   22 REHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHG  101 (229)
T ss_pred             hhhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcc
Confidence            456689999999999999999999999998889999998887777777654 4688999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHh--cC--CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQH--AS--DNVNKILVGNKADMDESKREAPFCLHETILLTVQV  153 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~--~~--~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~  153 (160)
                      .++|||.+....|+...+|.+.+..-  .+  .-+|+++++||+|+.........++..+++++++.
T Consensus       102 ~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf  168 (229)
T KOG4423|consen  102 AFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGF  168 (229)
T ss_pred             eEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCc
Confidence            99999999999999999999999552  22  34688999999999744444445777888888764

>COG1159 Era GTPase [General function prediction only]

Probab=99.69  E-value=1.7e-16  Score=113.33  Aligned_cols=115  Identities=21%  Similarity=0.182  Sum_probs=75.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccc--------cccchhh
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF--------RTITTAY   84 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~--------~~~~~~~   84 (160)
                      +.--|+++|.||+|||||+|.+.+.+.. .+.-+.++...-...++.+  ..++.|.||||-.+-        .......
T Consensus         5 ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~--~~QiIfvDTPGih~pk~~l~~~m~~~a~~s   82 (298)
T COG1159           5 KSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTD--NAQIIFVDTPGIHKPKHALGELMNKAARSA   82 (298)
T ss_pred             eEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcC--CceEEEEeCCCCCCcchHHHHHHHHHHHHH
Confidence            3467999999999999999999997664 2222222222222233333  368999999994322        2223455


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHH-HHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           85 YRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~~~~~~-~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      +.++|++++++|+.++-.  .-.+++ ..+..   .+.|++++.||.|+...
T Consensus        83 l~dvDlilfvvd~~~~~~--~~d~~il~~lk~---~~~pvil~iNKID~~~~  129 (298)
T COG1159          83 LKDVDLILFVVDADEGWG--PGDEFILEQLKK---TKTPVILVVNKIDKVKP  129 (298)
T ss_pred             hccCcEEEEEEeccccCC--ccHHHHHHHHhh---cCCCeEEEEEccccCCc
Confidence            789999999999987322  122222 22322   36799999999998633

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.69  E-value=1.7e-15  Score=122.48  Aligned_cols=116  Identities=19%  Similarity=0.139  Sum_probs=78.9

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccc--------ccccch
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER--------FRTITT   82 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~--------~~~~~~   82 (160)
                      .....+|+++|.+++|||||+|+|.+.... ....++.+.+........++  ..+.+|||||...        +.....
T Consensus       272 ~~~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~  349 (712)
T PRK09518        272 PKAVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG--TDFKLVDTGGWEADVEGIDSAIASQAQ  349 (712)
T ss_pred             cccCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC--EEEEEEeCCCcCCCCccHHHHHHHHHH
Confidence            334578999999999999999999976532 22334444444444445555  4789999999653        222334


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           83 AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .++..+|++++|+|+++.-... -..|...+..   .+.|+++++||+|+.
T Consensus       350 ~~~~~aD~iL~VvDa~~~~~~~-d~~i~~~Lr~---~~~pvIlV~NK~D~~  396 (712)
T PRK09518        350 IAVSLADAVVFVVDGQVGLTST-DERIVRMLRR---AGKPVVLAVNKIDDQ  396 (712)
T ss_pred             HHHHhCCEEEEEEECCCCCCHH-HHHHHHHHHh---cCCCEEEEEECcccc
Confidence            5678999999999997632111 1134343432   478999999999985

>cd00880 Era_like Era (E

Probab=99.69  E-value=4.3e-16  Score=103.17  Aligned_cols=110  Identities=22%  Similarity=0.167  Sum_probs=74.9

Q ss_pred             EEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc-------cchhhccCCcEE
Q 031411           20 LIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT-------ITTAYYRGAMGI   91 (160)
Q Consensus        20 v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~-------~~~~~~~~~~~~   91 (160)
                      ++|+.|+|||||++++.+.... .......+............ ...+.+||+||......       .....+..+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGP-LGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecC-CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            5899999999999999976544 22222222233333333332 35799999999765443       233467899999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ++++|+.+........ +.....   ..+.|+++++||+|+..
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~~---~~~~~~ivv~nK~D~~~  118 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELLR---ERGKPVLLVLNKIDLLP  118 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHHH---hcCCeEEEEEEccccCC
Confidence            9999999877665554 333332   24789999999999863

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

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

Probab=99.69  E-value=1.3e-16  Score=122.07  Aligned_cols=124  Identities=28%  Similarity=0.411  Sum_probs=96.8

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|+.|+||||||-.+....+++...+....  ......+.-..+...+.|++...+........++++|++.
T Consensus         7 ~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~--i~IPadvtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi~   84 (625)
T KOG1707|consen    7 LKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPR--ILIPADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVIC   84 (625)
T ss_pred             ccceEEEEECCCCccHHHHHHHHHhhhccccccccCCc--cccCCccCcCcCceEEEecccccchhHHHHHHHhhcCEEE
Confidence            45599999999999999999999999988775554442  1122233333467889999876665666678899999999


Q ss_pred             EEEECCChhhHHHHHH-HHHHHHHhcC--CCCcEEEEEeCCCCCCCccC
Q 031411           93 LVYDVTDESSFNNIRN-WIRNIEQHAS--DNVNKILVGNKADMDESKRE  138 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~-~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~  138 (160)
                      ++|+.+++.+++.+.. |+..+.+...  ..+|||++|||+|.......
T Consensus        85 lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~  133 (625)
T KOG1707|consen   85 LVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENN  133 (625)
T ss_pred             EEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCcccccc
Confidence            9999999999998865 9999988662  47899999999998644433

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

Probab=99.68  E-value=3.3e-16  Score=110.23  Aligned_cols=113  Identities=20%  Similarity=0.143  Sum_probs=73.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC-------------------------------CCccccceeeeEEEEEEEECCEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSF-------------------------------TTSFITTIGIDFKIRTIELDGKRIK   65 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~   65 (160)
                      +|+++|..++|||||+..|+....                               ..+..+..+.+.....+..++  ..
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~--~~   78 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEK--YR   78 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCC--eE
Confidence            589999999999999999863210                               111222233344444445554  68


Q ss_pred             EEEecCCCcccccccchhhccCCcEEEEEEECCChhh---HH---HHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           66 LQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESS---FN---NIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        66 ~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~---~~---~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.+||+||+..+.......+..+|++++|+|+++...   +.   ...+.+... ... ...|+++++||+|+.
T Consensus        79 i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~-~~~-~~~~iiivvNK~Dl~  150 (219)
T cd01883          79 FTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLA-RTL-GVKQLIVAVNKMDDV  150 (219)
T ss_pred             EEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHH-HHc-CCCeEEEEEEccccc
Confidence            9999999997776666666788999999999987421   11   111222222 211 235899999999997

EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in

>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=99.68  E-value=4e-16  Score=109.78  Aligned_cols=115  Identities=19%  Similarity=0.334  Sum_probs=76.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccc-cceeeeEEEEEEEECCEEEEEEEecCCCccccc-----ccchhhccCCcE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFI-TTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR-----TITTAYYRGAMG   90 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~-----~~~~~~~~~~~~   90 (160)
                      ||+++|+.++||||+.+.+..+..+.+.. -..+.+.....+...+ ...+.+||+||+..+.     ......++++++
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~~-~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~   79 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFLS-FLPLNIWDCPGQDDFMENYFNSQREEIFSNVGV   79 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEECTT-SCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESE
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEecCC-CcEEEEEEcCCccccccccccccHHHHHhccCE
Confidence            79999999999999999999865443322 1222333334444333 2589999999986543     345778899999


Q ss_pred             EEEEEECCChh---hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           91 ILLVYDVTDES---SFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        91 ~i~v~d~~~~~---~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +|+|+|+.+.+   .+..+...+..+.++.+ +..+.++.+|+|+.
T Consensus        80 LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp-~~~v~vfiHK~D~l  124 (232)
T PF04670_consen   80 LIYVFDAQSDDYDEDLAYLSDCIEALRQYSP-NIKVFVFIHKMDLL  124 (232)
T ss_dssp             EEEEEETT-STCHHHHHHHHHHHHHHHHHST-T-EEEEEEE-CCCS
T ss_pred             EEEEEEcccccHHHHHHHHHHHHHHHHHhCC-CCeEEEEEeecccC
Confidence            99999998433   34455556666666666 89999999999985

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.

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.68  E-value=1.1e-15  Score=105.60  Aligned_cols=113  Identities=20%  Similarity=0.162  Sum_probs=75.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCC----------------CCccccceeeeEEEEEEEECCEEEEEEEecCCCccccc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSF----------------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR   78 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~   78 (160)
                      .++|+++|..++|||||+++|+....                ..+..+..+.+..  ...+.....++.+.||||+..+.
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~--~~~~~~~~~~i~~iDtPG~~~~~   79 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTA--HVEYETANRHYAHVDCPGHADYI   79 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEee--eeEecCCCeEEEEEECcCHHHHH
Confidence            47999999999999999999975310                1111233333333  33333334678999999998877


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCC
Q 031411           79 TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMD  133 (160)
Q Consensus        79 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~  133 (160)
                      ......+..+|++++|+|+...-. ....+.+..+..   .++| ++++.||+|+.
T Consensus        80 ~~~~~~~~~~D~~ilVvda~~g~~-~~~~~~~~~~~~---~~~~~iIvviNK~D~~  131 (195)
T cd01884          80 KNMITGAAQMDGAILVVSATDGPM-PQTREHLLLARQ---VGVPYIVVFLNKADMV  131 (195)
T ss_pred             HHHHHHhhhCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCcEEEEEeCCCCC
Confidence            766777889999999999976422 122223333332   2566 77889999985

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

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

Probab=99.68  E-value=3.9e-16  Score=122.91  Aligned_cols=112  Identities=17%  Similarity=0.131  Sum_probs=77.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeee--EEEEEEEEC--------------CEEEEEEEecCCCcccccc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGID--FKIRTIELD--------------GKRIKLQIWDTAGQERFRT   79 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~--------------~~~~~~~~~D~~g~~~~~~   79 (160)
                      .-|+++|.+++|||||+++|.+..+......+.+.+  .........              .....+.+|||||++.+..
T Consensus         5 piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~   84 (590)
T TIGR00491         5 PIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTN   84 (590)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHH
Confidence            469999999999999999999876543322211111  111111110              0012388999999999999


Q ss_pred             cchhhccCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           80 ITTAYYRGAMGILLVYDVTD---ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        80 ~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ++...+..+|++++|||+++   +.+++.+..    +.   ..++|+++++||+|+.+
T Consensus        85 l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~----l~---~~~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        85 LRKRGGALADLAILIVDINEGFKPQTQEALNI----LR---MYKTPFVVAANKIDRIP  135 (590)
T ss_pred             HHHHHHhhCCEEEEEEECCcCCCHhHHHHHHH----HH---HcCCCEEEEEECCCccc
Confidence            89889999999999999987   455544431    11   13789999999999963

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.

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

Probab=99.68  E-value=1.8e-15  Score=96.26  Aligned_cols=106  Identities=25%  Similarity=0.267  Sum_probs=69.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc---------cccchhhcc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF---------RTITTAYYR   86 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~---------~~~~~~~~~   86 (160)
                      +|+++|.+|+|||||+|.|.+... .....+..+.......+..++.  .+.++||||-..-         .......+.
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~--~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~   78 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNK--KFILVDTPGINDGESQDNDGKEIRKFLEQIS   78 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTE--EEEEEESSSCSSSSHHHHHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeecee--eEEEEeCCCCcccchhhHHHHHHHHHHHHHH
Confidence            689999999999999999998533 2222233333344455666774  5679999994321         111223347


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeC
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNK  129 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K  129 (160)
                      .+|++++|+|..++.. +.....+..+.    .+.|+++|+||
T Consensus        79 ~~d~ii~vv~~~~~~~-~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   79 KSDLIIYVVDASNPIT-EDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             TESEEEEEEETTSHSH-HHHHHHHHHHH----TTSEEEEEEES
T ss_pred             HCCEEEEEEECCCCCC-HHHHHHHHHHh----cCCCEEEEEcC
Confidence            8999999999876321 23333444442    47899999998

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 ....

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.67  E-value=1.6e-15  Score=114.14  Aligned_cols=135  Identities=22%  Similarity=0.170  Sum_probs=95.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc--------hh
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT--------TA   83 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~--------~~   83 (160)
                      ..-++++++|.||+|||||+|.|.+.+.. .+..+.++.+.-...+..+|  +.+.+.||.|........        ..
T Consensus       215 r~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G--~pv~l~DTAGiRet~d~VE~iGIeRs~~  292 (454)
T COG0486         215 REGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNG--IPVRLVDTAGIRETDDVVERIGIERAKK  292 (454)
T ss_pred             hcCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECC--EEEEEEecCCcccCccHHHHHHHHHHHH
Confidence            34589999999999999999999976543 55666677777777788888  789999999976544433        24


Q ss_pred             hccCCcEEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEee
Q 031411           84 YYRGAMGILLVYDVTDE-SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVILK  159 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~k  159 (160)
                      .++.+|.+++++|.+.+ +..+...-+      ....+.|+++|.||.||..+......    ++.....+..+|+|
T Consensus       293 ~i~~ADlvL~v~D~~~~~~~~d~~~~~------~~~~~~~~i~v~NK~DL~~~~~~~~~----~~~~~~~~i~iSa~  359 (454)
T COG0486         293 AIEEADLVLFVLDASQPLDKEDLALIE------LLPKKKPIIVVLNKADLVSKIELESE----KLANGDAIISISAK  359 (454)
T ss_pred             HHHhCCEEEEEEeCCCCCchhhHHHHH------hcccCCCEEEEEechhcccccccchh----hccCCCceEEEEec
Confidence            57889999999999985 222222111      33457899999999999744332111    33444445666554

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.67  E-value=1.1e-15  Score=110.30  Aligned_cols=119  Identities=19%  Similarity=0.230  Sum_probs=88.5

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCc--c------cccccch
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ--E------RFRTITT   82 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~--~------~~~~~~~   82 (160)
                      -.+...+|+|+|.||||||||++++++.+......+.++-..+..++...+  .+++++||||-  .      ..+.+..
T Consensus       164 Idp~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~~~--~R~QvIDTPGlLDRPl~ErN~IE~qAi  241 (346)
T COG1084         164 IDPDLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGY--LRIQVIDTPGLLDRPLEERNEIERQAI  241 (346)
T ss_pred             CCCCCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeeeecCC--ceEEEecCCcccCCChHHhcHHHHHHH
Confidence            344567999999999999999999999887766666666566666666666  57899999993  1      1122223


Q ss_pred             hhccC-CcEEEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           83 AYYRG-AMGILLVYDVTDE--SSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        83 ~~~~~-~~~~i~v~d~~~~--~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ..++. .++++|+||.+..  -+.+.....+.++.....  .|+++|+||.|..
T Consensus       242 ~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~  293 (346)
T COG1084         242 LALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIA  293 (346)
T ss_pred             HHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEeccccc
Confidence            33443 5788899999863  456777778888877655  7999999999986

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

Probab=99.67  E-value=6.8e-16  Score=111.73  Aligned_cols=113  Identities=23%  Similarity=0.338  Sum_probs=77.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCc------------------cccceeeeEEEEEEEECCEEEEEEEecCCCccccc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTS------------------FITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR   78 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~   78 (160)
                      +|+++|.+|+|||||+++|+.......                  .....++......+.+++  ..+++|||||+..+.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~--~~i~liDtPG~~~f~   78 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKG--HKINLIDTPGYADFV   78 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECC--EEEEEEECcCHHHHH
Confidence            589999999999999999974321100                  011122223333444555  678999999998877


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           79 TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        79 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ..+...+..+|++++|+|+++.........| ..+.   ..++|+++++||+|+...
T Consensus        79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~---~~~~p~iivvNK~D~~~~  131 (268)
T cd04170          79 GETRAALRAADAALVVVSAQSGVEVGTEKLW-EFAD---EAGIPRIIFINKMDRERA  131 (268)
T ss_pred             HHHHHHHHHCCEEEEEEeCCCCCCHHHHHHH-HHHH---HcCCCEEEEEECCccCCC
Confidence            7778889999999999999876544333222 2222   236899999999999743

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

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.67  E-value=1e-15  Score=102.62  Aligned_cols=108  Identities=20%  Similarity=0.321  Sum_probs=70.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc----------ccccchhhcc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----------FRTITTAYYR   86 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----------~~~~~~~~~~   86 (160)
                      .|+++|.+|+|||||++.+.++.+.....++.+..........++   .+.+||+||...          +......++.
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~   77 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLE   77 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHH
Confidence            379999999999999999996555444444443333333333333   789999999432          2333333333


Q ss_pred             ---CCcEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           87 ---GAMGILLVYDVTDES--SFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        87 ---~~~~~i~v~d~~~~~--~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                         ..+++++++|.....  ....+.+|+...      +.|+++++||+|+.
T Consensus        78 ~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~------~~~vi~v~nK~D~~  123 (170)
T cd01876          78 NRENLKGVVLLIDSRHGPTEIDLEMLDWLEEL------GIPFLVVLTKADKL  123 (170)
T ss_pred             hChhhhEEEEEEEcCcCCCHhHHHHHHHHHHc------CCCEEEEEEchhcC
Confidence               457888999987652  223344454332      57999999999985

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.67  E-value=1e-15  Score=120.78  Aligned_cols=113  Identities=20%  Similarity=0.221  Sum_probs=76.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCcccc----ceeeeEEEEEEE--ECCEE-----E-----EEEEecCCCcccc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFIT----TIGIDFKIRTIE--LDGKR-----I-----KLQIWDTAGQERF   77 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~----~~~~~~~~~~~~--~~~~~-----~-----~~~~~D~~g~~~~   77 (160)
                      +...|+++|..++|||||+++|.+.........    +.+..+......  ..+..     .     .+.+|||||++.|
T Consensus         5 R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~f   84 (586)
T PRK04004          5 RQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAF   84 (586)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHHH
Confidence            445899999999999999999986543322221    222111111000  00111     1     2689999999999


Q ss_pred             cccchhhccCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           78 RTITTAYYRGAMGILLVYDVTD---ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        78 ~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ..++...+..+|++++|+|+++   +.+++.+..    +..   .++|+++++||+|+.
T Consensus        85 ~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~----~~~---~~vpiIvviNK~D~~  136 (586)
T PRK04004         85 TNLRKRGGALADIAILVVDINEGFQPQTIEAINI----LKR---RKTPFVVAANKIDRI  136 (586)
T ss_pred             HHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHH----HHH---cCCCEEEEEECcCCc
Confidence            9888888899999999999987   555555432    221   378999999999985

>PRK13351 elongation factor G; Reviewed

Probab=99.65  E-value=1.4e-15  Score=122.73  Aligned_cols=128  Identities=17%  Similarity=0.163  Sum_probs=88.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-------------C-----ccccceeeeEEEEEEEECCEEEEEEEecCCCcc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-------------T-----SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE   75 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-------------~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~   75 (160)
                      ...+|+++|..++|||||+++|+.....             .     +.....++......+.+++  ..+.+|||||+.
T Consensus         7 ~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~--~~i~liDtPG~~   84 (687)
T PRK13351          7 QIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDN--HRINLIDTPGHI   84 (687)
T ss_pred             cccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECC--EEEEEEECCCcH
Confidence            4579999999999999999999852110             0     0011122222233444444  689999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHH
Q 031411           76 RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETI  147 (160)
Q Consensus        76 ~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~  147 (160)
                      ++...+..+++.+|++++|+|+++....+....| ..+..   .++|+++++||+|+.........+++++.
T Consensus        85 df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~~~~~~~~~~~i~~~  152 (687)
T PRK13351         85 DFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRVGADLFKVLEDIEER  152 (687)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCCCCCHHHHHHHHHHH
Confidence            8888888899999999999999887665544333 22322   37899999999999754444444444443

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.64  E-value=3.5e-15  Score=116.55  Aligned_cols=118  Identities=16%  Similarity=0.119  Sum_probs=80.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC----------------------CccccceeeeEEEEEEEECCEEEEEEEec
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT----------------------TSFITTIGIDFKIRTIELDGKRIKLQIWD   70 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D   70 (160)
                      ..+.+|+++|..++|||||.++|+.....                      .+.....++......+.+++  +.+++||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~--~~inliD   85 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRD--CLINLLD   85 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECC--EEEEEEE
Confidence            45679999999999999999999731100                      00111112222233344444  7899999


Q ss_pred             CCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc
Q 031411           71 TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK  136 (160)
Q Consensus        71 ~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~  136 (160)
                      |||+..+.......+..+|++++|+|+++.... ...+++....   ..++|+++++||+|+....
T Consensus        86 TPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~---~~~iPiiv~iNK~D~~~a~  147 (526)
T PRK00741         86 TPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVCR---LRDTPIFTFINKLDRDGRE  147 (526)
T ss_pred             CCCchhhHHHHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHHH---hcCCCEEEEEECCcccccC
Confidence            999998887777788999999999999874322 2233333332   2478999999999987443

>TIGR00503 prfC peptide chain release factor 3

Probab=99.64  E-value=2.9e-15  Score=116.98  Aligned_cols=132  Identities=17%  Similarity=0.156  Sum_probs=83.5

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhc-CCCCCc-------------------cccceeeeEEEEEEEECCEEEEEEEecC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSD-GSFTTS-------------------FITTIGIDFKIRTIELDGKRIKLQIWDT   71 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~-~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~~~D~   71 (160)
                      ..+..+|+++|..++|||||+++|+. ......                   .....++........++...+.+.+|||
T Consensus         8 ~~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDT   87 (527)
T TIGR00503         8 VDKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDT   87 (527)
T ss_pred             hccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEEC
Confidence            34567999999999999999999863 111100                   0011122233333333333478999999


Q ss_pred             CCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHH
Q 031411           72 AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETI  147 (160)
Q Consensus        72 ~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~  147 (160)
                      ||+..+.......+..+|++++|+|+.+... .....++.....   .++|+++++||+|+.........+++++.
T Consensus        88 PG~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~~PiivviNKiD~~~~~~~~ll~~i~~~  159 (527)
T TIGR00503        88 PGHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL---RDTPIFTFMNKLDRDIRDPLELLDEVENE  159 (527)
T ss_pred             CChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh---cCCCEEEEEECccccCCCHHHHHHHHHHH
Confidence            9998887766677899999999999986411 122333333322   47899999999999643322233444443

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.64  E-value=6e-15  Score=105.96  Aligned_cols=140  Identities=21%  Similarity=0.269  Sum_probs=99.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc-------chhhccC
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI-------TTAYYRG   87 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~-------~~~~~~~   87 (160)
                      ...+.++|.|++|||||++.|.+.+........+++.+....+.+++.. ++.+-|+||.-+-..+       .-..+++
T Consensus       196 iadvGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf~-q~tVADiPGiI~GAh~nkGlG~~FLrHiER  274 (366)
T KOG1489|consen  196 IADVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDFS-QITVADIPGIIEGAHMNKGLGYKFLRHIER  274 (366)
T ss_pred             ecccceecCCCCcHHHHHHHhhccCCcccccceeeeccccceeeccccc-eeEeccCccccccccccCcccHHHHHHHHh
Confidence            3567899999999999999999877655555555565665666665543 5999999994322211       1234678


Q ss_pred             CcEEEEEEECCCh---hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc---eEEEEee
Q 031411           88 AMGILLVYDVTDE---SSFNNIRNWIRNIEQHAS--DNVNKILVGNKADMDESKREAPFCLHETILLTVQ---VHLVILK  159 (160)
Q Consensus        88 ~~~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~---~~~~~~k  159 (160)
                      ++.+++|+|++.+   +.++.+.....++..+..  .+.|.++|+||+|+++.+.    ....++++...   +..++||
T Consensus       275 ~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae~----~~l~~L~~~lq~~~V~pvsA~  350 (366)
T KOG1489|consen  275 CKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAEK----NLLSSLAKRLQNPHVVPVSAK  350 (366)
T ss_pred             hceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHHH----HHHHHHHHHcCCCcEEEeeec
Confidence            9999999999998   888888887777766543  4679999999999962221    22355555554   6777775

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.64  E-value=4.7e-15  Score=112.67  Aligned_cols=137  Identities=19%  Similarity=0.133  Sum_probs=85.7

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcC----------------CCCCccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDG----------------SFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      ...+..++|+++|..++|||||+++|+..                ....+..+..+.+.  ....+.....++.+||+||
T Consensus         7 ~~~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~--~~~~~~~~~~~~~liDtpG   84 (394)
T TIGR00485         7 ERTKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINT--AHVEYETENRHYAHVDCPG   84 (394)
T ss_pred             cCCCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceee--EEEEEcCCCEEEEEEECCc
Confidence            34566799999999999999999999732                01122223333333  3344443446789999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCCCcc--CCChhHHHHHhhh
Q 031411           74 QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI-LVGNKADMDESKR--EAPFCLHETILLT  150 (160)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~-vv~~K~Dl~~~~~--~~~~~~~~~~~~~  150 (160)
                      +++|..........+|++++|+|+.+....+. .+.+..+..   .++|.+ +++||+|+.+...  +...++++++...
T Consensus        85 h~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt-~e~l~~~~~---~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~  160 (394)
T TIGR00485        85 HADYVKNMITGAAQMDGAILVVSATDGPMPQT-REHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSE  160 (394)
T ss_pred             hHHHHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHh
Confidence            98876655556678899999999986322221 122222222   256655 6799999964322  1122356666665


Q ss_pred             cc
Q 031411          151 VQ  152 (160)
Q Consensus       151 ~~  152 (160)
                      ++
T Consensus       161 ~~  162 (394)
T TIGR00485       161 YD  162 (394)
T ss_pred             cC
Confidence            54

This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.63  E-value=5.3e-15  Score=117.39  Aligned_cols=135  Identities=17%  Similarity=0.129  Sum_probs=86.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC---CCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG---SFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      -|.++|..++|||||+++|.+.   .+.++.....+++.....+...+. ..+.+||+|||++|.......+.++|++++
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g-~~i~~IDtPGhe~fi~~m~~g~~~~D~~lL   80 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDG-RVLGFIDVPGHEKFLSNMLAGVGGIDHALL   80 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCC-cEEEEEECCCHHHHHHHHHHHhhcCCEEEE
Confidence            4789999999999999999863   334444445554444333333221 358999999999887766777889999999


Q ss_pred             EEECCC---hhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCcc-CCChhHHHHHhhhc-----ceEEEEee
Q 031411           94 VYDVTD---ESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDESKR-EAPFCLHETILLTV-----QVHLVILK  159 (160)
Q Consensus        94 v~d~~~---~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~~~~-~~~~~~~~~~~~~~-----~~~~~~~k  159 (160)
                      |+|+.+   +.+.+.+    ..+..   .++| ++|++||+|+.++.. ....++++++....     .+..+|++
T Consensus        81 VVda~eg~~~qT~ehl----~il~~---lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~  149 (614)
T PRK10512         81 VVACDDGVMAQTREHL----AILQL---TGNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAAT  149 (614)
T ss_pred             EEECCCCCcHHHHHHH----HHHHH---cCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCC
Confidence            999986   3333332    11221   1445 578999999964322 12234555555443     34555653

>PRK12735 elongation factor Tu; Reviewed

Probab=99.63  E-value=5.9e-15  Score=112.14  Aligned_cols=136  Identities=18%  Similarity=0.120  Sum_probs=84.2

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcC-------C---------CCCccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDG-------S---------FTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~-------~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      ...+..++|+++|..++|||||+++|+..       .         ...+.....+.+.  ....+.....++.|+||||
T Consensus         7 ~~~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~--~~~~~~~~~~~i~~iDtPG   84 (396)
T PRK12735          7 ERTKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINT--SHVEYETANRHYAHVDCPG   84 (396)
T ss_pred             CCCCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEE--eeeEEcCCCcEEEEEECCC
Confidence            34566799999999999999999999852       0         0111223333333  2333333335789999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCCCcc--CCChhHHHHHhhh
Q 031411           74 QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI-LVGNKADMDESKR--EAPFCLHETILLT  150 (160)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~-vv~~K~Dl~~~~~--~~~~~~~~~~~~~  150 (160)
                      +.+|.......+..+|++++|+|+.+... ....+.+..+.   ..++|.+ ++.||+|+.++..  +...+++.++...
T Consensus        85 h~~f~~~~~~~~~~aD~~llVvda~~g~~-~qt~e~l~~~~---~~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~  160 (396)
T PRK12735         85 HADYVKNMITGAAQMDGAILVVSAADGPM-PQTREHILLAR---QVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSK  160 (396)
T ss_pred             HHHHHHHHHhhhccCCEEEEEEECCCCCc-hhHHHHHHHHH---HcCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHH
Confidence            98776656667788999999999986322 12222232222   2367755 5799999963221  1122345555554


Q ss_pred             c
Q 031411          151 V  151 (160)
Q Consensus       151 ~  151 (160)
                      +
T Consensus       161 ~  161 (396)
T PRK12735        161 Y  161 (396)
T ss_pred             c
Confidence            3

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.63  E-value=6.1e-15  Score=102.17  Aligned_cols=111  Identities=14%  Similarity=0.206  Sum_probs=66.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceee-eEEE--EEEEECCEEEEEEEecCCCcccccccch-----hhcc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGI-DFKI--RTIELDGKRIKLQIWDTAGQERFRTITT-----AYYR   86 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~~~D~~g~~~~~~~~~-----~~~~   86 (160)
                      ++||+++|.+|+|||||+|.|.+...........+. ....  ..+...+ ...+.+||+||.........     ..+.
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~~l~~~~~~   79 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPK-FPNVTLWDLPGIGSTAFPPDDYLEEMKFS   79 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCC-CCCceEEeCCCCCcccCCHHHHHHHhCcc
Confidence            378999999999999999999986543221111111 1110  1111111 23689999999653322222     2356


Q ss_pred             CCcEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           87 GAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ++|+++++.+. .   +... ..|+..+...   +.|+++|+||+|+.
T Consensus        80 ~~d~~l~v~~~-~---~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~  120 (197)
T cd04104          80 EYDFFIIISST-R---FSSNDVKLAKAIQCM---GKKFYFVRTKVDRD  120 (197)
T ss_pred             CcCEEEEEeCC-C---CCHHHHHHHHHHHHh---CCCEEEEEecccch
Confidence            78998887432 2   2222 2344444443   56999999999983

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

>PRK12736 elongation factor Tu; Reviewed

Probab=99.63  E-value=6.4e-15  Score=111.89  Aligned_cols=135  Identities=17%  Similarity=0.103  Sum_probs=84.1

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCC----------------CCccccceeeeEEEEEEEECCEEEEEEEecCCCcc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSF----------------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE   75 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~   75 (160)
                      .+..++|+++|..++|||||+++|++...                ..+..+..+.+.  ....+......+.++|+||+.
T Consensus         9 ~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~--~~~~~~~~~~~i~~iDtPGh~   86 (394)
T PRK12736          9 SKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINT--AHVEYETEKRHYAHVDCPGHA   86 (394)
T ss_pred             CCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEE--EeeEecCCCcEEEEEECCCHH
Confidence            45679999999999999999999985211                111233333333  333443334578999999998


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCccCC--ChhHHHHHhhhcc
Q 031411           76 RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDESKREA--PFCLHETILLTVQ  152 (160)
Q Consensus        76 ~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~~~~~~--~~~~~~~~~~~~~  152 (160)
                      +|.......+..+|++++|+|+.+...-. ..+.+..+..   .++| ++++.||+|+.+.....  ..+++.++.+..+
T Consensus        87 ~f~~~~~~~~~~~d~~llVvd~~~g~~~~-t~~~~~~~~~---~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~  162 (394)
T PRK12736         87 DYVKNMITGAAQMDGAILVVAATDGPMPQ-TREHILLARQ---VGVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYD  162 (394)
T ss_pred             HHHHHHHHHHhhCCEEEEEEECCCCCchh-HHHHHHHHHH---cCCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhC
Confidence            87665666678899999999997632211 1222222322   2677 67889999986322211  1234555554443

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.63  E-value=7.4e-15  Score=118.48  Aligned_cols=117  Identities=19%  Similarity=0.118  Sum_probs=82.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC------------------CccccceeeeEEEEEEEECCEEEEEEEecCCCcc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT------------------TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE   75 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~   75 (160)
                      ...+|+++|..++|||||+++|+.....                  .+.....+++.....+.+++  .++.+|||||+.
T Consensus         9 ~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~--~~i~liDTPG~~   86 (689)
T TIGR00484         9 RFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKG--HRINIIDTPGHV   86 (689)
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECC--eEEEEEECCCCc
Confidence            4569999999999999999999742110                  01122333444445555555  689999999998


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc
Q 031411           76 RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK  136 (160)
Q Consensus        76 ~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~  136 (160)
                      .+...+...+..+|++++|+|+.+....+.. .++..+..   .++|+++++||+|+....
T Consensus        87 ~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~-~~~~~~~~---~~~p~ivviNK~D~~~~~  143 (689)
T TIGR00484        87 DFTVEVERSLRVLDGAVAVLDAVGGVQPQSE-TVWRQANR---YEVPRIAFVNKMDKTGAN  143 (689)
T ss_pred             chhHHHHHHHHHhCEEEEEEeCCCCCChhHH-HHHHHHHH---cCCCEEEEEECCCCCCCC
Confidence            8877788889999999999999875444332 22233322   368999999999997433

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>PLN03126 Elongation factor Tu; Provisional

Probab=99.62  E-value=9.7e-15  Score=112.81  Aligned_cols=118  Identities=17%  Similarity=0.097  Sum_probs=80.6

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCC----------------CCCccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGS----------------FTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      ..+..++|+++|..++|||||+++|+...                ..++.....+++.....+..++  .++.++|+|||
T Consensus        77 ~~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~--~~i~liDtPGh  154 (478)
T PLN03126         77 RKKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETEN--RHYAHVDCPGH  154 (478)
T ss_pred             ccCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCC--cEEEEEECCCH
Confidence            35667999999999999999999998511                1222333333333333333344  57899999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCC
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDE  134 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~  134 (160)
                      .+|-......+..+|++++|+|+.+...- ...+++..+..   .++| ++++.||+|+.+
T Consensus       155 ~~f~~~~~~g~~~aD~ailVVda~~G~~~-qt~e~~~~~~~---~gi~~iIvvvNK~Dl~~  211 (478)
T PLN03126        155 ADYVKNMITGAAQMDGAILVVSGADGPMP-QTKEHILLAKQ---VGVPNMVVFLNKQDQVD  211 (478)
T ss_pred             HHHHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHHH---cCCCeEEEEEecccccC
Confidence            98877667777899999999999864322 22333333332   2677 778899999964

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.62  E-value=4.5e-15  Score=113.17  Aligned_cols=147  Identities=14%  Similarity=0.147  Sum_probs=84.8

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCC---CCCccccceeeeEEEEEEEE------------------C--C----E
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGS---FTTSFITTIGIDFKIRTIEL------------------D--G----K   62 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~---~~~~~~~~~~~~~~~~~~~~------------------~--~----~   62 (160)
                      ..++..++|+++|..++|||||+..|.+..   ...+..+..++........+                  +  +    .
T Consensus         4 ~~~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (411)
T PRK04000          4 EKVQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETEL   83 (411)
T ss_pred             ccCCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccccccccc
Confidence            345567999999999999999999996531   12222222332221111110                  0  1    1


Q ss_pred             EEEEEEecCCCcccccccchhhccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccC-CC
Q 031411           63 RIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDES-SFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRE-AP  140 (160)
Q Consensus        63 ~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~-~~  140 (160)
                      ...+.+||+||+..+..........+|++++|+|++++. .-+... .+..+.. . ...|+++++||+|+.+.... ..
T Consensus        84 ~~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~-~l~~l~~-~-~i~~iiVVlNK~Dl~~~~~~~~~  160 (411)
T PRK04000         84 LRRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKE-HLMALDI-I-GIKNIVIVQNKIDLVSKERALEN  160 (411)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHH-HHHHHHH-c-CCCcEEEEEEeeccccchhHHHH
Confidence            257899999999877655455556789999999998642 111111 1112211 1 12368999999999643221 12


Q ss_pred             hhHHHHHhhh-----cceEEEEee
Q 031411          141 FCLHETILLT-----VQVHLVILK  159 (160)
Q Consensus       141 ~~~~~~~~~~-----~~~~~~~~k  159 (160)
                      .++++++...     ..+..+|++
T Consensus       161 ~~~i~~~l~~~~~~~~~ii~vSA~  184 (411)
T PRK04000        161 YEQIKEFVKGTVAENAPIIPVSAL  184 (411)
T ss_pred             HHHHHHHhccccCCCCeEEEEECC
Confidence            3455555543     234555654

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.62  E-value=2e-15  Score=113.35  Aligned_cols=110  Identities=25%  Similarity=0.198  Sum_probs=80.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccccc---------ccchhhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR---------TITTAYY   85 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~---------~~~~~~~   85 (160)
                      ..|+++|.||+|||||+|+|.+.... .+..+.++.+.......+.+  ..|.+.||+|-+...         .+....+
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~--~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai   81 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLG--REFILIDTGGLDDGDEDELQELIREQALIAI   81 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcC--ceEEEEECCCCCcCCchHHHHHHHHHHHHHH
Confidence            57999999999999999999986543 44566666677777777777  359999999955322         2334567


Q ss_pred             cCCcEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           86 RGAMGILLVYDVTDESS--FNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~--~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ..+|+++||+|....-+  -+.+.+|+.      ..+.|+++++||+|-.
T Consensus        82 ~eADvilfvVD~~~Git~~D~~ia~~Lr------~~~kpviLvvNK~D~~  125 (444)
T COG1160          82 EEADVILFVVDGREGITPADEEIAKILR------RSKKPVILVVNKIDNL  125 (444)
T ss_pred             HhCCEEEEEEeCCCCCCHHHHHHHHHHH------hcCCCEEEEEEcccCc
Confidence            88999999999976322  233333333      2368999999999964

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.61  E-value=3.7e-15  Score=113.59  Aligned_cols=135  Identities=14%  Similarity=0.131  Sum_probs=80.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC---CccccceeeeEEEEE--------------EEE----CC------EEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT---TSFITTIGIDFKIRT--------------IEL----DG------KRIKL   66 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~---~~~~~~~~~~~~~~~--------------~~~----~~------~~~~~   66 (160)
                      ..++|+++|..++|||||++.|.+....   ++..+..+.......              ++.    ++      ....+
T Consensus         3 ~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   82 (406)
T TIGR03680         3 PEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRV   82 (406)
T ss_pred             ceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccEE
Confidence            4689999999999999999999753221   121111111111000              001    11      13578


Q ss_pred             EEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcc-CCChhHHH
Q 031411           67 QIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR-EAPFCLHE  145 (160)
Q Consensus        67 ~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~-~~~~~~~~  145 (160)
                      .+||+||+++|...+......+|++++|+|+++........+.+..+.. .. ..|+++++||+|+.+... ....+++.
T Consensus        83 ~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~-~g-i~~iIVvvNK~Dl~~~~~~~~~~~~i~  160 (406)
T TIGR03680        83 SFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEI-IG-IKNIVIVQNKIDLVSKEKALENYEEIK  160 (406)
T ss_pred             EEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHH-cC-CCeEEEEEEccccCCHHHHHHHHHHHH
Confidence            9999999998887777777889999999999864311122222222221 11 347899999999964322 12234555


Q ss_pred             HHhhh
Q 031411          146 TILLT  150 (160)
Q Consensus       146 ~~~~~  150 (160)
                      ++...
T Consensus       161 ~~l~~  165 (406)
T TIGR03680       161 EFVKG  165 (406)
T ss_pred             hhhhh
Confidence            55543

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

>CHL00071 tufA elongation factor Tu

Probab=99.61  E-value=1.3e-14  Score=110.68  Aligned_cols=135  Identities=16%  Similarity=0.098  Sum_probs=84.9

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCC----------------CCccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSF----------------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      ..+..++|+++|..++|||||+++|++...                ..+..+..+.+...  ..+.....++.+.|+||+
T Consensus         8 ~~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~--~~~~~~~~~~~~iDtPGh   85 (409)
T CHL00071          8 RKKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAH--VEYETENRHYAHVDCPGH   85 (409)
T ss_pred             CCCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccE--EEEccCCeEEEEEECCCh
Confidence            355679999999999999999999986311                11222333333322  233323357889999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCcc--CCChhHHHHHhhhc
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDESKR--EAPFCLHETILLTV  151 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~~~~--~~~~~~~~~~~~~~  151 (160)
                      ..+.......+..+|++++|+|+..... ....+.+..+..   .++| ++++.||+|+.+...  +...+++.++.+..
T Consensus        86 ~~~~~~~~~~~~~~D~~ilVvda~~g~~-~qt~~~~~~~~~---~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~  161 (409)
T CHL00071         86 ADYVKNMITGAAQMDGAILVVSAADGPM-PQTKEHILLAKQ---VGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKY  161 (409)
T ss_pred             HHHHHHHHHHHHhCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHh
Confidence            8776666677889999999999976422 222222222222   3678 778899999964322  11123455555443

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.61  E-value=7.8e-16  Score=98.55  Aligned_cols=118  Identities=25%  Similarity=0.485  Sum_probs=94.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +...+++++|-.|+||||++.++.-++... ..|+.+  ++...+.+.+  ..+++||+.|+-.....|+.++.+.|.+|
T Consensus        16 e~e~rililgldGaGkttIlyrlqvgevvt-tkPtig--fnve~v~yKN--Lk~~vwdLggqtSirPyWRcYy~dt~avI   90 (182)
T KOG0072|consen   16 EREMRILILGLDGAGKTTILYRLQVGEVVT-TKPTIG--FNVETVPYKN--LKFQVWDLGGQTSIRPYWRCYYADTDAVI   90 (182)
T ss_pred             ccceEEEEeeccCCCeeEEEEEcccCcccc-cCCCCC--cCcccccccc--ccceeeEccCcccccHHHHHHhcccceEE
Confidence            467899999999999999999999776543 345555  4445555544  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDES  135 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~  135 (160)
                      +|+|.++.+.+-.....+..+.+... .+..++|++||.|.+..
T Consensus        91 yVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~  134 (182)
T KOG0072|consen   91 YVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGA  134 (182)
T ss_pred             EEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhh
Confidence            99999999888777776666655332 46788999999998643

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.61  E-value=1.3e-14  Score=98.58  Aligned_cols=115  Identities=23%  Similarity=0.320  Sum_probs=79.1

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCC----------ccccccc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG----------QERFRTI   80 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g----------~~~~~~~   80 (160)
                      +.+...-|+++|.+|+|||||||.|++.+.-.....+.|.+.....+.+++   .+.+.|.||          ++.|..+
T Consensus        20 P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~---~~~lVDlPGYGyAkv~k~~~e~w~~~   96 (200)
T COG0218          20 PEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDD---ELRLVDLPGYGYAKVPKEVKEKWKKL   96 (200)
T ss_pred             CCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecC---cEEEEeCCCcccccCCHHHHHHHHHH
Confidence            344557899999999999999999999764333333444444445566666   378999999          3456666


Q ss_pred             chhhcc---CCcEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           81 TTAYYR---GAMGILLVYDVTDESSFN--NIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        81 ~~~~~~---~~~~~i~v~d~~~~~~~~--~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ...+++   +..++++++|+..+..-.  .+-+|+.+      .++|++|++||+|..+
T Consensus        97 i~~YL~~R~~L~~vvlliD~r~~~~~~D~em~~~l~~------~~i~~~vv~tK~DKi~  149 (200)
T COG0218          97 IEEYLEKRANLKGVVLLIDARHPPKDLDREMIEFLLE------LGIPVIVVLTKADKLK  149 (200)
T ss_pred             HHHHHhhchhheEEEEEEECCCCCcHHHHHHHHHHHH------cCCCeEEEEEccccCC
Confidence            666664   356888999997653322  22223322      3889999999999863

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.59  E-value=4.7e-15  Score=113.95  Aligned_cols=135  Identities=19%  Similarity=0.123  Sum_probs=87.8

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCC-------------------------------CCccccceeeeEEEEEEEEC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSF-------------------------------TTSFITTIGIDFKIRTIELD   60 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~   60 (160)
                      .+..++|+++|..++|||||+.+|+...-                               .++.....+++.  ....+.
T Consensus         4 ~k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~--~~~~~~   81 (447)
T PLN00043          4 EKVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDI--ALWKFE   81 (447)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEE--EEEEec
Confidence            34568999999999999999998874110                               111222233333  233344


Q ss_pred             CEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHH-------HHHHHHHHHHHhcCCCC-cEEEEEeCCCC
Q 031411           61 GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFN-------NIRNWIRNIEQHASDNV-NKILVGNKADM  132 (160)
Q Consensus        61 ~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~-------~~~~~~~~~~~~~~~~~-pi~vv~~K~Dl  132 (160)
                      .....+++.|+|||.+|.......+..+|++++|+|+.+ ..|+       ...+.+..+.   ..++ ++++++||+|+
T Consensus        82 ~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~-G~~e~g~~~~~qT~eh~~~~~---~~gi~~iIV~vNKmD~  157 (447)
T PLN00043         82 TTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTT-GGFEAGISKDGQTREHALLAF---TLGVKQMICCCNKMDA  157 (447)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEccc-CceecccCCCchHHHHHHHHH---HcCCCcEEEEEEcccC
Confidence            444689999999999998888888999999999999986 3333       2222221111   2356 57888999998


Q ss_pred             CCCcc-----CCChhHHHHHhhhcc
Q 031411          133 DESKR-----EAPFCLHETILLTVQ  152 (160)
Q Consensus       133 ~~~~~-----~~~~~~~~~~~~~~~  152 (160)
                      .+...     ....++++.++++.+
T Consensus       158 ~~~~~~~~~~~~i~~ei~~~l~~~g  182 (447)
T PLN00043        158 TTPKYSKARYDEIVKEVSSYLKKVG  182 (447)
T ss_pred             CchhhhHHHHHHHHHHHHHHHHHcC
Confidence            52111     123456777777655

>COG2262 HflX GTPases [General function prediction only]

Probab=99.59  E-value=4.7e-14  Score=104.68  Aligned_cols=124  Identities=22%  Similarity=0.230  Sum_probs=92.7

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCc-ccc-cccch----
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ-ERF-RTITT----   82 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~-~~~-~~~~~----   82 (160)
                      .+.......|.++|-+|+|||||+|.|.+...........+++.+...+...+ ...+.+-||.|= ... ..+..    
T Consensus       186 ~R~~~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFks  264 (411)
T COG2262         186 KRSRSGIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKS  264 (411)
T ss_pred             hhcccCCCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCC-CceEEEecCccCcccCChHHHHHHHH
Confidence            34445668999999999999999999998776666677777888888888875 247889999991 111 11111    


Q ss_pred             --hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           83 --AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        83 --~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                        .....+|+++.|+|+++|...+.+..-...+......+.|++++.||.|+.
T Consensus       265 TLEE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~  317 (411)
T COG2262         265 TLEEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLL  317 (411)
T ss_pred             HHHHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEeccccc
Confidence              124579999999999999776666655555555544578999999999975

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.58  E-value=3.2e-14  Score=110.13  Aligned_cols=118  Identities=20%  Similarity=0.163  Sum_probs=75.4

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCC--C-------------------------------ccccceeeeEEEEEEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFT--T-------------------------------SFITTIGIDFKIRTIE   58 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~--~-------------------------------~~~~~~~~~~~~~~~~   58 (160)
                      .+..++|+++|..++|||||+++|+...-.  .                               +.....+++.....+.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~  103 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFS  103 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEec
Confidence            456699999999999999999999743211  0                               0111122333333333


Q ss_pred             ECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           59 LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        59 ~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .++  .++.|+||||+..+.......+..+|++++|+|+.....-.....+. .+... . ..|++++.||+|+.+
T Consensus       104 ~~~--~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~-l~~~l-g-~~~iIvvvNKiD~~~  174 (474)
T PRK05124        104 TEK--RKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSF-IATLL-G-IKHLVVAVNKMDLVD  174 (474)
T ss_pred             cCC--cEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHHH-HHHHh-C-CCceEEEEEeecccc
Confidence            333  57899999999888665556679999999999997642211111111 11111 1 237899999999963

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.57  E-value=2.7e-14  Score=115.63  Aligned_cols=129  Identities=18%  Similarity=0.138  Sum_probs=83.2

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcC---------------CCCC-ccccceeee--EEEEEEEECCEEEEEEEecCCC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDG---------------SFTT-SFITTIGID--FKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~---------------~~~~-~~~~~~~~~--~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      .+...||+++|..++|||||+++|+..               .+.. +..+..++.  .....+..++..+.+.+|||||
T Consensus        16 ~~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG   95 (720)
T TIGR00490        16 PKFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPG   95 (720)
T ss_pred             cccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCC
Confidence            345679999999999999999999742               1111 111111211  1112223455568999999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHH
Q 031411           74 QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLH  144 (160)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~  144 (160)
                      +..+.......+..+|++++|+|+.+....+...-|. ...   ..++|+++++||+|..........+++
T Consensus        96 ~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~-~~~---~~~~p~ivviNKiD~~~~~~~~~~~~~  162 (720)
T TIGR00490        96 HVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLR-QAL---KENVKPVLFINKVDRLINELKLTPQEL  162 (720)
T ss_pred             ccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHH-HHH---HcCCCEEEEEEChhcccchhcCCHHHH
Confidence            9988877788899999999999997643222222122 111   236788999999998644333333333

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

>PRK12739 elongation factor G; Reviewed

Probab=99.57  E-value=5.3e-14  Score=113.57  Aligned_cols=118  Identities=19%  Similarity=0.131  Sum_probs=82.8

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCC------------------CCccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSF------------------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      +...+|+++|..++|||||+++|+....                  ..+..+..+++.....+.+++  .++.++||||+
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG~   83 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKG--HRINIIDTPGH   83 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECC--EEEEEEcCCCH
Confidence            3567999999999999999999974211                  011233344444445555555  67899999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK  136 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~  136 (160)
                      ..+...+...+..+|++++|+|+.+....+.. ..+..+.   ..++|++++.||+|+.+..
T Consensus        84 ~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~---~~~~p~iv~iNK~D~~~~~  141 (691)
T PRK12739         84 VDFTIEVERSLRVLDGAVAVFDAVSGVEPQSE-TVWRQAD---KYGVPRIVFVNKMDRIGAD  141 (691)
T ss_pred             HHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHH-HHHHHHH---HcCCCEEEEEECCCCCCCC
Confidence            88777788889999999999999875332221 2222222   2468999999999997433

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.56  E-value=2.7e-14  Score=108.99  Aligned_cols=135  Identities=19%  Similarity=0.161  Sum_probs=98.1

Q ss_pred             CCCCCCCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc
Q 031411            2 AAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT   81 (160)
Q Consensus         2 ~~~~~~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~   81 (160)
                      ++|++.+..-.++..-|.++|.-..|||||+..|-+...........+-+.....++.... -.++|.|||||..|..|+
T Consensus       140 ~~~~a~p~~l~~RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p~G-~~iTFLDTPGHaAF~aMR  218 (683)
T KOG1145|consen  140 PQPEADPKLLEPRPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLPSG-KSITFLDTPGHAAFSAMR  218 (683)
T ss_pred             cCCccCHhhcCCCCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecCCC-CEEEEecCCcHHHHHHHH
Confidence            4566666666667788999999999999999999887655444444444444444444422 578999999999999999


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCCh
Q 031411           82 TAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPF  141 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~  141 (160)
                      ...-.-+|++++|+.+.|.-.    .+....+......++|++|..||+|.++...+...
T Consensus       219 aRGA~vtDIvVLVVAadDGVm----pQT~EaIkhAk~A~VpiVvAinKiDkp~a~pekv~  274 (683)
T KOG1145|consen  219 ARGANVTDIVVLVVAADDGVM----PQTLEAIKHAKSANVPIVVAINKIDKPGANPEKVK  274 (683)
T ss_pred             hccCccccEEEEEEEccCCcc----HhHHHHHHHHHhcCCCEEEEEeccCCCCCCHHHHH
Confidence            998899999999999987422    22223344444568999999999999855544333

>PRK00049 elongation factor Tu; Reviewed

Probab=99.56  E-value=8.8e-14  Score=105.74  Aligned_cols=118  Identities=19%  Similarity=0.157  Sum_probs=78.8

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCC----------------CCccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSF----------------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      .....++|+++|..++|||||+++|+....                ..+..+..+.+..  ...+.....++.+.||||+
T Consensus         8 ~~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~--~~~~~~~~~~i~~iDtPG~   85 (396)
T PRK00049          8 RTKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTA--HVEYETEKRHYAHVDCPGH   85 (396)
T ss_pred             CCCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeee--EEEEcCCCeEEEEEECCCH
Confidence            445679999999999999999999986211                1122333333333  3333333357899999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCC
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI-LVGNKADMDE  134 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~-vv~~K~Dl~~  134 (160)
                      .++.......+..+|++++++|+.+... ....+.+..+..   .++|.+ ++.||+|+.+
T Consensus        86 ~~f~~~~~~~~~~aD~~llVVDa~~g~~-~qt~~~~~~~~~---~g~p~iiVvvNK~D~~~  142 (396)
T PRK00049         86 ADYVKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFLNKCDMVD  142 (396)
T ss_pred             HHHHHHHHhhhccCCEEEEEEECCCCCc-hHHHHHHHHHHH---cCCCEEEEEEeecCCcc
Confidence            8776666667889999999999976422 222223333322   267876 5799999963

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.56  E-value=2.1e-13  Score=102.60  Aligned_cols=116  Identities=30%  Similarity=0.278  Sum_probs=83.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccc----------ccccc-
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----------FRTIT-   81 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----------~~~~~-   81 (160)
                      ..+||+++|.|++|||||+|+|++.... .+..+.++.+.-...+..+++  ++.+.||.|..+          |.... 
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~--~~~liDTAGiRrk~ki~e~~E~~Sv~rt  254 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGR--KYVLIDTAGIRRKGKITESVEKYSVART  254 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCe--EEEEEECCCCCcccccccceEEEeehhh
Confidence            5799999999999999999999986543 445556666677777788884  688999999432          22211 


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           82 TAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ...+..+|++++++|++.+-+-+.. +....+.   ..+.+++++.||.|+.+.
T Consensus       255 ~~aI~~a~vvllviDa~~~~~~qD~-~ia~~i~---~~g~~~vIvvNKWDl~~~  304 (444)
T COG1160         255 LKAIERADVVLLVIDATEGISEQDL-RIAGLIE---EAGRGIVIVVNKWDLVEE  304 (444)
T ss_pred             HhHHhhcCEEEEEEECCCCchHHHH-HHHHHHH---HcCCCeEEEEEccccCCc
Confidence            2346789999999999886554332 2222222   247799999999998643

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.56  E-value=1.6e-14  Score=98.44  Aligned_cols=115  Identities=22%  Similarity=0.358  Sum_probs=82.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhcc---CCcEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYR---GAMGIL   92 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~---~~~~~i   92 (160)
                      -.|+++|+.+||||+|+..|..+.+.....+   ++.+...+.....  ...++|.|||.+.......++.   .+-+++
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~TvtS---iepn~a~~r~gs~--~~~LVD~PGH~rlR~kl~e~~~~~~~akaiV  113 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHRGTVTS---IEPNEATYRLGSE--NVTLVDLPGHSRLRRKLLEYLKHNYSAKAIV  113 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCccCeeee---eccceeeEeecCc--ceEEEeCCCcHHHHHHHHHHccccccceeEE
Confidence            3799999999999999999998865544333   3344455555443  3789999999998887777777   789999


Q ss_pred             EEEECCC-hhhHHHHHHHHHHH-HHh--cCCCCcEEEEEeCCCCCCC
Q 031411           93 LVYDVTD-ESSFNNIRNWIRNI-EQH--ASDNVNKILVGNKADMDES  135 (160)
Q Consensus        93 ~v~d~~~-~~~~~~~~~~~~~~-~~~--~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ||+|+.- ......+.+++-.+ ...  ....+|+++++||.|+.-.
T Consensus       114 FVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tA  160 (238)
T KOG0090|consen  114 FVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTA  160 (238)
T ss_pred             EEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhc
Confidence            9999864 22233444444444 333  3567899999999998633

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.55  E-value=4.7e-14  Score=107.52  Aligned_cols=114  Identities=23%  Similarity=0.202  Sum_probs=73.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC---------------------------------CccccceeeeEEEEEEEECCE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT---------------------------------TSFITTIGIDFKIRTIELDGK   62 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~---------------------------------~~~~~~~~~~~~~~~~~~~~~   62 (160)
                      +||+++|..++|||||+++|+.....                                 ++.....+++.....+..++ 
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~-   79 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDK-   79 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCC-
Confidence            58999999999999999999732111                                 11112222333333444444 


Q ss_pred             EEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           63 RIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        63 ~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                       .++.++|+||+.+|.......+..+|++++|+|+.....-+....|.  +..... ..+++++.||+|+.+
T Consensus        80 -~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~--~~~~~~-~~~iivviNK~D~~~  147 (406)
T TIGR02034        80 -RKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHSY--IASLLG-IRHVVLAVNKMDLVD  147 (406)
T ss_pred             -eEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHHH--HHHHcC-CCcEEEEEEeccccc
Confidence             57899999999888665666788999999999997643211111111  111111 236889999999963

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.54  E-value=1.4e-13  Score=105.19  Aligned_cols=144  Identities=22%  Similarity=0.178  Sum_probs=104.6

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCC---------------CCccccceeeeEEEEEEEE-CCEEEEEEEecCCCcc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSF---------------TTSFITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQE   75 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~---------------~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~   75 (160)
                      .++.-++.++-.-..|||||..+|+....               ..+..+..++......+.+ ++..+.++++|||||.
T Consensus        57 ~~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGHv  136 (650)
T KOG0462|consen   57 VENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGHV  136 (650)
T ss_pred             hhhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCcc
Confidence            36678999999999999999999985221               1123444444333333333 4677899999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc--ce
Q 031411           76 RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTV--QV  153 (160)
Q Consensus        76 ~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~--~~  153 (160)
                      .|.......+.-|+++++++|++..-.-+.+...+    .....++.++.|.||+|++....+....++.++....  .+
T Consensus       137 DFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~----lAfe~~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~~~~  212 (650)
T KOG0462|consen  137 DFSGEVSRSLAACDGALLVVDASQGVQAQTVANFY----LAFEAGLAIIPVLNKIDLPSADPERVENQLFELFDIPPAEV  212 (650)
T ss_pred             cccceehehhhhcCceEEEEEcCcCchHHHHHHHH----HHHHcCCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCccce
Confidence            99998888999999999999998754444443333    3334488899999999998666666666666665543  57


Q ss_pred             EEEEee
Q 031411          154 HLVILK  159 (160)
Q Consensus       154 ~~~~~k  159 (160)
                      .++|||
T Consensus       213 i~vSAK  218 (650)
T KOG0462|consen  213 IYVSAK  218 (650)
T ss_pred             EEEEec
Confidence            888887

>PLN03127 Elongation factor Tu; Provisional

Probab=99.54  E-value=1.4e-13  Score=105.79  Aligned_cols=118  Identities=17%  Similarity=0.115  Sum_probs=77.4

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcC----------------CCCCccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDG----------------SFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      .....++|+++|..++|||||+++|.+.                ...++..+..+++..  ...+.....++.+.|+||+
T Consensus        57 ~~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~--~~~~~~~~~~i~~iDtPGh  134 (447)
T PLN03127         57 RTKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATA--HVEYETAKRHYAHVDCPGH  134 (447)
T ss_pred             cCCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeee--EEEEcCCCeEEEEEECCCc
Confidence            3456799999999999999999999621                111223344444443  3334333457899999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCC
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDE  134 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~  134 (160)
                      .+|-......+..+|++++|+|+.+...- ...+.+..+..   .++| ++++.||+|+.+
T Consensus       135 ~~f~~~~~~g~~~aD~allVVda~~g~~~-qt~e~l~~~~~---~gip~iIvviNKiDlv~  191 (447)
T PLN03127        135 ADYVKNMITGAAQMDGGILVVSAPDGPMP-QTKEHILLARQ---VGVPSLVVFLNKVDVVD  191 (447)
T ss_pred             cchHHHHHHHHhhCCEEEEEEECCCCCch-hHHHHHHHHHH---cCCCeEEEEEEeeccCC
Confidence            87766555566789999999999764221 11222222222   3678 567899999963

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.54  E-value=8.2e-14  Score=100.68  Aligned_cols=149  Identities=14%  Similarity=0.267  Sum_probs=105.7

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECC--EEEEEEEecCCCcccccccchhhcc
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG--KRIKLQIWDTAGQERFRTITTAYYR   86 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~D~~g~~~~~~~~~~~~~   86 (160)
                      +..-+..-+|+++|+.++||||||.+|.+...   .....++++....+..+.  ...++.+|=+.|...+..+....+.
T Consensus        46 ~sklpsgk~VlvlGdn~sGKtsLi~klqg~e~---~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~  122 (473)
T KOG3905|consen   46 RSKLPSGKNVLVLGDNGSGKTSLISKLQGSET---VKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALP  122 (473)
T ss_pred             cccCCCCCeEEEEccCCCchhHHHHHhhcccc---cCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhccc
Confidence            33444556999999999999999999998762   233344555555544432  3468899999998777766655554


Q ss_pred             CC----cEEEEEEECCCh-hhHHHHHHHHHHHHHhcCC------------------------------------------
Q 031411           87 GA----MGILLVYDVTDE-SSFNNIRNWIRNIEQHASD------------------------------------------  119 (160)
Q Consensus        87 ~~----~~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~------------------------------------------  119 (160)
                      ..    -++|++.|+++| .-++.+.+|...+.++..+                                          
T Consensus       123 ats~aetlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~  202 (473)
T KOG3905|consen  123 ATSLAETLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGS  202 (473)
T ss_pred             ccCccceEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccC
Confidence            43    378889999998 5678888888776554321                                          


Q ss_pred             -------------------CCcEEEEEeCCCCC---C---Cc----cCCChhHHHHHhhhcceEEEEeeC
Q 031411          120 -------------------NVNKILVGNKADMD---E---SK----REAPFCLHETILLTVQVHLVILKV  160 (160)
Q Consensus       120 -------------------~~pi~vv~~K~Dl~---~---~~----~~~~~~~~~~~~~~~~~~~~~~k~  160 (160)
                                         ++|++||+||+|..   +   .+    -+.....+++||.++|+..++..|
T Consensus       203 ~~de~~llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSv  272 (473)
T KOG3905|consen  203 SADEHVLLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSV  272 (473)
T ss_pred             ccccccccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeec
Confidence                               78999999999961   1   12    224445678999999988877654

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

Probab=99.54  E-value=5.5e-14  Score=112.54  Aligned_cols=118  Identities=20%  Similarity=0.137  Sum_probs=74.6

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCc---------------------------------cccceeeeEEEEEEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTS---------------------------------FITTIGIDFKIRTIE   58 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~---------------------------------~~~~~~~~~~~~~~~   58 (160)
                      .+..++|+++|.+++|||||+++|+.......                                 .....+++.....+.
T Consensus        21 ~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~  100 (632)
T PRK05506         21 RKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFA  100 (632)
T ss_pred             CCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEc
Confidence            34558999999999999999999985321100                                 011112222223333


Q ss_pred             ECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           59 LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        59 ~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .++  .++.|+||||++.+.......+..+|++++|+|+.....-+. .+.+..+... . ..+++|+.||+|+.+
T Consensus       101 ~~~--~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t-~e~~~~~~~~-~-~~~iivvvNK~D~~~  171 (632)
T PRK05506        101 TPK--RKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQT-RRHSFIASLL-G-IRHVVLAVNKMDLVD  171 (632)
T ss_pred             cCC--ceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccC-HHHHHHHHHh-C-CCeEEEEEEeccccc
Confidence            333  478899999998876555567889999999999975422111 1111112211 1 247889999999963

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.53  E-value=2.3e-13  Score=94.23  Aligned_cols=114  Identities=18%  Similarity=0.207  Sum_probs=70.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCcc--ccceeeeEEEEEEEECCEEEEEEEecCCCcccccc--------c---ch
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSF--ITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT--------I---TT   82 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~--------~---~~   82 (160)
                      ++|+++|.+|+|||||+|.|++.......  .+..+..........++  .++.++||||-.....        +   ..
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~--~~i~viDTPG~~d~~~~~~~~~~~i~~~~~   78 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDG--RRVNVIDTPGLFDTSVSPEQLSKEIVRCLS   78 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECC--eEEEEEECcCCCCccCChHHHHHHHHHHHH
Confidence            47999999999999999999986543222  11222333333444555  4789999999443211        1   11


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCC--CCcEEEEEeCCCCC
Q 031411           83 AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD--NVNKILVGNKADMD  133 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~--~~pi~vv~~K~Dl~  133 (160)
                      ....+.|++++|+++.+. + +.-...+..+.+.+..  -.+++++.|+.|..
T Consensus        79 ~~~~g~~~illVi~~~~~-t-~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l  129 (196)
T cd01852          79 LSAPGPHAFLLVVPLGRF-T-EEEEQAVETLQELFGEKVLDHTIVLFTRGDDL  129 (196)
T ss_pred             hcCCCCEEEEEEEECCCc-C-HHHHHHHHHHHHHhChHhHhcEEEEEECcccc
Confidence            124678999999998762 2 1222333444433321  13788999999964

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).

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

Probab=99.53  E-value=2.3e-13  Score=106.52  Aligned_cols=132  Identities=17%  Similarity=0.183  Sum_probs=92.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc------cchhhc--c
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT------ITTAYY--R   86 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~------~~~~~~--~   86 (160)
                      ..+++++|+||+|||||+|++++........+..+.+.....+...++  ++.+.|+||-.....      ..+.++  .
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~--~i~ivDLPG~YSL~~~S~DE~Var~~ll~~   80 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGH--EIEIVDLPGTYSLTAYSEDEKVARDFLLEG   80 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCc--eEEEEeCCCcCCCCCCCchHHHHHHHHhcC
Confidence            357999999999999999999998877777888888877777777774  589999999543322      223333  3


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +.|+++.++|+++.+.--.+.      .+..+-+.|.+++.|+.|..++..  ...+.+++.+..|++.+
T Consensus        81 ~~D~ivnVvDAtnLeRnLylt------lQLlE~g~p~ilaLNm~D~A~~~G--i~ID~~~L~~~LGvPVv  142 (653)
T COG0370          81 KPDLIVNVVDATNLERNLYLT------LQLLELGIPMILALNMIDEAKKRG--IRIDIEKLSKLLGVPVV  142 (653)
T ss_pred             CCCEEEEEcccchHHHHHHHH------HHHHHcCCCeEEEeccHhhHHhcC--CcccHHHHHHHhCCCEE
Confidence            579999999998755432222      222223889999999999853322  22335566666665443

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.53  E-value=2.4e-13  Score=104.61  Aligned_cols=117  Identities=21%  Similarity=0.147  Sum_probs=77.1

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCC--C-----------------------------CCccccceeeeEEEEEEEEC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGS--F-----------------------------TTSFITTIGIDFKIRTIELD   60 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~   60 (160)
                      ....++|+++|..++|||||+.+|+...  .                             .++.....+++.....+..+
T Consensus         4 ~k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~   83 (446)
T PTZ00141          4 EKTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETP   83 (446)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccC
Confidence            3556899999999999999999887511  0                             11122333333333333333


Q ss_pred             CEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChh---hH---HHHHHHHHHHHHhcCCCCc-EEEEEeCCCCC
Q 031411           61 GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDES---SF---NNIRNWIRNIEQHASDNVN-KILVGNKADMD  133 (160)
Q Consensus        61 ~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~---~~---~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~  133 (160)
                        ...+.++|+|||.+|.......+..+|++++|+|+....   .+   ....+-+..+.   ..++| ++++.||+|..
T Consensus        84 --~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~---~~gi~~iiv~vNKmD~~  158 (446)
T PTZ00141         84 --KYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAF---TLGVKQMIVCINKMDDK  158 (446)
T ss_pred             --CeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHH---HcCCCeEEEEEEccccc
Confidence              468999999999998877778889999999999997632   11   11111111122   12555 67899999954

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.52  E-value=1.9e-13  Score=97.98  Aligned_cols=124  Identities=20%  Similarity=0.193  Sum_probs=77.8

Q ss_pred             CCCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCc------ccc--
Q 031411            6 ARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ------ERF--   77 (160)
Q Consensus         6 ~~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~------~~~--   77 (160)
                      +|...+..+.++|+++|.||+|||||.|.+.+.+.........+.......+-.. ...++.|+||||-      .++  
T Consensus        63 srde~e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts-~eTQlvf~DTPGlvs~~~~r~~~l  141 (379)
T KOG1423|consen   63 SRDEEEAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITS-GETQLVFYDTPGLVSKKMHRRHHL  141 (379)
T ss_pred             CCCchhcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEec-CceEEEEecCCcccccchhhhHHH
Confidence            3444566788999999999999999999999977654333322222222222222 2379999999992      111  


Q ss_pred             ----cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           78 ----RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        78 ----~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                          .+-....+..+|++++++|+++.... --.+.+..+..+  .++|-+++.||.|..
T Consensus       142 ~~s~lq~~~~a~q~AD~vvVv~Das~tr~~-l~p~vl~~l~~y--s~ips~lvmnkid~~  198 (379)
T KOG1423|consen  142 MMSVLQNPRDAAQNADCVVVVVDASATRTP-LHPRVLHMLEEY--SKIPSILVMNKIDKL  198 (379)
T ss_pred             HHHhhhCHHHHHhhCCEEEEEEeccCCcCc-cChHHHHHHHHH--hcCCceeeccchhcc
Confidence                11123457789999999999852211 001122233222  267889999999954

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.51  E-value=6.7e-13  Score=95.89  Aligned_cols=99  Identities=20%  Similarity=0.188  Sum_probs=72.5

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc-------cccchhh
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF-------RTITTAY   84 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~-------~~~~~~~   84 (160)
                      .....+++++|.|++|||||++.|++..-.....+.++......-+.++|  .++++.|+||.-.-       ....-+.
T Consensus        60 KsGda~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y~g--a~IQild~Pgii~gas~g~grG~~vlsv  137 (365)
T COG1163          60 KSGDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKG--AQIQLLDLPGIIEGASSGRGRGRQVLSV  137 (365)
T ss_pred             ccCCeEEEEEcCCCccHHHHHHHHhCCCccccccCceecccccceEeecC--ceEEEEcCcccccCcccCCCCcceeeee
Confidence            34457999999999999999999999776655555555666666777777  78999999983211       1234566


Q ss_pred             ccCCcEEEEEEECCChhh-HHHHHHHHHH
Q 031411           85 YRGAMGILLVYDVTDESS-FNNIRNWIRN  112 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~-~~~~~~~~~~  112 (160)
                      .+.||++++|+|...... .+.+.+.+..
T Consensus       138 ~R~ADlIiiVld~~~~~~~~~~i~~ELe~  166 (365)
T COG1163         138 ARNADLIIIVLDVFEDPHHRDIIERELED  166 (365)
T ss_pred             eccCCEEEEEEecCCChhHHHHHHHHHHh
Confidence            789999999999986554 5555444443

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

Probab=99.51  E-value=8.3e-13  Score=96.14  Aligned_cols=122  Identities=19%  Similarity=0.173  Sum_probs=71.7

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc-------
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT-------   81 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~-------   81 (160)
                      ......++|+++|.+|+||||++|+|++.... .+...+.+..........++  .++.+|||||........       
T Consensus        33 ~~~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G--~~l~VIDTPGL~d~~~~~e~~~~~i  110 (313)
T TIGR00991        33 EEDVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRAG--FTLNIIDTPGLIEGGYINDQAVNII  110 (313)
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEECC--eEEEEEECCCCCchHHHHHHHHHHH
Confidence            34456799999999999999999999986532 11222222222223333454  679999999965332111       


Q ss_pred             hhhc--cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCC--CCcEEEEEeCCCCC
Q 031411           82 TAYY--RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD--NVNKILVGNKADMD  133 (160)
Q Consensus        82 ~~~~--~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~--~~pi~vv~~K~Dl~  133 (160)
                      ..++  ...|++++|.+.+.....+.-...+..+...+..  -.+.+|+.|+.|..
T Consensus       111 k~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~  166 (313)
T TIGR00991       111 KRFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFS  166 (313)
T ss_pred             HHHhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccC
Confidence            1111  2589999996654321111112233334333322  13789999999975

>PRK00007 elongation factor G; Reviewed

Probab=99.51  E-value=3.8e-13  Score=108.64  Aligned_cols=117  Identities=19%  Similarity=0.145  Sum_probs=80.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc--CCC----------------CCccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD--GSF----------------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~--~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      +...+|+++|..++|||||+++|+.  +..                ..+..+..+++.....+.+++  .++++.||||+
T Consensus         8 ~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~--~~~~liDTPG~   85 (693)
T PRK00007          8 ERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKD--HRINIIDTPGH   85 (693)
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECC--eEEEEEeCCCc
Confidence            4467999999999999999999973  110                011233344444445555555  68999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ..+.......+..+|++++|+|+......+... .+..+..   .++|.+++.||+|+.+.
T Consensus        86 ~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~-~~~~~~~---~~~p~iv~vNK~D~~~~  142 (693)
T PRK00007         86 VDFTIEVERSLRVLDGAVAVFDAVGGVEPQSET-VWRQADK---YKVPRIAFVNKMDRTGA  142 (693)
T ss_pred             HHHHHHHHHHHHHcCEEEEEEECCCCcchhhHH-HHHHHHH---cCCCEEEEEECCCCCCC
Confidence            877666677788999999999987653333322 2222222   36799999999999743

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.51  E-value=2.6e-13  Score=100.04  Aligned_cols=82  Identities=20%  Similarity=0.256  Sum_probs=55.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEE---------------------ECC-EEEEEEEecCCCc-
Q 031411           18 LLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIE---------------------LDG-KRIKLQIWDTAGQ-   74 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~---------------------~~~-~~~~~~~~D~~g~-   74 (160)
                      |+++|.+++|||||++++++........+..+++.......                     .++ ..+.+++||++|. 
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv   80 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLV   80 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCC
Confidence            57999999999999999998765422222232222222111                     122 3368999999997 


Q ss_pred             ---ccccccchh---hccCCcEEEEEEECCC
Q 031411           75 ---ERFRTITTA---YYRGAMGILLVYDVTD   99 (160)
Q Consensus        75 ---~~~~~~~~~---~~~~~~~~i~v~d~~~   99 (160)
                         .+...+...   .++++|++++|+|++.
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~  111 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDASG  111 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCCC
Confidence               344444444   4889999999999973

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.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.50  E-value=1.6e-13  Score=99.65  Aligned_cols=117  Identities=18%  Similarity=0.166  Sum_probs=83.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc----cccc---chhhccCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----FRTI---TTAYYRGA   88 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----~~~~---~~~~~~~~   88 (160)
                      ..|.++|.|++|||||++.+++.+......+.+++.++.-.+...+ .-.|++-|.||.=+    -..+   .-..++++
T Consensus       160 ADVGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~~~-~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt  238 (369)
T COG0536         160 ADVGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVDG-GESFVVADIPGLIEGASEGVGLGLRFLRHIERT  238 (369)
T ss_pred             cccccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEecC-CCcEEEecCcccccccccCCCccHHHHHHHHhh
Confidence            3467999999999999999998776655555566666555555532 24799999999311    1111   22346789


Q ss_pred             cEEEEEEECCChh---hHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCC
Q 031411           89 MGILLVYDVTDES---SFNNIRNWIRNIEQHAS--DNVNKILVGNKADMD  133 (160)
Q Consensus        89 ~~~i~v~d~~~~~---~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~  133 (160)
                      .++++++|++..+   ..+.......++..+.+  .+.|.+|++||+|+.
T Consensus       239 ~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~  288 (369)
T COG0536         239 RVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLP  288 (369)
T ss_pred             heeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCC
Confidence            9999999998644   36666666677766543  477999999999975

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

Probab=99.49  E-value=2.1e-12  Score=92.36  Aligned_cols=122  Identities=20%  Similarity=0.232  Sum_probs=72.1

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCc-cccceeeeEEEEEEEECCEEEEEEEecCCCccccc--c-c-----
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTS-FITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR--T-I-----   80 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~--~-~-----   80 (160)
                      ......++|+|+|.+|+|||||+|.|++...... .....+..........++  ..+.+|||||-....  . .     
T Consensus        26 ~~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g--~~i~vIDTPGl~~~~~~~~~~~~~~  103 (249)
T cd01853          26 EELDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDG--FKLNIIDTPGLLESVMDQRVNRKIL  103 (249)
T ss_pred             hhccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCcCcchhhHHHHHHHH
Confidence            4556679999999999999999999998654321 121222223333344455  578999999954331  0 0     


Q ss_pred             --chhhcc--CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCC--CcEEEEEeCCCCC
Q 031411           81 --TTAYYR--GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN--VNKILVGNKADMD  133 (160)
Q Consensus        81 --~~~~~~--~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~--~pi~vv~~K~Dl~  133 (160)
                        ...++.  ..|+++++..++....-..-...++.+......+  .+++++.||+|..
T Consensus       104 ~~I~~~l~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~  162 (249)
T cd01853         104 SSIKRYLKKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASS  162 (249)
T ss_pred             HHHHHHHhccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccC
Confidence              112232  5788888776654211111123333443332222  3799999999974

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.

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.49  E-value=6.1e-13  Score=100.33  Aligned_cols=145  Identities=23%  Similarity=0.225  Sum_probs=106.5

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCC---------------CCCccccceeeeEEEEEEEE---CCEEEEEEEecCC
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGS---------------FTTSFITTIGIDFKIRTIEL---DGKRIKLQIWDTA   72 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~---------------~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~D~~   72 (160)
                      +.++.-++.++..-..|||||..||+...               ..-+..+..++......+.+   +|..+.+.++|||
T Consensus         5 ~~~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTP   84 (603)
T COG0481           5 PQKNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTP   84 (603)
T ss_pred             chhhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCC
Confidence            34456689999999999999999997521               12224455555444444444   4578999999999


Q ss_pred             CcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhh--h
Q 031411           73 GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILL--T  150 (160)
Q Consensus        73 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~--~  150 (160)
                      ||..|.......+..|.++++++|+++.-.-+.+...+..+.    .++-|+-|.||.||+..+.+...++++....  .
T Consensus        85 GHVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle----~~LeIiPViNKIDLP~Adpervk~eIe~~iGid~  160 (603)
T COG0481          85 GHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE----NNLEIIPVLNKIDLPAADPERVKQEIEDIIGIDA  160 (603)
T ss_pred             CccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHH----cCcEEEEeeecccCCCCCHHHHHHHHHHHhCCCc
Confidence            999999888888999999999999998755555554444444    4788999999999997776666666666543  2


Q ss_pred             cceEEEEee
Q 031411          151 VQVHLVILK  159 (160)
Q Consensus       151 ~~~~~~~~k  159 (160)
                      -++..+|||
T Consensus       161 ~dav~~SAK  169 (603)
T COG0481         161 SDAVLVSAK  169 (603)
T ss_pred             chheeEecc
Confidence            356777776

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

Probab=99.48  E-value=6.3e-13  Score=85.03  Aligned_cols=105  Identities=24%  Similarity=0.260  Sum_probs=77.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccc-cceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFI-TTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      +|++++|..|+|||+|+.++....+...+. ++.+                           +..+.....+.++.+++|
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v   53 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQC   53 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEE
Confidence            489999999999999999998777653332 2221                           222334456788999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhh
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLT  150 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~  150 (160)
                      ++.....+++.+  |...+......++|+++++||.|+.+.. ....++...++..
T Consensus        54 ~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~-~~~~~~~~~~~~~  106 (124)
T smart00010       54 WRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEER-QVATEEGLEFAET  106 (124)
T ss_pred             EEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhC-cCCHHHHHHHHHH
Confidence            999999998776  8877766556678999999999985333 5555666666654

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.

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.48  E-value=6.7e-13  Score=93.62  Aligned_cols=111  Identities=21%  Similarity=0.232  Sum_probs=70.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccc-----------------------eeeeEE---------------EEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITT-----------------------IGIDFK---------------IRTIE   58 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~-----------------------~~~~~~---------------~~~~~   58 (160)
                      ||+++|+.++|||||++++..+.+.......                       .+++..               ...+.
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            5899999999999999999976554321100                       000000               01111


Q ss_pred             ECCEEEEEEEecCCCcccccccchhhcc--CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           59 LDGKRIKLQIWDTAGQERFRTITTAYYR--GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        59 ~~~~~~~~~~~D~~g~~~~~~~~~~~~~--~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .++  ..+.+.|+||+.++.......+.  .+|++++|+|+..... +...+++..+..   .++|++++.||+|+.
T Consensus        81 ~~~--~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~-~~d~~~l~~l~~---~~ip~ivvvNK~D~~  151 (224)
T cd04165          81 KSS--KLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGII-GMTKEHLGLALA---LNIPVFVVVTKIDLA  151 (224)
T ss_pred             eCC--cEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEECcccc
Confidence            222  47899999999887654444443  6899999999876432 222223333322   368999999999985

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

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.47  E-value=4.6e-13  Score=102.25  Aligned_cols=115  Identities=20%  Similarity=0.211  Sum_probs=89.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECC-EEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG-KRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .=|.++|.-..|||||+..+-............+-+.....+..+. ..-.++|.|||||+.|..++.....-+|+++++
T Consensus         6 PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaILV   85 (509)
T COG0532           6 PVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAILV   85 (509)
T ss_pred             CEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEEEE
Confidence            4689999999999999999998776655556666566666666652 224789999999999999999988999999999


Q ss_pred             EECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcc
Q 031411           95 YDVTD---ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR  137 (160)
Q Consensus        95 ~d~~~---~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~  137 (160)
                      +++.+   |.+.+.       +......++|++|..||+|.++...
T Consensus        86 Va~dDGv~pQTiEA-------I~hak~a~vP~iVAiNKiDk~~~np  124 (509)
T COG0532          86 VAADDGVMPQTIEA-------INHAKAAGVPIVVAINKIDKPEANP  124 (509)
T ss_pred             EEccCCcchhHHHH-------HHHHHHCCCCEEEEEecccCCCCCH
Confidence            99987   333333       3333345899999999999984443

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

Probab=99.47  E-value=3.2e-13  Score=87.88  Aligned_cols=114  Identities=25%  Similarity=0.266  Sum_probs=75.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc----ccccchhhccCCcEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----FRTITTAYYRGAMGI   91 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----~~~~~~~~~~~~~~~   91 (160)
                      -||+++|+.++|||||+++|.+....  +..|..+.       +.+     .++||||..-    +..-......++|++
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~~~--~~KTq~i~-------~~~-----~~IDTPGEyiE~~~~y~aLi~ta~dad~V   67 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEEIR--YKKTQAIE-------YYD-----NTIDTPGEYIENPRFYHALIVTAQDADVV   67 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCCCC--cCccceeE-------ecc-----cEEECChhheeCHHHHHHHHHHHhhCCEE
Confidence            38999999999999999999986642  22222222       222     3589999532    222222334589999


Q ss_pred             EEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce
Q 031411           92 LLVYDVTDESS-FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV  153 (160)
Q Consensus        92 i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~  153 (160)
                      +++.|++++.+ |..      .+...  .+.|++=|.||+|+..  .+...+.++++.+..|+
T Consensus        68 ~ll~dat~~~~~~pP------~fa~~--f~~pvIGVITK~Dl~~--~~~~i~~a~~~L~~aG~  120 (143)
T PF10662_consen   68 LLLQDATEPRSVFPP------GFASM--FNKPVIGVITKIDLPS--DDANIERAKKWLKNAGV  120 (143)
T ss_pred             EEEecCCCCCccCCc------hhhcc--cCCCEEEEEECccCcc--chhhHHHHHHHHHHcCC
Confidence            99999998644 221      12222  2569999999999963  24466677777776665

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

>PRK12740 elongation factor G; Reviewed

Probab=99.46  E-value=6.3e-13  Score=107.20  Aligned_cols=109  Identities=25%  Similarity=0.246  Sum_probs=76.2

Q ss_pred             EcCCCCCHHHHHHHHhcCCCC------------------CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccch
Q 031411           21 IGDSGVGKSCLLLRFSDGSFT------------------TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITT   82 (160)
Q Consensus        21 ~G~~~~GKstli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~   82 (160)
                      +|..++|||||+++|+...-.                  .+..+..++......+.+++  +.+.+|||||+..+...+.
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~--~~i~liDtPG~~~~~~~~~   78 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKG--HKINLIDTPGHVDFTGEVE   78 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECC--EEEEEEECCCcHHHHHHHH
Confidence            699999999999999532110                  11123333344444555555  6899999999988777778


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           83 AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ..+..+|++++++|++..........| ..+..   .++|+++++||+|+...
T Consensus        79 ~~l~~aD~vllvvd~~~~~~~~~~~~~-~~~~~---~~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         79 RALRVLDGAVVVVCAVGGVEPQTETVW-RQAEK---YGVPRIIFVNKMDRAGA  127 (668)
T ss_pred             HHHHHhCeEEEEEeCCCCcCHHHHHHH-HHHHH---cCCCEEEEEECCCCCCC
Confidence            889999999999999876554433222 22222   37899999999998743

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.44  E-value=1.2e-12  Score=107.57  Aligned_cols=119  Identities=19%  Similarity=0.182  Sum_probs=81.0

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCC----------------CCccccceeeeEEEEEEEE--------------C
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSF----------------TTSFITTIGIDFKIRTIEL--------------D   60 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~--------------~   60 (160)
                      ..+...+|+++|..++|||||+++|+....                ..+.....++......+.+              +
T Consensus        15 ~~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~   94 (843)
T PLN00116         15 KKHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERD   94 (843)
T ss_pred             CccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccC
Confidence            445667999999999999999999974321                1111122222222222222              1


Q ss_pred             CEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           61 GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        61 ~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +..+.++++|||||..|.......+..+|++++|+|+...-......-|-. +   ...++|++++.||+|+.
T Consensus        95 ~~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~-~---~~~~~p~i~~iNK~D~~  163 (843)
T PLN00116         95 GNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQ-A---LGERIRPVLTVNKMDRC  163 (843)
T ss_pred             CCceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHH-H---HHCCCCEEEEEECCccc
Confidence            235678999999999998878888999999999999987544333222322 2   22478999999999985

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

Probab=99.43  E-value=1.7e-12  Score=94.24  Aligned_cols=116  Identities=21%  Similarity=0.316  Sum_probs=68.5

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCc----------cccceeeeEEEEEEEECCEEEEEEEecCCCcc--------
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTS----------FITTIGIDFKIRTIELDGKRIKLQIWDTAGQE--------   75 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~--------   75 (160)
                      ..++|+|+|.+|+|||||||.|.+......          ...+..+......+.-++..+.+.++||||-.        
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~   82 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDC   82 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhh
Confidence            368999999999999999999998544322          12233344444556667888999999999910        


Q ss_pred             ----------ccccc-------chhhc--cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           76 ----------RFRTI-------TTAYY--RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        76 ----------~~~~~-------~~~~~--~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                                ++...       .+..+  .+.|++++.++.+...--+.-.+.++.+.    ..++++-|..|+|.-
T Consensus        83 ~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di~~mk~Ls----~~vNvIPvIaKaD~l  155 (281)
T PF00735_consen   83 WEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDIEFMKRLS----KRVNVIPVIAKADTL  155 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHHHHHHHHT----TTSEEEEEESTGGGS
T ss_pred             hHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHHHHHHHhc----ccccEEeEEeccccc
Confidence                      00000       00111  25788998888764211111112333333    267899999999964

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.

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.43  E-value=1.1e-12  Score=106.56  Aligned_cols=120  Identities=20%  Similarity=0.181  Sum_probs=79.0

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCC----------------CccccceeeeEEEEEE--EECCEEEEEEEecCCC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFT----------------TSFITTIGIDFKIRTI--ELDGKRIKLQIWDTAG   73 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~----------------~~~~~~~~~~~~~~~~--~~~~~~~~~~~~D~~g   73 (160)
                      .++..+|+++|..++|||||+++|+.....                .+.....++......+  ..++..+.++++||||
T Consensus        17 ~~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG   96 (731)
T PRK07560         17 PEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPG   96 (731)
T ss_pred             hhcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCC
Confidence            345668999999999999999999742211                0011111122221222  2344457899999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           74 QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      +..+.......+..+|++++|+|+......+...-|... ..   .+.|.+++.||+|+...
T Consensus        97 ~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~-~~---~~~~~iv~iNK~D~~~~  154 (731)
T PRK07560         97 HVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQA-LR---ERVKPVLFINKVDRLIK  154 (731)
T ss_pred             ccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHH-HH---cCCCeEEEEECchhhcc
Confidence            998887788889999999999998765333222223222 22   25678899999998533

>PTZ00416 elongation factor 2; Provisional

Probab=99.43  E-value=1.8e-12  Score=106.45  Aligned_cols=118  Identities=19%  Similarity=0.185  Sum_probs=78.9

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCC----------------CccccceeeeEEEEEEEEC--------CEEEEEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFT----------------TSFITTIGIDFKIRTIELD--------GKRIKLQ   67 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~----------------~~~~~~~~~~~~~~~~~~~--------~~~~~~~   67 (160)
                      .+...+|+++|..++|||||+++|+.....                .+.....++......+.+.        ++.+.+.
T Consensus        16 ~~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~   95 (836)
T PTZ00416         16 PDQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLIN   95 (836)
T ss_pred             ccCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEE
Confidence            345569999999999999999999852110                1111122222222222332        2246799


Q ss_pred             EecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           68 IWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        68 ~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.||||+..+.......+..+|++++|+|+.+.-..... ..+..+.   ..++|++++.||+|+.
T Consensus        96 liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~-~~~~~~~---~~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         96 LIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTE-TVLRQAL---QERIRPVLFINKVDRA  157 (836)
T ss_pred             EEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHH-HHHHHHH---HcCCCEEEEEEChhhh
Confidence            999999998877778889999999999999875332222 2222232   2368999999999985

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

Probab=99.40  E-value=9.7e-12  Score=95.76  Aligned_cols=140  Identities=18%  Similarity=0.243  Sum_probs=100.6

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .+.....+++.++|+.++|||.|++.++++.+......+....+....+...+..-.+.+-|.+-. .... ....-..+
T Consensus       419 ~~~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~-l~~ke~~c  496 (625)
T KOG1707|consen  419 KQTDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDF-LTSKEAAC  496 (625)
T ss_pred             ccccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-cccc-ccCcccee
Confidence            456667899999999999999999999998777655555554555555666666666777777654 2222 22222789


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV  153 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~  153 (160)
                      |+++++||.+++.+|+-+...+..-...  ...|++++++|+|+.+...+..... .++|.++++
T Consensus       497 Dv~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqp-de~~~~~~i  558 (625)
T KOG1707|consen  497 DVACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQP-DEFCRQLGL  558 (625)
T ss_pred             eeEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCCh-HHHHHhcCC
Confidence            9999999999999998776555433222  4789999999999975554444444 778877764

>cd00066 G-alpha G protein alpha subunit

Probab=99.39  E-value=4.6e-12  Score=93.72  Aligned_cols=70  Identities=21%  Similarity=0.316  Sum_probs=55.5

Q ss_pred             EEEEEEecCCCcccccccchhhccCCcEEEEEEECCCh----------hhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCC
Q 031411           63 RIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDE----------SSFNNIRNWIRNIEQHAS-DNVNKILVGNKAD  131 (160)
Q Consensus        63 ~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~----------~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~D  131 (160)
                      .+.+.+||++|+......|..++.+++++++|+|.++.          ..++.....+..+..... .+.|+++++||.|
T Consensus       160 ~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D  239 (317)
T cd00066         160 NLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKD  239 (317)
T ss_pred             ceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChH
Confidence            36889999999999999999999999999999999874          344444445555544322 5789999999999


Q ss_pred             C
Q 031411          132 M  132 (160)
Q Consensus       132 l  132 (160)
                      +
T Consensus       240 ~  240 (317)
T cd00066         240 L  240 (317)
T ss_pred             H
Confidence            5

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.

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.39  E-value=7.4e-12  Score=96.36  Aligned_cols=98  Identities=14%  Similarity=0.367  Sum_probs=68.7

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC--CEEEEEEEecCCCcccccccchhhccC---
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD--GKRIKLQIWDTAGQERFRTITTAYYRG---   87 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~D~~g~~~~~~~~~~~~~~---   87 (160)
                      ...-+|+|+|..++|||||+.+|.+..   .+..+.+++|....+..+  +...++.+|.+.|...+..+..-.+..   
T Consensus        23 ~~~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l   99 (472)
T PF05783_consen   23 PSEKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENL   99 (472)
T ss_pred             CCCceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccc
Confidence            344699999999999999999998754   344566677766655443  234578999998876666655444432   


Q ss_pred             -CcEEEEEEECCChhhH-HHHHHHHHHH
Q 031411           88 -AMGILLVYDVTDESSF-NNIRNWIRNI  113 (160)
Q Consensus        88 -~~~~i~v~d~~~~~~~-~~~~~~~~~~  113 (160)
                       --++++|+|.+.|..+ +.+.+|+..+
T Consensus       100 ~~t~vvIvlDlS~PW~~~esL~~W~~vl  127 (472)
T PF05783_consen  100 PNTLVVIVLDLSKPWNIMESLEKWLSVL  127 (472)
T ss_pred             cceEEEEEecCCChHHHHHHHHHHHHHH
Confidence             3478899999998654 5666665554

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 [].

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.39  E-value=2e-12  Score=97.89  Aligned_cols=121  Identities=25%  Similarity=0.250  Sum_probs=84.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccc-cccc--------chhh
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER-FRTI--------TTAY   84 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~-~~~~--------~~~~   84 (160)
                      -++|+++|+||+|||||+|.|.+.... .+..+.++.+.--..++++|  +.+.+.||.|-.+ -...        ....
T Consensus       268 gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G--~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~  345 (531)
T KOG1191|consen  268 GLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNG--VPVRLSDTAGIREESNDGIEALGIERARKR  345 (531)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCC--eEEEEEeccccccccCChhHHHhHHHHHHH
Confidence            389999999999999999999986654 55566666666666777888  7899999999654 1111        2345


Q ss_pred             ccCCcEEEEEEEC--CChhhHHHHHHHHHHHHHh------cCCCCcEEEEEeCCCCCCCcc
Q 031411           85 YRGAMGILLVYDV--TDESSFNNIRNWIRNIEQH------ASDNVNKILVGNKADMDESKR  137 (160)
Q Consensus        85 ~~~~~~~i~v~d~--~~~~~~~~~~~~~~~~~~~------~~~~~pi~vv~~K~Dl~~~~~  137 (160)
                      +..+|++++++|+  ++-++-..+.+.+.....-      .....|++++.||+|+..+..
T Consensus       346 ~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~  406 (531)
T KOG1191|consen  346 IERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIP  406 (531)
T ss_pred             HhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccc
Confidence            6789999999999  3333333434444444221      123468999999999865533

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.38  E-value=4.9e-12  Score=94.11  Aligned_cols=130  Identities=18%  Similarity=0.140  Sum_probs=83.9

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCC-------------------------------CCccccceeeeEEEEEEEE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSF-------------------------------TTSFITTIGIDFKIRTIEL   59 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~   59 (160)
                      ..+.+++++++|+.++|||||+-+|+...-                               .++.....  ........+
T Consensus         3 ~~Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGv--Ti~~~~~~f   80 (428)
T COG5256           3 SEKPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGV--TIDVAHSKF   80 (428)
T ss_pred             CCCCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcce--EEEEEEEEe
Confidence            345679999999999999999999874211                               11122222  233334444


Q ss_pred             CCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChh---hHHHHHHHHH--HHHHhcCCCCcEEEEEeCCCCCC
Q 031411           60 DGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDES---SFNNIRNWIR--NIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        60 ~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~---~~~~~~~~~~--~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ....+.|++.|+|||..|-.........+|+.|+|+|+.+.+   .|..-.+...  -+.+... --.++|+.||+|+.+
T Consensus        81 et~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG-i~~lIVavNKMD~v~  159 (428)
T COG5256          81 ETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG-IKQLIVAVNKMDLVS  159 (428)
T ss_pred             ecCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcC-CceEEEEEEcccccc
Confidence            444578999999999888777777788999999999998753   1211111111  1222222 336788899999984


Q ss_pred             CccCCChhHH
Q 031411          135 SKREAPFCLH  144 (160)
Q Consensus       135 ~~~~~~~~~~  144 (160)
                       ..+..++++
T Consensus       160 -wde~rf~ei  168 (428)
T COG5256         160 -WDEERFEEI  168 (428)
T ss_pred             -cCHHHHHHH
Confidence             555555554

>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=99.37  E-value=9.7e-12  Score=87.13  Aligned_cols=114  Identities=22%  Similarity=0.246  Sum_probs=65.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccc--cceeeeEEEEEEEECCEEEEEEEecCCCccccc--------ccc---h
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFI--TTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR--------TIT---T   82 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~--------~~~---~   82 (160)
                      ++|+|+|.+|+||||++|.|++........  ...+..........++  ..+.++||||-....        .+.   .
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~   78 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRCLS   78 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT--EEEEEEE--SSEETTEEHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc--eEEEEEeCCCCCCCcccHHHHHHHHHHHHH
Confidence            589999999999999999999876544321  2222334444556677  568999999932111        111   1


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCC--CcEEEEEeCCCCC
Q 031411           83 AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN--VNKILVGNKADMD  133 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~--~pi~vv~~K~Dl~  133 (160)
                      ....+.|++++|++......  .-...+..+...++..  ..++|+.|..|..
T Consensus        79 ~~~~g~ha~llVi~~~r~t~--~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~  129 (212)
T PF04548_consen   79 LCSPGPHAFLLVIPLGRFTE--EDREVLELLQEIFGEEIWKHTIVVFTHADEL  129 (212)
T ss_dssp             HTTT-ESEEEEEEETTB-SH--HHHHHHHHHHHHHCGGGGGGEEEEEEEGGGG
T ss_pred             hccCCCeEEEEEEecCcchH--HHHHHHHHHHHHccHHHHhHhhHHhhhcccc
Confidence            12457899999999873221  1122223333332211  2688888988864

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 ....

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.37  E-value=1.2e-12  Score=92.69  Aligned_cols=119  Identities=24%  Similarity=0.386  Sum_probs=77.0

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEE-EEECCEEEEEEEecCCCccc-------ccccchh
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRT-IELDGKRIKLQIWDTAGQER-------FRTITTA   83 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~D~~g~~~-------~~~~~~~   83 (160)
                      ....++++++|.+|+||||+||.|+.+...+-..-..+.+..... ...++  ..+.+||+||-..       +......
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~--~~l~lwDtPG~gdg~~~D~~~r~~~~d  113 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDG--ENLVLWDTPGLGDGKDKDAEHRQLYRD  113 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccc--cceEEecCCCcccchhhhHHHHHHHHH
Confidence            345689999999999999999999965443222112122222222 22233  4789999999433       5555566


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           84 YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+...|+++++.++.++.---. .+.++.+..... +.+++++.|.+|...
T Consensus       114 ~l~~~DLvL~l~~~~draL~~d-~~f~~dVi~~~~-~~~~i~~VtQ~D~a~  162 (296)
T COG3596         114 YLPKLDLVLWLIKADDRALGTD-EDFLRDVIILGL-DKRVLFVVTQADRAE  162 (296)
T ss_pred             HhhhccEEEEeccCCCccccCC-HHHHHHHHHhcc-CceeEEEEehhhhhc
Confidence            7888999999999987532212 223444433333 478999999999743

>smart00275 G_alpha G protein alpha subunit

Probab=99.37  E-value=6.5e-12  Score=93.71  Aligned_cols=70  Identities=19%  Similarity=0.248  Sum_probs=55.7

Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCCh----------hhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDE----------SSFNNIRNWIRNIEQHA-SDNVNKILVGNKADM  132 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~----------~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl  132 (160)
                      +.+.+||.+|+......|..++.+++++++|+|+++.          ..++.....+..+.... -.+.|++|++||.|+
T Consensus       184 ~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~  263 (342)
T smart00275      184 LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDL  263 (342)
T ss_pred             eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHh
Confidence            5789999999999999999999999999999999973          34445555555554432 257899999999996


Q ss_pred             C
Q 031411          133 D  133 (160)
Q Consensus       133 ~  133 (160)
                      .
T Consensus       264 ~  264 (342)
T smart00275      264 F  264 (342)
T ss_pred             H
Confidence            3

Subunit of G proteins that contains the guanine nucleotide binding site

>PTZ00258 GTP-binding protein; Provisional

Probab=99.37  E-value=1.3e-11  Score=92.98  Aligned_cols=86  Identities=21%  Similarity=0.212  Sum_probs=60.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEE---------------EEEEEecCCCcccc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKR---------------IKLQIWDTAGQERF   77 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~D~~g~~~~   77 (160)
                      ...++|.++|.|++|||||+|.|.+........+..+.+.....+.+.+.+               .++.++|+||-..-
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~g   98 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKG   98 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcC
Confidence            455799999999999999999998876555444555555655555554322               25899999994321


Q ss_pred             ----ccc---chhhccCCcEEEEEEECC
Q 031411           78 ----RTI---TTAYYRGAMGILLVYDVT   98 (160)
Q Consensus        78 ----~~~---~~~~~~~~~~~i~v~d~~   98 (160)
                          ..+   .-..++++|++++|+|..
T Consensus        99 a~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         99 ASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence                111   123467899999999984

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.34  E-value=5.8e-12  Score=97.00  Aligned_cols=145  Identities=12%  Similarity=0.132  Sum_probs=85.5

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCC---CCccccceeeeEEEEEE---------------EECC------------E
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSF---TTSFITTIGIDFKIRTI---------------ELDG------------K   62 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~---~~~~~~~~~~~~~~~~~---------------~~~~------------~   62 (160)
                      ...++|.++|.-++|||||+..|++...   .++..+..+++......               ....            .
T Consensus        32 ~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (460)
T PTZ00327         32 QATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGH  111 (460)
T ss_pred             CCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccc
Confidence            4568999999999999999999997433   33332322221111100               0000            0


Q ss_pred             ----EEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcc-
Q 031411           63 ----RIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR-  137 (160)
Q Consensus        63 ----~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~-  137 (160)
                          ...+.|+|+|||+.|-......+..+|++++|+|+.+...-....+.+..+.. .. -.+++++.||+|+.+..+ 
T Consensus       112 ~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~-lg-i~~iIVvlNKiDlv~~~~~  189 (460)
T PTZ00327        112 KMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEI-MK-LKHIIILQNKIDLVKEAQA  189 (460)
T ss_pred             cccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHH-cC-CCcEEEEEecccccCHHHH
Confidence                13689999999998877666778899999999999863111111222222211 11 236899999999963222 


Q ss_pred             CCChhHHHHHhh-----hcceEEEEee
Q 031411          138 EAPFCLHETILL-----TVQVHLVILK  159 (160)
Q Consensus       138 ~~~~~~~~~~~~-----~~~~~~~~~k  159 (160)
                      ....++++++..     ...+.++|++
T Consensus       190 ~~~~~ei~~~l~~~~~~~~~iipVSA~  216 (460)
T PTZ00327        190 QDQYEEIRNFVKGTIADNAPIIPISAQ  216 (460)
T ss_pred             HHHHHHHHHHHHhhccCCCeEEEeeCC
Confidence            222344444433     2345555553

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.31  E-value=9.3e-11  Score=87.51  Aligned_cols=83  Identities=19%  Similarity=0.202  Sum_probs=58.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEE---------------EEEEEecCCCcccc---
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKR---------------IKLQIWDTAGQERF---   77 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~D~~g~~~~---   77 (160)
                      ++|+++|.|++|||||+|.|++........+..+.+.....+.+.+.+               .++.+.|+||-..-   
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~   82 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   82 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCCh
Confidence            689999999999999999999877544444555555555455544422               25899999994321   


Q ss_pred             -ccc---chhhccCCcEEEEEEECC
Q 031411           78 -RTI---TTAYYRGAMGILLVYDVT   98 (160)
Q Consensus        78 -~~~---~~~~~~~~~~~i~v~d~~   98 (160)
                       ..+   .-..++.+|++++|+|+.
T Consensus        83 g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         83 GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence             111   122467899999999985

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.30  E-value=3.9e-11  Score=96.16  Aligned_cols=133  Identities=18%  Similarity=0.115  Sum_probs=94.8

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCC------------------CCccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSF------------------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      ..+.-+|.++|+-++|||||..+|+...-                  .++..+..++......+.+.+ .+.++++||||
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~-~~~iNlIDTPG   85 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKG-DYRINLIDTPG   85 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcC-ceEEEEeCCCC
Confidence            45667999999999999999999974211                  112233333444444555554 47899999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhh
Q 031411           74 QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILL  149 (160)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~  149 (160)
                      |-.|.......++-+|++++|+|+...-..+.-.-|.+..    ..++|.+++.||+|.....-....++++....
T Consensus        86 HVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~----~~~vp~i~fiNKmDR~~a~~~~~~~~l~~~l~  157 (697)
T COG0480          86 HVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQAD----KYGVPRILFVNKMDRLGADFYLVVEQLKERLG  157 (697)
T ss_pred             ccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHh----hcCCCeEEEEECccccccChhhhHHHHHHHhC
Confidence            9999999999999999999999998654433333343333    34889999999999876666666665555443

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.26  E-value=6.7e-11  Score=89.77  Aligned_cols=83  Identities=24%  Similarity=0.331  Sum_probs=56.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEE---------------------ECC-EEEEEEEecCCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIE---------------------LDG-KRIKLQIWDTAG   73 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~---------------------~~~-~~~~~~~~D~~g   73 (160)
                      ++|+++|.+++|||||+|+|++........+..+++.......                     .++ ....+++||+||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            5899999999999999999998766533333333333332211                     111 226789999999


Q ss_pred             c----ccccccchhh---ccCCcEEEEEEECC
Q 031411           74 Q----ERFRTITTAY---YRGAMGILLVYDVT   98 (160)
Q Consensus        74 ~----~~~~~~~~~~---~~~~~~~i~v~d~~   98 (160)
                      .    .+...+...+   ++++|++++|+|..
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            4    2333344444   78999999999997

>PRK09866 hypothetical protein; Provisional

Probab=99.26  E-value=1.7e-10  Score=90.90  Aligned_cols=82  Identities=18%  Similarity=0.179  Sum_probs=50.4

Q ss_pred             EEEEEecCCCcccc-----cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccC
Q 031411           64 IKLQIWDTAGQERF-----RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRE  138 (160)
Q Consensus        64 ~~~~~~D~~g~~~~-----~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~  138 (160)
                      .++.|.||||-...     .......+.++|++++|+|.....+... ...+..+.+. .++.|++++.||+|+.+. ..
T Consensus       230 ~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~-~K~~PVILVVNKIDl~dr-ee  306 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAV-GQSVPLYVLVNKFDQQDR-NS  306 (741)
T ss_pred             CCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhc-CCCCCEEEEEEcccCCCc-cc
Confidence            47889999996432     2234457899999999999986433222 1223333332 223699999999998522 22


Q ss_pred             CChhHHHHHh
Q 031411          139 APFCLHETIL  148 (160)
Q Consensus       139 ~~~~~~~~~~  148 (160)
                      ...+..+++.
T Consensus       307 ddkE~Lle~V  316 (741)
T PRK09866        307 DDADQVRALI  316 (741)
T ss_pred             chHHHHHHHH
Confidence            2244555543

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

Probab=99.24  E-value=1.9e-10  Score=90.77  Aligned_cols=122  Identities=19%  Similarity=0.220  Sum_probs=74.1

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEECCEEEEEEEecCCCccccc-------cc--
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR-------TI--   80 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~-------~~--   80 (160)
                      +-+..++|+|+|.+|+||||++|.|++..... ......+..........++  ..+.++||||-....       .+  
T Consensus       114 ~LdfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~idG--~~L~VIDTPGL~dt~~dq~~neeILk  191 (763)
T TIGR00993       114 PLDFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQG--VKIRVIDTPGLKSSASDQSKNEKILS  191 (763)
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEECC--ceEEEEECCCCCccccchHHHHHHHH
Confidence            34566899999999999999999999865332 2111111112222223444  578999999954321       11  


Q ss_pred             -chhhcc--CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC--cEEEEEeCCCCCC
Q 031411           81 -TTAYYR--GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNV--NKILVGNKADMDE  134 (160)
Q Consensus        81 -~~~~~~--~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~--pi~vv~~K~Dl~~  134 (160)
                       ...++.  ..|++|+|.++........-..++..+...+...+  ..||+.|..|..+
T Consensus       192 ~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       192 SVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             HHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence             111333  47999999887533322222345666655554332  6889999999753

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.

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.23  E-value=6.9e-11  Score=89.28  Aligned_cols=131  Identities=19%  Similarity=0.228  Sum_probs=91.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC--CC--------------CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS--FT--------------TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT   79 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~--~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~   79 (160)
                      -+|.++-.-..|||||+..|+.+.  |.              .+.....++-.....+.+++  +.+++.|||||..|..
T Consensus         6 RNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~--~~INIvDTPGHADFGG   83 (603)
T COG1217           6 RNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNG--TRINIVDTPGHADFGG   83 (603)
T ss_pred             ceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCC--eEEEEecCCCcCCccc
Confidence            489999999999999999998532  21              11223333322333445555  7899999999999999


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc
Q 031411           80 ITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQ  152 (160)
Q Consensus        80 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~  152 (160)
                      .....+.=+|++++++|+.+..- ...+   --+.+....+++-+|+.||.|.+....+...+++..+..+++
T Consensus        84 EVERvl~MVDgvlLlVDA~EGpM-PQTr---FVlkKAl~~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~  152 (603)
T COG1217          84 EVERVLSMVDGVLLLVDASEGPM-PQTR---FVLKKALALGLKPIVVINKIDRPDARPDEVVDEVFDLFVELG  152 (603)
T ss_pred             hhhhhhhhcceEEEEEEcccCCC-Cchh---hhHHHHHHcCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhC
Confidence            99999999999999999986321 1111   112233334676777889999987777767777777765443

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

Probab=99.23  E-value=1.9e-10  Score=84.61  Aligned_cols=139  Identities=19%  Similarity=0.247  Sum_probs=81.4

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCc----------cccceeeeEEEEEEEECCEEEEEEEecCCCc-------c
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTS----------FITTIGIDFKIRTIELDGKRIKLQIWDTAGQ-------E   75 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~-------~   75 (160)
                      -..++|+++|+.|+|||||+|.|++......          ..++..+..+...+.-++-.+++++.||||-       .
T Consensus        21 Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~  100 (373)
T COG5019          21 GIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSK  100 (373)
T ss_pred             CCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccc
Confidence            3458999999999999999999987522211          2345555666666667888899999999991       0


Q ss_pred             cccc------------------c-chhhcc--CCcEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           76 RFRT------------------I-TTAYYR--GAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        76 ~~~~------------------~-~~~~~~--~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .|..                  + +...+.  ++|++++.+..+. ..+..+ .+.+..+.+    .+.++-|+.|+|..
T Consensus       101 ~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptg-h~l~~~DIe~Mk~ls~----~vNlIPVI~KaD~l  175 (373)
T COG5019         101 CWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTG-HGLKPLDIEAMKRLSK----RVNLIPVIAKADTL  175 (373)
T ss_pred             cHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCC-CCCCHHHHHHHHHHhc----ccCeeeeeeccccC
Confidence            1100                  0 011233  3566776666543 222222 123333332    56788888999964


Q ss_pred             -CCccCCChhHHHHHhhhcceEEE
Q 031411          134 -ESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus       134 -~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                       ..+...-.+.+.+....+++..|
T Consensus       176 T~~El~~~K~~I~~~i~~~nI~vf  199 (373)
T COG5019         176 TDDELAEFKERIREDLEQYNIPVF  199 (373)
T ss_pred             CHHHHHHHHHHHHHHHHHhCCcee
Confidence             22223333444444445555443

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

Probab=99.22  E-value=3.7e-11  Score=89.73  Aligned_cols=112  Identities=13%  Similarity=0.108  Sum_probs=54.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-Cccccceeee--EEEEEEEECCEEEEEEEecCCCcccccccchh-----hc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGID--FKIRTIELDGKRIKLQIWDTAGQERFRTITTA-----YY   85 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~--~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~-----~~   85 (160)
                      ..++|+|+|++|+|||||||.|.+-... +...++...+  .....+.... --.+.+||+||..........     .+
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~-~pnv~lWDlPG~gt~~f~~~~Yl~~~~~  112 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPK-FPNVTLWDLPGIGTPNFPPEEYLKEVKF  112 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS--TTEEEEEE--GGGSS--HHHHHHHTTG
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCC-CCCCeEEeCCCCCCCCCCHHHHHHHccc
Confidence            4689999999999999999999763221 1111111100  1111112211 114889999995433322222     35


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           86 RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ...|.+|++.+..-.+..-.   ....+.+   .+.|+++|-||+|.
T Consensus       113 ~~yD~fiii~s~rf~~ndv~---La~~i~~---~gK~fyfVRTKvD~  153 (376)
T PF05049_consen  113 YRYDFFIIISSERFTENDVQ---LAKEIQR---MGKKFYFVRTKVDS  153 (376)
T ss_dssp             GG-SEEEEEESSS--HHHHH---HHHHHHH---TT-EEEEEE--HHH
T ss_pred             cccCEEEEEeCCCCchhhHH---HHHHHHH---cCCcEEEEEecccc
Confidence            67898887665432222112   2233333   36799999999995

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.

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=99.22  E-value=1.2e-10  Score=91.17  Aligned_cols=119  Identities=24%  Similarity=0.270  Sum_probs=85.9

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCcc-----------------ccceeeeEEEEE---EEECCEEEEEEEe
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSF-----------------ITTIGIDFKIRT---IELDGKRIKLQIW   69 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~-----------------~~~~~~~~~~~~---~~~~~~~~~~~~~   69 (160)
                      .......++.++|.-++|||+|+..|..+..+...                 .+..++......   -..+++++-+++.
T Consensus       123 ~~p~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nil  202 (971)
T KOG0468|consen  123 DNPERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNIL  202 (971)
T ss_pred             cCcceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeee
Confidence            45567789999999999999999999875443221                 111111111111   1226678899999


Q ss_pred             cCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           70 DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        70 D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      |||||..+.......++.+|++++++|+...-.+..- +.   +.+....++|+++++||.|.
T Consensus       203 DTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntE-r~---ikhaiq~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  203 DTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTE-RI---IKHAIQNRLPIVVVINKVDR  261 (971)
T ss_pred             cCCCcccchHHHHHHhhhcceEEEEEEcccCceeeHH-HH---HHHHHhccCcEEEEEehhHH
Confidence            9999999999899999999999999999876655432 22   23333458899999999995

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.22  E-value=3.2e-11  Score=83.55  Aligned_cols=117  Identities=22%  Similarity=0.353  Sum_probs=79.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCC-CCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc-----cccchhhccCC
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGS-FTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF-----RTITTAYYRGA   88 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~-----~~~~~~~~~~~   88 (160)
                      +-||+++|.+|+|||++-.-+..+. .......+.+++..-.++.+-| ...+.+||.+|++.+     .......++..
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflG-nl~LnlwDcGgqe~fmen~~~~q~d~iF~nV   82 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLG-NLVLNLWDCGGQEEFMENYLSSQEDNIFRNV   82 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhh-hheeehhccCCcHHHHHHHHhhcchhhheeh
Confidence            4599999999999999866555321 1122334444455444555544 256889999998733     22445668899


Q ss_pred             cEEEEEEECCChhhHHHH---HHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           89 MGILLVYDVTDESSFNNI---RNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~---~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ++++++||++..+--..+   .+-+..+.++.+ ...+..+.+|+|+.
T Consensus        83 ~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP-~AkiF~l~hKmDLv  129 (295)
T KOG3886|consen   83 QVLIYVFDVESREMEKDFHYYQKCLEALLQNSP-EAKIFCLLHKMDLV  129 (295)
T ss_pred             eeeeeeeeccchhhhhhHHHHHHHHHHHHhcCC-cceEEEEEeechhc
Confidence            999999999876544333   334444555655 67899999999985

>cd01882 BMS1 Bms1

Probab=99.21  E-value=2.5e-10  Score=80.68  Aligned_cols=109  Identities=14%  Similarity=0.171  Sum_probs=65.5

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      .....|+++|.+|+|||||++.+.............+ ...  ....  ...++.++|+||..  .. .....+.+|+++
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g-~i~--i~~~--~~~~i~~vDtPg~~--~~-~l~~ak~aDvVl  108 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKG-PIT--VVTG--KKRRLTFIECPNDI--NA-MIDIAKVADLVL  108 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccCccccccc-cEE--EEec--CCceEEEEeCCchH--HH-HHHHHHhcCEEE
Confidence            3346799999999999999999986422111111111 011  1112  23578999999853  22 223467899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEeCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHASDNVNK-ILVGNKADMD  133 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi-~vv~~K~Dl~  133 (160)
                      +++|++....... ...+..+..   .+.|. +++.||.|+.
T Consensus       109 lviDa~~~~~~~~-~~i~~~l~~---~g~p~vi~VvnK~D~~  146 (225)
T cd01882         109 LLIDASFGFEMET-FEFLNILQV---HGFPRVMGVLTHLDLF  146 (225)
T ss_pred             EEEecCcCCCHHH-HHHHHHHHH---cCCCeEEEEEeccccC
Confidence            9999975432221 122222222   25674 4599999986

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.21  E-value=5.1e-11  Score=90.59  Aligned_cols=123  Identities=19%  Similarity=0.107  Sum_probs=85.2

Q ss_pred             CCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc--cccc-----
Q 031411            8 ARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER--FRTI-----   80 (160)
Q Consensus         8 ~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~--~~~~-----   80 (160)
                      .+.-.+..-+++++|-|++|||||++.++.......+..+++-..+..++.+.-  ..+++.||||.-.  .+..     
T Consensus       161 lPsIDp~trTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH~dykY--lrwQViDTPGILD~plEdrN~IEm  238 (620)
T KOG1490|consen  161 LPAIDPNTRTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGHLDYKY--LRWQVIDTPGILDRPEEDRNIIEM  238 (620)
T ss_pred             CCCCCCCcCeEEEecCCCCCcHhhcccccccccccCCcccccchhhhhhhhhhe--eeeeecCCccccCcchhhhhHHHH
Confidence            344456667999999999999999999998877766555555444444444443  5788999999321  1111     


Q ss_pred             -chhhccC-CcEEEEEEECCC--hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           81 -TTAYYRG-AMGILLVYDVTD--ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        81 -~~~~~~~-~~~~i~v~d~~~--~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                       ....+.. -.+++++.|++.  ..+.+.--+.++.+...+. +.|.++++||+|+-
T Consensus       239 qsITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFa-NK~~IlvlNK~D~m  294 (620)
T KOG1490|consen  239 QIITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFA-NKVTILVLNKIDAM  294 (620)
T ss_pred             HHHHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhc-CCceEEEeeccccc
Confidence             1122222 235677788876  4567777778888888777 78999999999974

>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=99.21  E-value=6.3e-11  Score=79.85  Aligned_cols=63  Identities=24%  Similarity=0.324  Sum_probs=43.4

Q ss_pred             EEEEecCCCcc----cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 031411           65 KLQIWDTAGQE----RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA  130 (160)
Q Consensus        65 ~~~~~D~~g~~----~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~  130 (160)
                      .+.|+|+||-.    ....++..++..+|++++|.+++...+-.....+.+.....   ....++|.||.
T Consensus       102 ~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~---~~~~i~V~nk~  168 (168)
T PF00350_consen  102 NLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD---KSRTIFVLNKA  168 (168)
T ss_dssp             SEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT---CSSEEEEEE-G
T ss_pred             ceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC---CCeEEEEEcCC
Confidence            57899999943    33456777889999999999998865544554455444433   33488888884

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 ....

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.17  E-value=4.3e-10  Score=82.44  Aligned_cols=134  Identities=19%  Similarity=0.164  Sum_probs=85.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC---------------------------------CccccceeeeEEEEEEEEC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT---------------------------------TSFITTIGIDFKIRTIELD   60 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~---------------------------------~~~~~~~~~~~~~~~~~~~   60 (160)
                      ..+|++-||.-.-||||||-||+.+.-.                                 .+.....+++..+  ..+.
T Consensus         5 ~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAY--RyFs   82 (431)
T COG2895           5 SLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAY--RYFS   82 (431)
T ss_pred             cceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEe--eecc
Confidence            4589999999999999999999753110                                 1122222333332  2333


Q ss_pred             CEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCC
Q 031411           61 GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAP  140 (160)
Q Consensus        61 ~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~  140 (160)
                      -.+..|.+-|||||++|.+.......-||+.|+++|+... -.+..+. =..+..... -..+++..||+||. .+.+..
T Consensus        83 T~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~G-vl~QTrR-Hs~I~sLLG-IrhvvvAVNKmDLv-dy~e~~  158 (431)
T COG2895          83 TEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKG-VLEQTRR-HSFIASLLG-IRHVVVAVNKMDLV-DYSEEV  158 (431)
T ss_pred             cccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchh-hHHHhHH-HHHHHHHhC-CcEEEEEEeeeccc-ccCHHH
Confidence            3446899999999999999888888899999999999532 1222111 111222212 34688889999998 444444


Q ss_pred             hhHH----HHHhhhcce
Q 031411          141 FCLH----ETILLTVQV  153 (160)
Q Consensus       141 ~~~~----~~~~~~~~~  153 (160)
                      ++++    ..|+.+++.
T Consensus       159 F~~I~~dy~~fa~~L~~  175 (431)
T COG2895         159 FEAIVADYLAFAAQLGL  175 (431)
T ss_pred             HHHHHHHHHHHHHHcCC
Confidence            4443    556666553

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.17  E-value=4.1e-10  Score=83.35  Aligned_cols=136  Identities=18%  Similarity=0.250  Sum_probs=79.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCC---------ccccceeeeEEEEEEEECCEEEEEEEecCCCc-------ccc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTT---------SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ-------ERF   77 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~-------~~~   77 (160)
                      ..++++++|+.|.|||||||.|+......         ....+..+......+.-+|-.+++++.||||-       ..|
T Consensus        20 ~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w   99 (366)
T KOG2655|consen   20 FDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCW   99 (366)
T ss_pred             CceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccc
Confidence            45899999999999999999998753322         22334455555555666787889999999991       011


Q ss_pred             ------------------cccchhhcc--CCcEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCC-C
Q 031411           78 ------------------RTITTAYYR--GAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDE-S  135 (160)
Q Consensus        78 ------------------~~~~~~~~~--~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~~-~  135 (160)
                                        ..+.+..+.  ++|++++.+..+.- .+..+ ...+..+.    ..++++-|+.|+|... .
T Consensus       100 ~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~gh-gL~p~Di~~Mk~l~----~~vNiIPVI~KaD~lT~~  174 (366)
T KOG2655|consen  100 RPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGH-GLKPLDIEFMKKLS----KKVNLIPVIAKADTLTKD  174 (366)
T ss_pred             hhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCC-CCcHhhHHHHHHHh----ccccccceeeccccCCHH
Confidence                              111122334  46677776665432 12222 11222332    3677888889999642 2


Q ss_pred             ccCCChhHHHHHhhhcceE
Q 031411          136 KREAPFCLHETILLTVQVH  154 (160)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~  154 (160)
                      +...-.+.+.+-...+++.
T Consensus       175 El~~~K~~I~~~i~~~nI~  193 (366)
T KOG2655|consen  175 ELNQFKKRIRQDIEEHNIK  193 (366)
T ss_pred             HHHHHHHHHHHHHHHcCcc
Confidence            2222223344444444443

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.17  E-value=2.4e-10  Score=84.27  Aligned_cols=125  Identities=22%  Similarity=0.275  Sum_probs=82.3

Q ss_pred             CCCCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCcc---ccceeeeEEEEEEEECCEE------------------
Q 031411            5 PARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSF---ITTIGIDFKIRTIELDGKR------------------   63 (160)
Q Consensus         5 ~~~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~---~~~~~~~~~~~~~~~~~~~------------------   63 (160)
                      ++-...+.+.+..|+++|+-+.||||||+.|+.+.++...   .+++  +++.....-+..+                  
T Consensus        48 p~l~d~dfd~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTt--d~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL  125 (532)
T KOG1954|consen   48 PALEDPDFDAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTT--DRFIAVMHGDEEGSIPGNALVVDAKKPFRGL  125 (532)
T ss_pred             ccccCcccccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCc--ceeEEEEecCcccccCCceeeecCCCchhhh
Confidence            3444677888899999999999999999999998887331   2222  1222211111100                  


Q ss_pred             ---------------------EEEEEecCCCcc-----------cccccchhhccCCcEEEEEEECCChhhHHHHHHHHH
Q 031411           64 ---------------------IKLQIWDTAGQE-----------RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIR  111 (160)
Q Consensus        64 ---------------------~~~~~~D~~g~~-----------~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~  111 (160)
                                           -.++++||||.-           .+.....=+..++|.++++||+...+--++..+.+.
T Consensus       126 ~~FG~aflnRf~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~  205 (532)
T KOG1954|consen  126 NKFGNAFLNRFMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVID  205 (532)
T ss_pred             hhhHHHHHHHHHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHH
Confidence                                 178899999932           223333445678999999999977555455554455


Q ss_pred             HHHHhcCCCCcEEEEEeCCCCCC
Q 031411          112 NIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus       112 ~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+..+   .-.+-||.||.|+.+
T Consensus       206 aLkG~---EdkiRVVLNKADqVd  225 (532)
T KOG1954|consen  206 ALKGH---EDKIRVVLNKADQVD  225 (532)
T ss_pred             HhhCC---cceeEEEeccccccC
Confidence            55433   446888899999863

>smart00053 DYNc Dynamin, GTPase

Probab=99.16  E-value=5.2e-10  Score=79.43  Aligned_cols=68  Identities=15%  Similarity=0.218  Sum_probs=42.1

Q ss_pred             EEEEEecCCCccc-------------ccccchhhccC-CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeC
Q 031411           64 IKLQIWDTAGQER-------------FRTITTAYYRG-AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNK  129 (160)
Q Consensus        64 ~~~~~~D~~g~~~-------------~~~~~~~~~~~-~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K  129 (160)
                      ..|+++|+||-..             ...+...++++ .+++++++|+...-.-....+..+.+.   +.+.++++|+||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld---~~~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVD---PQGERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHH---HcCCcEEEEEEC
Confidence            4788999999532             12234456664 468999998865322112222333332   347799999999


Q ss_pred             CCCCC
Q 031411          130 ADMDE  134 (160)
Q Consensus       130 ~Dl~~  134 (160)
                      .|..+
T Consensus       202 ~D~~~  206 (240)
T smart00053      202 LDLMD  206 (240)
T ss_pred             CCCCC
Confidence            99863

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.12  E-value=4.5e-10  Score=93.39  Aligned_cols=102  Identities=21%  Similarity=0.195  Sum_probs=72.4

Q ss_pred             CCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEE----------------EEEEEecCCCcccccccchhhccCCc
Q 031411           26 VGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKR----------------IKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        26 ~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ++||||+.+|.+...........+.+.....+..+...                -.+.|||||||+.+..+....+..+|
T Consensus       472 ~~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aD  551 (1049)
T PRK14845        472 VHNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLAD  551 (1049)
T ss_pred             cccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCC
Confidence            34999999999877665555555544444444443210                12899999999999888777888899


Q ss_pred             EEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           90 GILLVYDVTD---ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        90 ~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ++++|+|+++   +.+++.+.    .+..   .++|+++++||+|+.+
T Consensus       552 ivlLVVDa~~Gi~~qT~e~I~----~lk~---~~iPiIVViNKiDL~~  592 (1049)
T PRK14845        552 LAVLVVDINEGFKPQTIEAIN----ILRQ---YKTPFVVAANKIDLIP  592 (1049)
T ss_pred             EEEEEEECcccCCHhHHHHHH----HHHH---cCCCEEEEEECCCCcc
Confidence            9999999986   44444443    2222   2679999999999963

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.09  E-value=1e-09  Score=84.85  Aligned_cols=131  Identities=18%  Similarity=0.139  Sum_probs=86.4

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCC-------------------------------CCCccccceeeeEEEEEEE
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGS-------------------------------FTTSFITTIGIDFKIRTIE   58 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~-------------------------------~~~~~~~~~~~~~~~~~~~   58 (160)
                      ......++++++|..++|||||+-+++...                               ..++..+..++  ......
T Consensus       172 ~~~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm--~v~~~~  249 (603)
T KOG0458|consen  172 SDPKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTM--DVKTTW  249 (603)
T ss_pred             cCCccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeE--EeeeEE
Confidence            445577999999999999999998886421                               12223333333  334444


Q ss_pred             ECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHH----HHH--HHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           59 LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNN----IRN--WIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        59 ~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~----~~~--~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ++-.+..+++.|.|||..|..-..+....+|+.++|+|++. ..|+.    ..+  ....+.+... -..++|+.||+|+
T Consensus       250 fes~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~-~~FE~gfd~~gQtrEha~llr~Lg-i~qlivaiNKmD~  327 (603)
T KOG0458|consen  250 FESKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDAST-GEFESGFDPGGQTREHALLLRSLG-ISQLIVAINKMDL  327 (603)
T ss_pred             EecCceeEEEecCCCccccchhhhccccccceEEEEEECCc-chhhhccCCCCchHHHHHHHHHcC-cceEEEEeecccc
Confidence            44555789999999999888877778888999999999975 33331    111  1122222222 3367888999999


Q ss_pred             CCCccCCChhHHH
Q 031411          133 DESKREAPFCLHE  145 (160)
Q Consensus       133 ~~~~~~~~~~~~~  145 (160)
                      . ...+..+++++
T Consensus       328 V-~Wsq~RF~eIk  339 (603)
T KOG0458|consen  328 V-SWSQDRFEEIK  339 (603)
T ss_pred             c-CccHHHHHHHH
Confidence            7 44454555543

>cd01900 YchF YchF subfamily

Probab=99.09  E-value=2.1e-10  Score=82.89  Aligned_cols=81  Identities=17%  Similarity=0.189  Sum_probs=57.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEE---------------EEEEEecCCCcccc----c
Q 031411           18 LLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKR---------------IKLQIWDTAGQERF----R   78 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~D~~g~~~~----~   78 (160)
                      |+++|.|++|||||+|.|++........+..+++.....+.+.+.+               .++.++|+||-..-    .
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~   80 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE   80 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhh
Confidence            5799999999999999999877654444555555665555555432               25899999994321    1


Q ss_pred             ccc---hhhccCCcEEEEEEECC
Q 031411           79 TIT---TAYYRGAMGILLVYDVT   98 (160)
Q Consensus        79 ~~~---~~~~~~~~~~i~v~d~~   98 (160)
                      .+.   -..++.+|++++|+|..
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence            122   22357899999999874

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.09  E-value=5.3e-09  Score=78.85  Aligned_cols=137  Identities=17%  Similarity=0.174  Sum_probs=78.7

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC----CCC-------------Ccccc-c-eeeeE-----EEEEEEE-CCEEEEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG----SFT-------------TSFIT-T-IGIDF-----KIRTIEL-DGKRIKLQ   67 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~----~~~-------------~~~~~-~-~~~~~-----~~~~~~~-~~~~~~~~   67 (160)
                      ..++.|.++|+.++|||||+++|.+.    ...             ++... + .+.++     ....+.. ++....+.
T Consensus        15 ~G~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~Vr   94 (492)
T TIGR02836        15 QGDIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVR   94 (492)
T ss_pred             CCcEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEE
Confidence            35689999999999999999999987    221             11111 0 11111     1222222 44456889


Q ss_pred             EecCCCcc--------cccc------c---------------chhhcc-CCcEEEEEE-ECC----ChhhH-HHHHHHHH
Q 031411           68 IWDTAGQE--------RFRT------I---------------TTAYYR-GAMGILLVY-DVT----DESSF-NNIRNWIR  111 (160)
Q Consensus        68 ~~D~~g~~--------~~~~------~---------------~~~~~~-~~~~~i~v~-d~~----~~~~~-~~~~~~~~  111 (160)
                      +.||+|-.        +...      .               ....+. .+++.+++. |.+    .++.+ +.-.+++.
T Consensus        95 lIDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~  174 (492)
T TIGR02836        95 LVDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIE  174 (492)
T ss_pred             EEECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHH
Confidence            99999911        1111      0               122344 789999888 664    11222 23334566


Q ss_pred             HHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEE
Q 031411          112 NIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHL  155 (160)
Q Consensus       112 ~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~  155 (160)
                      ++..   .++|++++.||.|-...   ...+.+.++..++++..
T Consensus       175 eLk~---~~kPfiivlN~~dp~~~---et~~l~~~l~eky~vpv  212 (492)
T TIGR02836       175 ELKE---LNKPFIILLNSTHPYHP---ETEALRQELEEKYDVPV  212 (492)
T ss_pred             HHHh---cCCCEEEEEECcCCCCc---hhHHHHHHHHHHhCCce
Confidence            6654   47899999999993211   13333445555666543

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

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

Probab=99.07  E-value=1.2e-09  Score=80.92  Aligned_cols=84  Identities=17%  Similarity=0.184  Sum_probs=60.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECC----------------EEEEEEEecCCCcc---
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG----------------KRIKLQIWDTAGQE---   75 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~D~~g~~---   75 (160)
                      .+++.++|.||+|||||+|.++.........|..+++++...+.+.+                .-..+.|+|.+|--   
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GA   81 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGA   81 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCc
Confidence            37899999999999999999998775555566666666655444322                12478899988832   


Q ss_pred             -cccccch---hhccCCcEEEEEEECC
Q 031411           76 -RFRTITT---AYYRGAMGILLVYDVT   98 (160)
Q Consensus        76 -~~~~~~~---~~~~~~~~~i~v~d~~   98 (160)
                       +-..+-+   ..++.+|+++.|+++.
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEec
Confidence             2233333   3467899999999987

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.05  E-value=1.7e-09  Score=80.03  Aligned_cols=79  Identities=18%  Similarity=0.287  Sum_probs=57.1

Q ss_pred             EEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhh-------HHHHHH---HHHHHHHhc-CCCC
Q 031411           53 KIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESS-------FNNIRN---WIRNIEQHA-SDNV  121 (160)
Q Consensus        53 ~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~-------~~~~~~---~~~~~~~~~-~~~~  121 (160)
                      ....+.+.+  ..+.++|.+||.....-|..+++++++++||+++++.+.       ..++.+   .+..+-.+. -.+.
T Consensus       186 ~e~~F~~k~--~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~t  263 (354)
T KOG0082|consen  186 VEVEFTIKG--LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANT  263 (354)
T ss_pred             eEEEEEeCC--CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccC
Confidence            333445555  689999999998888899999999999999999986322       223333   333333222 2478


Q ss_pred             cEEEEEeCCCCC
Q 031411          122 NKILVGNKADMD  133 (160)
Q Consensus       122 pi~vv~~K~Dl~  133 (160)
                      ++++..||.||.
T Consensus       264 siiLFLNK~DLF  275 (354)
T KOG0082|consen  264 SIILFLNKKDLF  275 (354)
T ss_pred             cEEEEeecHHHH
Confidence            999999999974

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.02  E-value=2e-09  Score=80.91  Aligned_cols=127  Identities=15%  Similarity=0.111  Sum_probs=83.0

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhc-CCCCCc---------------------cccceeeeEEEEEEEECCEEEEEEEe
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSD-GSFTTS---------------------FITTIGIDFKIRTIELDGKRIKLQIW   69 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~-~~~~~~---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~   69 (160)
                      ..++-+..|+-.|.+|||||-++|+- +...+.                     ..+.  +...+..++++-....+++.
T Consensus         9 v~rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRG--ISVtsSVMqF~Y~~~~iNLL   86 (528)
T COG4108           9 VARRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRG--ISVTSSVMQFDYADCLVNLL   86 (528)
T ss_pred             HhhhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcC--ceEEeeEEEeccCCeEEecc
Confidence            44566899999999999999988762 111111                     2222  33333344444334789999


Q ss_pred             cCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHH
Q 031411           70 DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLH  144 (160)
Q Consensus        70 D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~  144 (160)
                      |||||+.+..=...-+-.+|.++.|+|+...-.-..+ +.+   .-....++||+-..||.|.....+-.-.+|+
T Consensus        87 DTPGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~-KLf---eVcrlR~iPI~TFiNKlDR~~rdP~ELLdEi  157 (528)
T COG4108          87 DTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTL-KLF---EVCRLRDIPIFTFINKLDREGRDPLELLDEI  157 (528)
T ss_pred             CCCCccccchhHHHHHHhhheeeEEEecccCccHHHH-HHH---HHHhhcCCceEEEeeccccccCChHHHHHHH
Confidence            9999999887666678889999999999874322222 122   2122368999999999998644333333333

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=99.01  E-value=1.3e-09  Score=76.23  Aligned_cols=60  Identities=28%  Similarity=0.478  Sum_probs=44.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC---------CccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT---------TSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      ..++|+++|.+|.|||||+|++......         .....+..+......+.-++-+.++++.||||
T Consensus        45 F~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPG  113 (336)
T KOG1547|consen   45 FDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPG  113 (336)
T ss_pred             CceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCC
Confidence            4589999999999999999999753221         12334444555555566677788999999999

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.01  E-value=4.2e-09  Score=77.29  Aligned_cols=125  Identities=20%  Similarity=0.250  Sum_probs=75.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc-------CCCCCccccceeeeEEEEEEEE-------CCEEEEEEEecCCCccccccc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD-------GSFTTSFITTIGIDFKIRTIEL-------DGKRIKLQIWDTAGQERFRTI   80 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~-------~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~D~~g~~~~~~~   80 (160)
                      .+++.++|.-.+|||||.++|..       +..+++..+..+++.....+..       .++..++.++|+|||...-+.
T Consensus         7 n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLIRt   86 (522)
T KOG0461|consen    7 NLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLIRT   86 (522)
T ss_pred             eeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHHHH
Confidence            39999999999999999999974       2223444444444332222222       345578999999999655544


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC-CCCccCCChhH
Q 031411           81 TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM-DESKREAPFCL  143 (160)
Q Consensus        81 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl-~~~~~~~~~~~  143 (160)
                      ......-.|..++++|....-.-+..+-.+  +.+..  ....+|+.||.|. ++..+....++
T Consensus        87 iiggaqiiDlm~lviDv~kG~QtQtAEcLi--ig~~~--c~klvvvinkid~lpE~qr~ski~k  146 (522)
T KOG0461|consen   87 IIGGAQIIDLMILVIDVQKGKQTQTAECLI--IGELL--CKKLVVVINKIDVLPENQRASKIEK  146 (522)
T ss_pred             HHhhhheeeeeeEEEehhcccccccchhhh--hhhhh--ccceEEEEeccccccchhhhhHHHH
Confidence            444445578999999997632222211111  22211  2246777788885 54444444443

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=98.97  E-value=8.4e-10  Score=69.51  Aligned_cols=118  Identities=21%  Similarity=0.185  Sum_probs=76.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc----hhhccCCcEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT----TAYYRGAMGI   91 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~----~~~~~~~~~~   91 (160)
                      -|++++|..|+|||||.+.+.+......  .+       ..++++++    -..||||..--...|    .....++|++
T Consensus         2 Kri~~vG~~gcGKTtL~q~L~G~~~lyk--KT-------QAve~~d~----~~IDTPGEy~~~~~~Y~aL~tt~~dadvi   68 (148)
T COG4917           2 KRIAFVGQVGCGKTTLFQSLYGNDTLYK--KT-------QAVEFNDK----GDIDTPGEYFEHPRWYHALITTLQDADVI   68 (148)
T ss_pred             ceeEEecccccCchhHHHHhhcchhhhc--cc-------ceeeccCc----cccCCchhhhhhhHHHHHHHHHhhcccee
Confidence            3899999999999999999998654321  12       22333332    258999943222233    3445789999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +++-.++++++.=.     .-+...  ...|+|=+.+|.||.+   +...+..++|..+-|...+
T Consensus        69 ~~v~~and~~s~f~-----p~f~~~--~~k~vIgvVTK~DLae---d~dI~~~~~~L~eaGa~~I  123 (148)
T COG4917          69 IYVHAANDPESRFP-----PGFLDI--GVKKVIGVVTKADLAE---DADISLVKRWLREAGAEPI  123 (148)
T ss_pred             eeeecccCccccCC-----cccccc--cccceEEEEecccccc---hHhHHHHHHHHHHcCCcce
Confidence            99999998755211     001111  2446888999999973   4556667777776665433

>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=98.94  E-value=1.1e-09  Score=77.92  Aligned_cols=70  Identities=16%  Similarity=0.154  Sum_probs=37.3

Q ss_pred             EEEEecCCCcccccccchhhc--------cCCcEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           65 KLQIWDTAGQERFRTITTAYY--------RGAMGILLVYDVTDESS-FNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        65 ~~~~~D~~g~~~~~~~~~~~~--------~~~~~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+.++|||||-+.-..+...-        ...-++++++|+....+ ..-+..++..+......++|.+.+.||+|+.+
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~  170 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLS  170 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCccc
Confidence            688999999876555444332        34558888898864332 12222334443333334889999999999974

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=98.93  E-value=5.3e-09  Score=75.21  Aligned_cols=135  Identities=16%  Similarity=0.148  Sum_probs=89.4

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhc----------------CCCCCccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSD----------------GSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      ......+||..+|.-+.|||||-..+..                ++.+++....  +..+..++.+.-...++-..|+||
T Consensus         7 ~r~kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rG--ITIntahveyet~~rhyahVDcPG   84 (394)
T COG0050           7 ERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARG--ITINTAHVEYETANRHYAHVDCPG   84 (394)
T ss_pred             cCCCCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcC--ceeccceeEEecCCceEEeccCCC
Confidence            3445679999999999999999776653                1223333333  445556666655556788999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCC-cEEEEEeCCCCCCCcc--CCChhHHHHH
Q 031411           74 QERFRTITTAYYRGAMGILLVYDVTDE---SSFNNIRNWIRNIEQHASDNV-NKILVGNKADMDESKR--EAPFCLHETI  147 (160)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~~~~-pi~vv~~K~Dl~~~~~--~~~~~~~~~~  147 (160)
                      |..|-........+.|+.|+|+++++.   .+.+.+   +  +.+.  -++ .++++.||+|+.++..  +.-..|.+++
T Consensus        85 HaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHi---L--larq--vGvp~ivvflnK~Dmvdd~ellelVemEvreL  157 (394)
T COG0050          85 HADYVKNMITGAAQMDGAILVVAATDGPMPQTREHI---L--LARQ--VGVPYIVVFLNKVDMVDDEELLELVEMEVREL  157 (394)
T ss_pred             hHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhh---h--hhhh--cCCcEEEEEEecccccCcHHHHHHHHHHHHHH
Confidence            998877666667789999999999983   333332   1  1111  245 4666799999974332  2333456666


Q ss_pred             hhhcce
Q 031411          148 LLTVQV  153 (160)
Q Consensus       148 ~~~~~~  153 (160)
                      ..+++.
T Consensus       158 Ls~y~f  163 (394)
T COG0050         158 LSEYGF  163 (394)
T ss_pred             HHHcCC
Confidence            666654

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.89  E-value=4.6e-09  Score=68.98  Aligned_cols=54  Identities=26%  Similarity=0.307  Sum_probs=37.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      +++++|.+|+|||||+|++.+..... .....+.+.....+..++   .+.+|||||-
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVS-VSATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee-eCCCCCcccceEEEEeCC---CEEEEECCCc
Confidence            89999999999999999999876532 111222223333444444   4789999994

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.

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.88  E-value=6.6e-09  Score=72.82  Aligned_cols=113  Identities=20%  Similarity=0.293  Sum_probs=73.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEE--EECCEEEEEEEecCCCccccccc---chhhccCCcE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTI--ELDGKRIKLQIWDTAGQERFRTI---TTAYYRGAMG   90 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~D~~g~~~~~~~---~~~~~~~~~~   90 (160)
                      .+|+++|...+||||+-.......-+.+   |.-++.+.+..  .+.+.-+.|.+||+|||-.+=..   ....++++.+
T Consensus        28 p~ilLMG~rRsGKsSI~KVVFhkMsPne---TlflESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gA  104 (347)
T KOG3887|consen   28 PRILLMGLRRSGKSSIQKVVFHKMSPNE---TLFLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGA  104 (347)
T ss_pred             ceEEEEeecccCcchhhheeeeccCCCc---eeEeeccCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCe
Confidence            5799999999999999887776553322   22222221111  11223368999999998643221   2456889999


Q ss_pred             EEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           91 ILLVYDVTDE--SSFNNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        91 ~i~v~d~~~~--~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      +++++|+.+.  +.+.++........+..+ ++.+=|..+|.|-
T Consensus       105 LifvIDaQddy~eala~L~~~v~raykvNp-~in~EVfiHKvDG  147 (347)
T KOG3887|consen  105 LIFVIDAQDDYMEALARLHMTVERAYKVNP-NINFEVFIHKVDG  147 (347)
T ss_pred             EEEEEechHHHHHHHHHHHHHhhheeecCC-CceEEEEEEeccC
Confidence            9999999653  334444444444444444 7889999999994

>PRK13768 GTPase; Provisional

Probab=98.87  E-value=5.1e-09  Score=75.28  Aligned_cols=69  Identities=20%  Similarity=0.158  Sum_probs=42.3

Q ss_pred             EEEEecCCCcccc---cccchhh---ccC--CcEEEEEEECCChhhHHHH--HHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           65 KLQIWDTAGQERF---RTITTAY---YRG--AMGILLVYDVTDESSFNNI--RNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        65 ~~~~~D~~g~~~~---~~~~~~~---~~~--~~~~i~v~d~~~~~~~~~~--~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+.+||+||+...   ...+..+   +..  .+++++++|+.........  ..|+...... ..+.|+++++||+|+.+
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~  176 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLS  176 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcC
Confidence            6899999997553   2223222   222  8999999999654322222  1222222222 23789999999999863

>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=98.87  E-value=2.1e-08  Score=76.36  Aligned_cols=69  Identities=20%  Similarity=0.263  Sum_probs=50.8

Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChh----------hHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDES----------SFNNIRNWIRNIEQH-ASDNVNKILVGNKADM  132 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~----------~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl  132 (160)
                      ..+.++|++|+.....-|..++.+++++++|+++++-+          .+......+..+... .-.+.|++|++||.|+
T Consensus       236 ~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~  315 (389)
T PF00503_consen  236 RKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDL  315 (389)
T ss_dssp             EEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHH
T ss_pred             cccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHH
Confidence            67899999999988899999999999999999987521          122333344444332 2247899999999995

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 ....

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.83  E-value=8e-08  Score=67.89  Aligned_cols=98  Identities=22%  Similarity=0.197  Sum_probs=69.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc-------cccchhhcc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF-------RTITTAYYR   86 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~-------~~~~~~~~~   86 (160)
                      ...+++++|-|++|||||+..+..-.-.......+++......+.+++  ..+++.|+||.-.-       .++..+..+
T Consensus        61 GdaRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~y~g--a~IQllDLPGIieGAsqgkGRGRQviavAr  138 (364)
T KOG1486|consen   61 GDARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIHYNG--ANIQLLDLPGIIEGASQGKGRGRQVIAVAR  138 (364)
T ss_pred             CCeEEEEecCCCccHHHHHHHhhcchhhhhceeeeEEEeecceEEecC--ceEEEecCcccccccccCCCCCceEEEEee
Confidence            447999999999999999999987554433333444455555677777  57899999994221       223445567


Q ss_pred             CCcEEEEEEECCChhhHH-HHHHHHHHH
Q 031411           87 GAMGILLVYDVTDESSFN-NIRNWIRNI  113 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~-~~~~~~~~~  113 (160)
                      -+|+++.+.|++..+... .+.+.+..+
T Consensus       139 taDlilMvLDatk~e~qr~~le~ELe~v  166 (364)
T KOG1486|consen  139 TADLILMVLDATKSEDQREILEKELEAV  166 (364)
T ss_pred             cccEEEEEecCCcchhHHHHHHHHHHHh
Confidence            899999999999865443 556666666

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=98.82  E-value=3.3e-09  Score=75.54  Aligned_cols=27  Identities=22%  Similarity=0.506  Sum_probs=23.2

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .....+-|+++|..|||||||.++|..
T Consensus        15 ~~~~p~~ilVvGMAGSGKTTF~QrL~~   41 (366)
T KOG1532|consen   15 AIQRPVIILVVGMAGSGKTTFMQRLNS   41 (366)
T ss_pred             cccCCcEEEEEecCCCCchhHHHHHHH
Confidence            445568899999999999999999964

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.82  E-value=2.1e-08  Score=71.74  Aligned_cols=80  Identities=20%  Similarity=0.213  Sum_probs=58.8

Q ss_pred             ccccccchhhccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc-
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDES-SFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQ-  152 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~-  152 (160)
                      +++..+.+.++.++|.+++|||+.++. +++.+.+|+..+..   .++|+++++||+||.+. .++..+.++.+. +.+ 
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~-~~~~~~~~~~~~-~~g~   98 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDD-EDMEKEQLDIYR-NIGY   98 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCC-HHHHHHHHHHHH-HCCC
Confidence            567777888999999999999999877 89999999976643   47899999999999632 233334444443 344 


Q ss_pred             -eEEEEee
Q 031411          153 -VHLVILK  159 (160)
Q Consensus       153 -~~~~~~k  159 (160)
                       ..++|+|
T Consensus        99 ~v~~~SAk  106 (245)
T TIGR00157        99 QVLMTSSK  106 (245)
T ss_pred             eEEEEecC
Confidence             4445554

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

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.80  E-value=1.8e-08  Score=68.36  Aligned_cols=56  Identities=21%  Similarity=0.341  Sum_probs=38.5

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      +..++++++|.+|+|||||+|+|.+... .....+..+  .....+..+.   .+.++||||
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~pg~T--~~~~~~~~~~---~~~l~DtPG  171 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRACNVGATPGVT--KSMQEVHLDK---KVKLLDSPG  171 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCcccceecCCCCeE--cceEEEEeCC---CEEEEECcC
Confidence            3458999999999999999999998654 222333333  2223333333   578999998

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

>cd01858 NGP_1 NGP-1

Probab=98.79  E-value=2.4e-08  Score=66.68  Aligned_cols=55  Identities=22%  Similarity=0.221  Sum_probs=36.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      ...+++++|.+|+|||||+|+|.+.... ....+..+  .....+..++   .+.+.||||
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~~~~~~g~T--~~~~~~~~~~---~~~liDtPG  156 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCKVAPIPGET--KVWQYITLMK---RIYLIDCPG  156 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCceeeCCCCCee--EeEEEEEcCC---CEEEEECcC
Confidence            3578999999999999999999975442 22222222  2222223322   378999998

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.

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=98.77  E-value=4.3e-08  Score=78.06  Aligned_cols=116  Identities=19%  Similarity=0.147  Sum_probs=78.5

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEE------------CCE----EEEEEEecCCC
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL------------DGK----RIKLQIWDTAG   73 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~------------~~~----~~~~~~~D~~g   73 (160)
                      ...-+..=++|+|.-.+|||-|+..+.+.+.......+.+-......+..            +++    .--+.++||||
T Consensus       470 ~~~lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpg  549 (1064)
T KOG1144|consen  470 TENLRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPG  549 (1064)
T ss_pred             chhcCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCC
Confidence            33445567899999999999999999875443332222221111111111            111    12467899999


Q ss_pred             cccccccchhhccCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           74 QERFRTITTAYYRGAMGILLVYDVTD---ESSFNNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      |+.|..++.....-||++|+|+|+..   +.+++.+       ......+.|++|.+||+|.
T Consensus       550 hEsFtnlRsrgsslC~~aIlvvdImhGlepqtiESi-------~lLR~rktpFivALNKiDR  604 (1064)
T KOG1144|consen  550 HESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESI-------NLLRMRKTPFIVALNKIDR  604 (1064)
T ss_pred             chhhhhhhhccccccceEEEEeehhccCCcchhHHH-------HHHHhcCCCeEEeehhhhh
Confidence            99999999988999999999999965   4444443       2222357899999999995

>TIGR00092 GTP-binding protein YchF

Probab=98.75  E-value=3.6e-08  Score=73.87  Aligned_cols=84  Identities=18%  Similarity=0.035  Sum_probs=60.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEE---------------EEEEEecCCCcccc--
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKR---------------IKLQIWDTAGQERF--   77 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~D~~g~~~~--   77 (160)
                      +++.++|.|++|||||++.|++... .....+..+.+.+...+.+.+.+               ..+.+.|.||-..-  
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs   82 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGAS   82 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchh
Confidence            7899999999999999999998776 44444555555555555554432               36789999994321  


Q ss_pred             --cc---cchhhccCCcEEEEEEECCC
Q 031411           78 --RT---ITTAYYRGAMGILLVYDVTD   99 (160)
Q Consensus        78 --~~---~~~~~~~~~~~~i~v~d~~~   99 (160)
                        ..   ..-..++.+|++++|++..+
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f~  109 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCFE  109 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCCC
Confidence              11   23345788999999999853

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.71  E-value=9.8e-08  Score=81.54  Aligned_cols=112  Identities=21%  Similarity=0.228  Sum_probs=72.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCcc------ccceeeeEEEEEEEECCEEEEEEEecCCCcc--------cccccch
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSF------ITTIGIDFKIRTIELDGKRIKLQIWDTAGQE--------RFRTITT   82 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~--------~~~~~~~   82 (160)
                      =.+|+|++|+||||++... +-.++-..      ....+-+. ...+.+.+   +-+++|++|..        .....|.
T Consensus       113 WYlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~-~c~wwf~~---~avliDtaG~y~~~~~~~~~~~~~W~  187 (1169)
T TIGR03348       113 WYLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTR-NCDWWFTD---EAVLIDTAGRYTTQDSDPEEDAAAWL  187 (1169)
T ss_pred             CEEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCc-ccceEecC---CEEEEcCCCccccCCCcccccHHHHH
Confidence            3689999999999999877 33333211      01111111 12334444   45699999932        1222354


Q ss_pred             hhc---------cCCcEEEEEEECCCh-----hhH----HHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           83 AYY---------RGAMGILLVYDVTDE-----SSF----NNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        83 ~~~---------~~~~~~i~v~d~~~~-----~~~----~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .++         +-.|++|+++|+.+-     +..    ..++..+.++.+...-.+|++|+.||+|+.
T Consensus       188 ~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll  256 (1169)
T TIGR03348       188 GFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLL  256 (1169)
T ss_pred             HHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhh
Confidence            443         238999999999752     111    356667788888777799999999999974

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>cd01856 YlqF YlqF

Probab=98.71  E-value=5.9e-08  Score=65.77  Aligned_cols=57  Identities=23%  Similarity=0.288  Sum_probs=38.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      +..++++++|.+++|||||+|++.+..+.. ...+..+  .....+..+   ..+.+|||||.
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~T--~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVAKVGNKPGVT--KGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCceeecCCCCEE--eeeEEEEec---CCEEEEECCCC
Confidence            345799999999999999999999876532 1222222  222333333   25789999994

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.

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.69  E-value=3.9e-08  Score=71.99  Aligned_cols=87  Identities=18%  Similarity=0.201  Sum_probs=65.5

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCE---------------EEEEEEecCCCccc-
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGK---------------RIKLQIWDTAGQER-   76 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~D~~g~~~-   76 (160)
                      ...+++.++|.|++|||||+|.|++........|..+++.+...+...+.               ...++++|+.|--+ 
T Consensus        18 ~~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkG   97 (391)
T KOG1491|consen   18 GNNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKG   97 (391)
T ss_pred             CCcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccC
Confidence            36689999999999999999999998887777888888887776655332               24789999988322 


Q ss_pred             ---ccccch---hhccCCcEEEEEEECCC
Q 031411           77 ---FRTITT---AYYRGAMGILLVYDVTD   99 (160)
Q Consensus        77 ---~~~~~~---~~~~~~~~~i~v~d~~~   99 (160)
                         -..+-+   +.++.+|+++-|+++..
T Consensus        98 As~G~GLGN~FLs~iR~vDaifhVVr~f~  126 (391)
T KOG1491|consen   98 ASAGEGLGNKFLSHIRHVDAIFHVVRAFE  126 (391)
T ss_pred             cccCcCchHHHHHhhhhccceeEEEEecC
Confidence               222222   34678999999988754

>cd01859 MJ1464 MJ1464

Probab=98.68  E-value=7.4e-08  Score=64.22  Aligned_cols=56  Identities=21%  Similarity=0.247  Sum_probs=37.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      ...+++++|.+++||||+++++.+.... ...++.+..........++   .+.+|||||
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~~-~~~~~~~~t~~~~~~~~~~---~~~~~DtpG  155 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHSA-STSPSPGYTKGEQLVKITS---KIYLLDTPG  155 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcc-ccCCCCCeeeeeEEEEcCC---CEEEEECcC
Confidence            3468899999999999999999975432 2233333322222222333   588999998

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.

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=98.66  E-value=1e-07  Score=69.58  Aligned_cols=121  Identities=18%  Similarity=0.158  Sum_probs=79.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCc--ccccccc------hhh
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ--ERFRTIT------TAY   84 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~--~~~~~~~------~~~   84 (160)
                      ....-|.++|-+|+|||||++.|+............+++.+.......... .+.+-||.|=  +--..+.      -..
T Consensus       176 ~s~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg~-~vlltDTvGFisdLP~~LvaAF~ATLee  254 (410)
T KOG0410|consen  176 ESSPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSGN-FVLLTDTVGFISDLPIQLVAAFQATLEE  254 (410)
T ss_pred             CCCceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCCc-EEEEeechhhhhhCcHHHHHHHHHHHHH
Confidence            344689999999999999999999766666666677777776666664433 5778899881  1111111      123


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCC----CCcEEEEEeCCCCCC
Q 031411           85 YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD----NVNKILVGNKADMDE  134 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~----~~pi~vv~~K~Dl~~  134 (160)
                      +..+|+++.+.|++.|+.-+....-+..+.+..-.    ...++=|-||.|..+
T Consensus       255 VaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~  308 (410)
T KOG0410|consen  255 VAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEE  308 (410)
T ss_pred             HhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhcccccccc
Confidence            56799999999999987655554444444442111    123455678888743

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.66  E-value=8.8e-08  Score=69.78  Aligned_cols=57  Identities=25%  Similarity=0.344  Sum_probs=39.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      ...++++++|.+|+|||||+|+|.+.... ....+..+  .....+..+.   .+.++||||.
T Consensus       116 ~~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~~~g~T--~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       116 NRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVT--KGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccccCCCCCee--cceEEEEeCC---CEEEEECCCc
Confidence            34689999999999999999999976532 22222222  2233444433   4789999996

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.

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.66  E-value=2.7e-08  Score=72.39  Aligned_cols=134  Identities=17%  Similarity=0.134  Sum_probs=80.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCC---CCccccceeeeEEEE--------------------EEEEC----CEEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSF---TTSFITTIGIDFKIR--------------------TIELD----GKRIKL   66 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~---~~~~~~~~~~~~~~~--------------------~~~~~----~~~~~~   66 (160)
                      ..++|.++|.-..|||||...|++--.   .++..+..++...+.                    .+...    .-..++
T Consensus         9 p~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~V   88 (415)
T COG5257           9 PEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRRV   88 (415)
T ss_pred             cceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEEE
Confidence            469999999999999999999986322   222222222110000                    00001    112477


Q ss_pred             EEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcc-CCChhHHH
Q 031411           67 QIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR-EAPFCLHE  145 (160)
Q Consensus        67 ~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~-~~~~~~~~  145 (160)
                      .|.|.|||+-.-...-+...-.|++++++.++.+..-....+-+..+.-.  .-..++++.||.|+...++ ....++++
T Consensus        89 SfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi--gik~iiIvQNKIDlV~~E~AlE~y~qIk  166 (415)
T COG5257          89 SFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEII--GIKNIIIVQNKIDLVSRERALENYEQIK  166 (415)
T ss_pred             EEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh--ccceEEEEecccceecHHHHHHHHHHHH
Confidence            89999999754433333344579999999998754333333323333221  1347999999999964444 35567788


Q ss_pred             HHhh
Q 031411          146 TILL  149 (160)
Q Consensus       146 ~~~~  149 (160)
                      +|.+
T Consensus       167 ~Fvk  170 (415)
T COG5257         167 EFVK  170 (415)
T ss_pred             HHhc
Confidence            8765

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.65  E-value=1.2e-07  Score=69.43  Aligned_cols=57  Identities=28%  Similarity=0.358  Sum_probs=40.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      ...++++++|.+|+|||||+|.|.+... .....+..+..  ...+..+.   .+.++||||-
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~g~T~~--~~~~~~~~---~~~l~DtPGi  176 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKA--QQWIKLGK---GLELLDTPGI  176 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccccCCCCCeEEE--EEEEEeCC---cEEEEECCCc
Confidence            4568999999999999999999998654 22333333322  23344443   5789999996

>cd01855 YqeH YqeH

Probab=98.63  E-value=7.4e-08  Score=66.33  Aligned_cols=53  Identities=28%  Similarity=0.383  Sum_probs=35.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCC---------CCccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSF---------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      .+++++|.+|+|||||+|.|.+...         ..+..+.++  .....+..+.   .+.++||||
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT--~~~~~~~~~~---~~~~~DtPG  189 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTT--LDLIKIPLGN---GKKLYDTPG  189 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCee--eeeEEEecCC---CCEEEeCcC
Confidence            5899999999999999999997432         222223333  2233344433   478999998

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.

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.62  E-value=8e-07  Score=70.39  Aligned_cols=117  Identities=14%  Similarity=0.226  Sum_probs=70.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCc-ccccee------------------------------------------
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTS-FITTIG------------------------------------------   49 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~-~~~~~~------------------------------------------   49 (160)
                      +...||++.|..++||||++|.++..+.-++ ..+++.                                          
T Consensus       107 r~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~  186 (749)
T KOG0448|consen  107 RRHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDL  186 (749)
T ss_pred             hcccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCccccc
Confidence            4568999999999999999999975433211 001000                                          


Q ss_pred             eeEEEEEEEECCEE-----EEEEEecCCCcc---cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC
Q 031411           50 IDFKIRTIELDGKR-----IKLQIWDTAGQE---RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNV  121 (160)
Q Consensus        50 ~~~~~~~~~~~~~~-----~~~~~~D~~g~~---~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~  121 (160)
                      .......+.+++..     -.+.+.|.||-.   ........+..++|++|+|.++.+..+. .-++.+..+.+   ...
T Consensus       187 ~~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~-sek~Ff~~vs~---~Kp  262 (749)
T KOG0448|consen  187 GAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTL-SEKQFFHKVSE---EKP  262 (749)
T ss_pred             CcceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHH-HHHHHHHHhhc---cCC
Confidence            00001111111111     146688999943   4444556778899999999999654433 22334444433   345


Q ss_pred             cEEEEEeCCCCC
Q 031411          122 NKILVGNKADMD  133 (160)
Q Consensus       122 pi~vv~~K~Dl~  133 (160)
                      .|+++-||.|..
T Consensus       263 niFIlnnkwDas  274 (749)
T KOG0448|consen  263 NIFILNNKWDAS  274 (749)
T ss_pred             cEEEEechhhhh
Confidence            677888888986

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.61  E-value=1.2e-07  Score=70.49  Aligned_cols=58  Identities=28%  Similarity=0.341  Sum_probs=41.8

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      ....+++++|-|++||||+||+|.+.... ...+..+.+.....+..+.   .+.++||||.
T Consensus       130 ~~~~~v~vvG~PNVGKSslIN~L~~k~~~-~~s~~PG~Tk~~q~i~~~~---~i~LlDtPGi  187 (322)
T COG1161         130 KRKIRVGVVGYPNVGKSTLINRLLGKKVA-KTSNRPGTTKGIQWIKLDD---GIYLLDTPGI  187 (322)
T ss_pred             ccceEEEEEcCCCCcHHHHHHHHhcccce-eeCCCCceecceEEEEcCC---CeEEecCCCc
Confidence            44588999999999999999999986652 2222224444445555555   4789999994

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.58  E-value=3e-07  Score=73.48  Aligned_cols=118  Identities=23%  Similarity=0.225  Sum_probs=78.3

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCc--------------cccceeeeEEEEEEEECCEEEEEEEecCCCccc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTS--------------FITTIGIDFKIRTIELDGKRIKLQIWDTAGQER   76 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~   76 (160)
                      +....-+++++..-..|||||+..|...+..-+              ...+.++......+..-.+.+.++++|+|||-.
T Consensus         5 ~~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspghvd   84 (887)
T KOG0467|consen    5 GSEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGHVD   84 (887)
T ss_pred             CCCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCccc
Confidence            344567899999999999999999875332111              111222222222223333447899999999999


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           77 FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      |.....+..+-+|++++++|....-..+..    ..+.+..-.+...++++||+|.
T Consensus        85 f~sevssas~l~d~alvlvdvvegv~~qt~----~vlrq~~~~~~~~~lvinkidr  136 (887)
T KOG0467|consen   85 FSSEVSSASRLSDGALVLVDVVEGVCSQTY----AVLRQAWIEGLKPILVINKIDR  136 (887)
T ss_pred             hhhhhhhhhhhcCCcEEEEeeccccchhHH----HHHHHHHHccCceEEEEehhhh
Confidence            999999999999999999999764332222    1222222246667888899993

>TIGR00101 ureG urease accessory protein UreG

Probab=98.57  E-value=4.2e-07  Score=63.13  Aligned_cols=23  Identities=26%  Similarity=0.505  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +++.++|+.|+|||||++++.+.
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~   24 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRA   24 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999988753

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.54  E-value=4.9e-07  Score=67.26  Aligned_cols=60  Identities=22%  Similarity=0.164  Sum_probs=38.4

Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +.+.|.||+|..+....   ....+|.++++.+....+.+..+..-   +..     ..-++|.||+|+.+
T Consensus       149 ~d~viieT~Gv~qs~~~---i~~~aD~vlvv~~p~~gd~iq~~k~g---i~E-----~aDIiVVNKaDl~~  208 (332)
T PRK09435        149 YDVILVETVGVGQSETA---VAGMVDFFLLLQLPGAGDELQGIKKG---IME-----LADLIVINKADGDN  208 (332)
T ss_pred             CCEEEEECCCCccchhH---HHHhCCEEEEEecCCchHHHHHHHhh---hhh-----hhheEEeehhcccc
Confidence            57899999996533322   45679999999775445554443321   111     12378889999863

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.53  E-value=2.5e-06  Score=56.53  Aligned_cols=112  Identities=21%  Similarity=0.305  Sum_probs=67.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCC-Ccc-----------------
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTA-GQE-----------------   75 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~-g~~-----------------   75 (160)
                      ..+||.+-|+||+||||++.++.+..-... ..-  -.+.+..+..+++++-|.+.|+. |..                 
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g-~kv--gGf~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~   80 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLREKG-YKV--GGFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYG   80 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHhcC-cee--eeEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEE
Confidence            458999999999999999998875322111 111  23566777888888888888877 311                 


Q ss_pred             ----ccccc----chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 031411           76 ----RFRTI----TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD  131 (160)
Q Consensus        76 ----~~~~~----~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~D  131 (160)
                          .++..    ....++.+|+++  +|--.+..+. .++....+.....++.|++...++.+
T Consensus        81 V~v~~le~i~~~al~rA~~~aDvII--IDEIGpMElk-s~~f~~~ve~vl~~~kpliatlHrrs  141 (179)
T COG1618          81 VNVEGLEEIAIPALRRALEEADVII--IDEIGPMELK-SKKFREAVEEVLKSGKPLIATLHRRS  141 (179)
T ss_pred             eeHHHHHHHhHHHHHHHhhcCCEEE--Eecccchhhc-cHHHHHHHHHHhcCCCcEEEEEeccc
Confidence                01111    122345567665  5655544332 22344444555556778888777664

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.52  E-value=3.2e-07  Score=61.17  Aligned_cols=56  Identities=23%  Similarity=0.303  Sum_probs=37.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      ....+++++|.+++|||||+|.+.+... .....+..+....  .....   ..+.++||||
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~--~~~~~---~~~~liDtPG  154 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQ--EVKLD---NKIKLLDTPG  154 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceE--EEEec---CCEEEEECCC
Confidence            4568899999999999999999998653 2222222222222  22333   2588999998

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.

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=98.50  E-value=1.8e-07  Score=72.44  Aligned_cols=135  Identities=21%  Similarity=0.317  Sum_probs=98.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+|+.|+|..++|||+|+++++.+.|.+...+..+  .+.+++..++....+.+.|.+|..     -..+-..+|++||+
T Consensus        30 elk~givg~~~sgktalvhr~ltgty~~~e~~e~~--~~kkE~vv~gqs~lLlirdeg~~~-----~aQft~wvdavIfv  102 (749)
T KOG0705|consen   30 ELKLGIVGTSQSGKTALVHRYLTGTYTQDESPEGG--RFKKEVVVDGQSHLLLIRDEGGHP-----DAQFCQWVDAVVFV  102 (749)
T ss_pred             hhheeeeecccCCceeeeeeeccceeccccCCcCc--cceeeEEeeccceEeeeecccCCc-----hhhhhhhccceEEE
Confidence            48999999999999999999999988766444433  456677778888888899988742     23355679999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCC-ccCCChhHHHHHhhh-cceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDES-KREAPFCLHETILLT-VQVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~-~~~~~~~~~~~~~~~-~~~~~~  156 (160)
                      |...+..+|+.+......+..+. ...+|.++++++.-.... .+.+...++.+++.+ ..|.|+
T Consensus       103 f~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~  167 (749)
T KOG0705|consen  103 FSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYY  167 (749)
T ss_pred             EEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCcccee
Confidence            99999999999887777765432 357899999887665422 334444555555544 345554

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.50  E-value=1.1e-06  Score=66.49  Aligned_cols=111  Identities=23%  Similarity=0.173  Sum_probs=79.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC---CCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSF---TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      -|+-+|.-..|||||+..+.+...   +++.....+.+.....+...+  ..+.|.|.||++++-......+...|.+++
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d--~~~~fIDvpgh~~~i~~miag~~~~d~alL   79 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLED--GVMGFIDVPGHPDFISNLLAGLGGIDYALL   79 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCC--CceEEeeCCCcHHHHHHHHhhhcCCceEEE
Confidence            477889999999999999997543   355555566666555555555  378999999999887767777888999999


Q ss_pred             EEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           94 VYDVTD---ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        94 v~d~~~---~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      |+++++   +.+-|.+    . +..... ....++++||+|+.+.
T Consensus        80 vV~~deGl~~qtgEhL----~-iLdllg-i~~giivltk~D~~d~  118 (447)
T COG3276          80 VVAADEGLMAQTGEHL----L-ILDLLG-IKNGIIVLTKADRVDE  118 (447)
T ss_pred             EEeCccCcchhhHHHH----H-HHHhcC-CCceEEEEeccccccH
Confidence            999964   3333333    1 222222 3356899999999743

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=98.49  E-value=6.4e-07  Score=65.85  Aligned_cols=135  Identities=14%  Similarity=0.139  Sum_probs=88.2

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhc----------------CCCCCccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSD----------------GSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      ...+..++|.-+|.-..|||||-..+..                ++.+++..+  ++..+..++.+.-...++-=.|+||
T Consensus        49 ~R~KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaR--GITIn~aHveYeTa~RhYaH~DCPG  126 (449)
T KOG0460|consen   49 VRDKPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKAR--GITINAAHVEYETAKRHYAHTDCPG  126 (449)
T ss_pred             ccCCCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhc--cceEeeeeeeeeccccccccCCCCc
Confidence            3445679999999999999999766542                122233333  3456667777765556777899999


Q ss_pred             cccccccchhhccCCcEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccC--CChhHHHHHh
Q 031411           74 QERFRTITTAYYRGAMGILLVYDVTDE---SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRE--APFCLHETIL  148 (160)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~--~~~~~~~~~~  148 (160)
                      |..|-......-...|+.|+|+.++|.   .+-+.+   +  +.+... -..+++..||.|+.++...  ...-|++++.
T Consensus       127 HADYIKNMItGaaqMDGaILVVaatDG~MPQTrEHl---L--LArQVG-V~~ivvfiNKvD~V~d~e~leLVEmE~RElL  200 (449)
T KOG0460|consen  127 HADYIKNMITGAAQMDGAILVVAATDGPMPQTREHL---L--LARQVG-VKHIVVFINKVDLVDDPEMLELVEMEIRELL  200 (449)
T ss_pred             hHHHHHHhhcCccccCceEEEEEcCCCCCcchHHHH---H--HHHHcC-CceEEEEEecccccCCHHHHHHHHHHHHHHH
Confidence            988876666667789999999999984   333332   1  222112 2357777999999744332  2224466666


Q ss_pred             hhcc
Q 031411          149 LTVQ  152 (160)
Q Consensus       149 ~~~~  152 (160)
                      .+++
T Consensus       201 se~g  204 (449)
T KOG0460|consen  201 SEFG  204 (449)
T ss_pred             HHcC
Confidence            6654

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.46  E-value=6.3e-08  Score=72.90  Aligned_cols=126  Identities=17%  Similarity=0.181  Sum_probs=87.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC--------CCCCc--------cccceeeeEEEEEEEECCEEEEEEEecCCCccccc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDG--------SFTTS--------FITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR   78 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~--------~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~   78 (160)
                      .-+|.++..-.+||||.-++++..        .....        .....++......+.++=+.+++.++||||+..|.
T Consensus        37 irnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpghvdf~  116 (753)
T KOG0464|consen   37 IRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGHVDFR  116 (753)
T ss_pred             hhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCCcceEE
Confidence            358999999999999999988631        11100        11122234455555555455789999999999999


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHH
Q 031411           79 TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLH  144 (160)
Q Consensus        79 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~  144 (160)
                      -....+++-.|+++.|||++-...-+.+.-|-+    ....++|-....||+|.....-+...+.+
T Consensus       117 leverclrvldgavav~dasagve~qtltvwrq----adk~~ip~~~finkmdk~~anfe~avdsi  178 (753)
T KOG0464|consen  117 LEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQ----ADKFKIPAHCFINKMDKLAANFENAVDSI  178 (753)
T ss_pred             EEHHHHHHHhcCeEEEEeccCCcccceeeeehh----ccccCCchhhhhhhhhhhhhhhhhHHHHH
Confidence            989999999999999999987554455554543    33457899999999998644444333333

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.45  E-value=9.7e-07  Score=65.94  Aligned_cols=140  Identities=19%  Similarity=0.144  Sum_probs=84.0

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCcc--------------ccceeeeEEEEEEEECCEE-----------
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSF--------------ITTIGIDFKIRTIELDGKR-----------   63 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~-----------   63 (160)
                      .+..+..+.+..+|.-+.|||||.-.|..+..+...              .+..+-+.....+.+++.+           
T Consensus       111 ~~~~~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~a  190 (527)
T COG5258         111 TEEAPEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEA  190 (527)
T ss_pred             ccCCCceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHH
Confidence            445677899999999999999999988765443221              1111112222333333221           


Q ss_pred             ----------EEEEEecCCCcccccccch--hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 031411           64 ----------IKLQIWDTAGQERFRTITT--AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD  131 (160)
Q Consensus        64 ----------~~~~~~D~~g~~~~~~~~~--~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~D  131 (160)
                                --+.|.|+.||+.|-+...  ..-...|..++++.+++..+.-. ++-+.-+.   .-.+|++++.||+|
T Consensus       191 E~~~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~t-kEHLgi~~---a~~lPviVvvTK~D  266 (527)
T COG5258         191 EKAAVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMT-KEHLGIAL---AMELPVIVVVTKID  266 (527)
T ss_pred             HHhHhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhh-hHhhhhhh---hhcCCEEEEEEecc
Confidence                      1456899999998865433  33357899999999887543211 11111111   12789999999999


Q ss_pred             CCCCcc-CCChhHHHHHhhhcc
Q 031411          132 MDESKR-EAPFCLHETILLTVQ  152 (160)
Q Consensus       132 l~~~~~-~~~~~~~~~~~~~~~  152 (160)
                      +.++++ .-..+++.++.+..+
T Consensus       267 ~~~ddr~~~v~~ei~~~Lk~v~  288 (527)
T COG5258         267 MVPDDRFQGVVEEISALLKRVG  288 (527)
T ss_pred             cCcHHHHHHHHHHHHHHHHHhc
Confidence            975443 333345555544433

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.45  E-value=8.2e-07  Score=63.60  Aligned_cols=115  Identities=22%  Similarity=0.213  Sum_probs=68.9

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCcccc-ceeeeEEEEEEEECCEEEEEEEecCCC----------ccccc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFIT-TIGIDFKIRTIELDGKRIKLQIWDTAG----------QERFR   78 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~D~~g----------~~~~~   78 (160)
                      .+.+.+.+++++|.+++|||+|+|.+........... ..+.......+.++.   .+.+.|.||          ...+.
T Consensus       131 ~Pk~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v~~---~~~~vDlPG~~~a~y~~~~~~d~~  207 (320)
T KOG2486|consen  131 CPKDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHVGK---SWYEVDLPGYGRAGYGFELPADWD  207 (320)
T ss_pred             CCCCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeeccc---eEEEEecCCcccccCCccCcchHh
Confidence            3456678999999999999999999987554322222 223223333444444   688999999          12333


Q ss_pred             ccchhhccC---CcEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           79 TITTAYYRG---AMGILLVYDVTDES--SFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        79 ~~~~~~~~~---~~~~i~v~d~~~~~--~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .+...++.+   .--+.+++|++-+-  .-.....|+.      ..++|.-+|.||+|..
T Consensus       208 ~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~g------e~~VP~t~vfTK~DK~  261 (320)
T KOG2486|consen  208 KFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLG------ENNVPMTSVFTKCDKQ  261 (320)
T ss_pred             HhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHh------hcCCCeEEeeehhhhh
Confidence            334444322   23445566665421  1112223332      2489999999999963

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.43  E-value=6.6e-07  Score=64.17  Aligned_cols=62  Identities=24%  Similarity=0.442  Sum_probs=45.7

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccc----cceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFI----TTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      +-..++|+.+|.+|.|||||+++|.+-.+...+.    ++..+......+.-.+-++.+++.||.|
T Consensus        39 ~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvG  104 (406)
T KOG3859|consen   39 QGFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVG  104 (406)
T ss_pred             cCceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecc
Confidence            4467999999999999999999999987764322    2333333334444466678999999999

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

Probab=98.43  E-value=1e-05  Score=57.26  Aligned_cols=86  Identities=19%  Similarity=0.124  Sum_probs=52.8

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC--CCCCc---cccceeeeEEEEEEEEC-CEEEEEEEecCCCcccccc------c
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG--SFTTS---FITTIGIDFKIRTIELD-GKRIKLQIWDTAGQERFRT------I   80 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~--~~~~~---~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~~------~   80 (160)
                      ....-|.++|++++|||+|+|.|.+.  .+...   ...|.+  .+....... +....+.++||+|-.....      .
T Consensus         5 ~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~g--i~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~   82 (224)
T cd01851           5 FPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKG--IWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDA   82 (224)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccc--eEEEeccccCCCcceEEEEecCCcCccccCchhhhh
Confidence            34567999999999999999999987  55422   122233  232222221 2236899999999543222      1


Q ss_pred             chhhccC--CcEEEEEEECCCh
Q 031411           81 TTAYYRG--AMGILLVYDVTDE  100 (160)
Q Consensus        81 ~~~~~~~--~~~~i~v~d~~~~  100 (160)
                      ....+..  ++++|+..+....
T Consensus        83 ~~~~l~~llss~~i~n~~~~~~  104 (224)
T cd01851          83 RLFALATLLSSVLIYNSWETIL  104 (224)
T ss_pred             HHHHHHHHHhCEEEEeccCccc
Confidence            2222333  7788877776643

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.42  E-value=2.1e-06  Score=59.93  Aligned_cols=24  Identities=29%  Similarity=0.504  Sum_probs=21.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ....|.++|..|+|||||++++..
T Consensus        21 ~~~~i~~~G~~gsGKTTli~~l~~   44 (207)
T TIGR00073        21 GLVVLNFMSSPGSGKTTLIEKLID   44 (207)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999875

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.42  E-value=8.7e-07  Score=66.03  Aligned_cols=141  Identities=16%  Similarity=0.205  Sum_probs=82.2

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccc-----------------------cceeeeEEEEEEEECC-----
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFI-----------------------TTIGIDFKIRTIELDG-----   61 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~-----------------------~~~~~~~~~~~~~~~~-----   61 (160)
                      ..+--.+++.++|...+|||||+-.|..+..+....                       ...+++.....+.+++     
T Consensus       162 ~QqfievRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taE  241 (591)
T KOG1143|consen  162 SQQFIEVRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAE  241 (591)
T ss_pred             cccceEEEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHH
Confidence            444567999999999999999999887654432200                       0011111111111111     


Q ss_pred             -----EEEEEEEecCCCcccccccchhhccC--CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           62 -----KRIKLQIWDTAGQERFRTITTAYYRG--AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        62 -----~~~~~~~~D~~g~~~~~~~~~~~~~~--~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                           .+--++|+|+.|+.+|.......+.+  .|..++++++...-.. ..++-+..+..   -++|++++.+|+|+..
T Consensus       242 Ei~e~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~-tTrEHLgl~~A---L~iPfFvlvtK~Dl~~  317 (591)
T KOG1143|consen  242 EIVEKSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITW-TTREHLGLIAA---LNIPFFVLVTKMDLVD  317 (591)
T ss_pred             HHHhhhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcc-ccHHHHHHHHH---hCCCeEEEEEeecccc
Confidence                 11257899999999987766555543  5788888888653221 11111122222   2889999999999963


Q ss_pred             Cc-cCCChhHHHHHhhhcceE
Q 031411          135 SK-REAPFCLHETILLTVQVH  154 (160)
Q Consensus       135 ~~-~~~~~~~~~~~~~~~~~~  154 (160)
                      .. ......+...+....+|.
T Consensus       318 ~~~~~~tv~~l~nll~~~Gc~  338 (591)
T KOG1143|consen  318 RQGLKKTVKDLSNLLAKAGCT  338 (591)
T ss_pred             chhHHHHHHHHHHHHhhcCcc
Confidence            32 234445555555555554

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=98.38  E-value=6.5e-07  Score=63.69  Aligned_cols=72  Identities=18%  Similarity=0.314  Sum_probs=52.4

Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCCh-------hhHHHHHH---HHHHHHHhc-CCCCcEEEEEeCC
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDE-------SSFNNIRN---WIRNIEQHA-SDNVNKILVGNKA  130 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~-------~~~~~~~~---~~~~~~~~~-~~~~pi~vv~~K~  130 (160)
                      ..+.|.++|.+||..-..-|...+.++-++++|+..+..       .+-.++.+   .+..+.++. -..+.+++..||.
T Consensus       200 dkv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKq  279 (379)
T KOG0099|consen  200 DKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQ  279 (379)
T ss_pred             cccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHH
Confidence            347899999999998899999999999999999988652       12223333   333343322 2467899999999


Q ss_pred             CCC
Q 031411          131 DMD  133 (160)
Q Consensus       131 Dl~  133 (160)
                      |+-
T Consensus       280 Dll  282 (379)
T KOG0099|consen  280 DLL  282 (379)
T ss_pred             HHH
Confidence            974

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

Probab=98.37  E-value=4.9e-07  Score=60.36  Aligned_cols=23  Identities=39%  Similarity=0.550  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.++++|++|||||||+|.|...
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            37899999999999999999975

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.

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=98.35  E-value=1e-07  Score=66.62  Aligned_cols=74  Identities=22%  Similarity=0.295  Sum_probs=49.0

Q ss_pred             CCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHHhcC-CCCcEEEEEe
Q 031411           60 DGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTD----------ESSFNNIRNWIRNIEQHAS-DNVNKILVGN  128 (160)
Q Consensus        60 ~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~  128 (160)
                      +-..+.|.+.|.+|+..-...|..+++++-.+++++..+.          +...++-+..+..+..+.. .+.++++..|
T Consensus       195 dl~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLN  274 (359)
T KOG0085|consen  195 DLQKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLN  274 (359)
T ss_pred             chhhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEec
Confidence            3344667789999988777788888887766666555442          2233333445555544432 4779999999


Q ss_pred             CCCCC
Q 031411          129 KADMD  133 (160)
Q Consensus       129 K~Dl~  133 (160)
                      |.|+.
T Consensus       275 KkDlL  279 (359)
T KOG0085|consen  275 KKDLL  279 (359)
T ss_pred             hhhhh
Confidence            99974

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.34  E-value=3.1e-06  Score=66.23  Aligned_cols=113  Identities=15%  Similarity=0.176  Sum_probs=70.8

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ..+.+..+=+.++|++|+||||||..|...-.........+     ....+.++..+++|.++|.  ....+. ...+-+
T Consensus        63 p~d~PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~G-----PiTvvsgK~RRiTflEcp~--Dl~~mi-DvaKIa  134 (1077)
T COG5192          63 PKDLPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRG-----PITVVSGKTRRITFLECPS--DLHQMI-DVAKIA  134 (1077)
T ss_pred             cccCCCCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCC-----ceEEeecceeEEEEEeChH--HHHHHH-hHHHhh
Confidence            34555667888999999999999998886433222111111     1123356667899999983  233322 344668


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCC
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMD  133 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~  133 (160)
                      |++++++|.+-.-..+.+ ++++-+..+   +.| ++-|+|..|+.
T Consensus       135 DLVlLlIdgnfGfEMETm-EFLnil~~H---GmPrvlgV~ThlDlf  176 (1077)
T COG5192         135 DLVLLLIDGNFGFEMETM-EFLNILISH---GMPRVLGVVTHLDLF  176 (1077)
T ss_pred             heeEEEeccccCceehHH-HHHHHHhhc---CCCceEEEEeecccc
Confidence            999999999754333332 344444433   444 56678999996

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.34  E-value=3.7e-06  Score=56.28  Aligned_cols=21  Identities=33%  Similarity=0.400  Sum_probs=18.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      +++.|..|+|||||++++...
T Consensus         3 ~~l~G~~GsGKTtl~~~l~~~   23 (158)
T cd03112           3 TVLTGFLGAGKTTLLNHILTE   23 (158)
T ss_pred             EEEEECCCCCHHHHHHHHHhc
Confidence            679999999999999988764

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=98.33  E-value=1.1e-05  Score=62.97  Aligned_cols=81  Identities=22%  Similarity=0.306  Sum_probs=52.5

Q ss_pred             EEEEEecCCCc-------------ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHH-HHHhcCCCCcEEEEEeC
Q 031411           64 IKLQIWDTAGQ-------------ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRN-IEQHASDNVNKILVGNK  129 (160)
Q Consensus        64 ~~~~~~D~~g~-------------~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~-~~~~~~~~~pi~vv~~K  129 (160)
                      -+..+.|+||.             +..-.+...++.+.+++|+|+.-..   .+.-+..... +.+..+.+..-|+|.||
T Consensus       412 qRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGS---VDAERSnVTDLVsq~DP~GrRTIfVLTK  488 (980)
T KOG0447|consen  412 QRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGS---VDAERSIVTDLVSQMDPHGRRTIFVLTK  488 (980)
T ss_pred             ceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCC---cchhhhhHHHHHHhcCCCCCeeEEEEee
Confidence            36789999992             2344556788999999999996543   2222222222 34455667788999999


Q ss_pred             CCCCCCccCCChhHHHHHh
Q 031411          130 ADMDESKREAPFCLHETIL  148 (160)
Q Consensus       130 ~Dl~~~~~~~~~~~~~~~~  148 (160)
                      .|+.+ ......+.++++.
T Consensus       489 VDlAE-knlA~PdRI~kIl  506 (980)
T KOG0447|consen  489 VDLAE-KNVASPSRIQQII  506 (980)
T ss_pred             cchhh-hccCCHHHHHHHH
Confidence            99973 3344555555554

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.31  E-value=1.7e-06  Score=65.39  Aligned_cols=55  Identities=29%  Similarity=0.397  Sum_probs=36.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCC------CCccccceeeeEEEEEEEECCEEEEEEEecCCCcc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSF------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE   75 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~   75 (160)
                      .++.++|.+|+|||||+|.|.+...      ..+..+..+.+  ...+..++   .+.++||||-.
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~--~~~~~~~~---~~~l~DtPG~~  215 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLD--LIEIPLDD---GHSLYDTPGII  215 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEee--EEEEEeCC---CCEEEECCCCC
Confidence            4899999999999999999997432      22233333322  23344433   35799999943

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.30  E-value=6.5e-06  Score=60.74  Aligned_cols=61  Identities=18%  Similarity=0.139  Sum_probs=37.6

Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      +.+.|.||+|.....   ...+..+|.++++....   +-+.+......+.     ..|.++++||+|+.+.
T Consensus       127 ~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~~---~~~el~~~~~~l~-----~~~~ivv~NK~Dl~~~  187 (300)
T TIGR00750       127 YDVIIVETVGVGQSE---VDIANMADTFVVVTIPG---TGDDLQGIKAGLM-----EIADIYVVNKADGEGA  187 (300)
T ss_pred             CCEEEEeCCCCchhh---hHHHHhhceEEEEecCC---ccHHHHHHHHHHh-----hhccEEEEEcccccch
Confidence            678899999853222   23456678888775443   2233333333332     5677999999999743

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.28  E-value=2.1e-06  Score=64.40  Aligned_cols=23  Identities=35%  Similarity=0.554  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++|+|.+|+|||||+|+|+...
T Consensus       207 i~~~vG~sgVGKSTLiN~Ll~~~  229 (347)
T PRK12288        207 ISIFVGQSGVGKSSLINALLPEA  229 (347)
T ss_pred             CEEEECCCCCCHHHHHHHhcccc
Confidence            37899999999999999999753

>PRK13796 GTPase YqeH; Provisional

Probab=98.26  E-value=1.8e-06  Score=65.37  Aligned_cols=54  Identities=28%  Similarity=0.316  Sum_probs=35.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC------CccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT------TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      .++.++|.+|+|||||||+|......      .+..+.++  .....+..++.   ..++||||-
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT--~~~~~~~l~~~---~~l~DTPGi  220 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTT--LDKIEIPLDDG---SFLYDTPGI  220 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCcc--ceeEEEEcCCC---cEEEECCCc
Confidence            47999999999999999999854311      12223333  22334444432   479999994

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.23  E-value=2.9e-06  Score=71.74  Aligned_cols=111  Identities=23%  Similarity=0.259  Sum_probs=68.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC-CCCCc----cccceeeeEEEEEEEECCEEEEEEEecCCCcc--------cccccchhh
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG-SFTTS----FITTIGIDFKIRTIELDGKRIKLQIWDTAGQE--------RFRTITTAY   84 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~--------~~~~~~~~~   84 (160)
                      .+|+|++|+||||++..---+ .+...    .....+  .....+.+.+   +-.++||.|..        .....|..+
T Consensus       128 y~viG~pgsGKTtal~~sgl~Fpl~~~~~~~~~~~~g--T~~cdwwf~d---eaVlIDtaGry~~q~s~~~~~~~~W~~f  202 (1188)
T COG3523         128 YMVIGPPGSGKTTALLNSGLQFPLAEQMGALGLAGPG--TRNCDWWFTD---EAVLIDTAGRYITQDSADEVDRAEWLGF  202 (1188)
T ss_pred             eEEecCCCCCcchHHhcccccCcchhhhccccccCCC--CcccCccccc---ceEEEcCCcceecccCcchhhHHHHHHH
Confidence            589999999999998644321 11111    011111  1112244444   46789999932        122234333


Q ss_pred             ---------ccCCcEEEEEEECCCh-----hh----HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           85 ---------YRGAMGILLVYDVTDE-----SS----FNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        85 ---------~~~~~~~i~v~d~~~~-----~~----~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                               .+-.|++|+.+|+.+-     ..    ...++.-++++.....-..|++|++||.|+.
T Consensus       203 L~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll  269 (1188)
T COG3523         203 LGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLL  269 (1188)
T ss_pred             HHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEeccccc
Confidence                     2457999999999751     11    2345667788877777789999999999985

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.20  E-value=3.6e-06  Score=60.34  Aligned_cols=23  Identities=35%  Similarity=0.508  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|.+|+|||||+|.|....
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~~  144 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPSV  144 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhh
Confidence            78999999999999999999753

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

>PRK12289 GTPase RsgA; Reviewed

Probab=98.19  E-value=3.2e-06  Score=63.51  Aligned_cols=23  Identities=39%  Similarity=0.533  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++|+|++|+|||||||.|....
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~  196 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDV  196 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCcc
Confidence            37999999999999999999643

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=98.17  E-value=1.3e-05  Score=54.25  Aligned_cols=108  Identities=24%  Similarity=0.354  Sum_probs=55.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecC-CCcc---------------c----
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT-AGQE---------------R----   76 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~-~g~~---------------~----   76 (160)
                      ||++.|++|+||||+++++....-. ...+..+  +.+..+..++.+.-|.+.|. .|..               +    
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~-~~~~v~G--f~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~   77 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKK-KGLPVGG--FYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVD   77 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHH-TCGGEEE--EEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhc-cCCccce--EEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEc
Confidence            6899999999999999998863211 1112222  44455556666666777776 3311               0    


Q ss_pred             ---cccc----chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 031411           77 ---FRTI----TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA  130 (160)
Q Consensus        77 ---~~~~----~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~  130 (160)
                         +...    ....+..++  ++++|--.+..+ ....|.+.+.....++.|++.+..+.
T Consensus        78 ~e~fe~~~~~~L~~~~~~~~--liviDEIG~mEl-~~~~F~~~v~~~l~s~~~vi~vv~~~  135 (168)
T PF03266_consen   78 LESFEEIGLPALRNALSSSD--LIVIDEIGKMEL-KSPGFREAVEKLLDSNKPVIGVVHKR  135 (168)
T ss_dssp             HHHHHCCCCCCCHHHHHCCH--EEEE---STTCC-C-CHHHHHHHHHHCTTSEEEEE--SS
T ss_pred             HHHHHHHHHHHHHhhcCCCC--EEEEeccchhhh-cCHHHHHHHHHHHcCCCcEEEEEecC
Confidence               1111    111123445  566776543221 12234555555445678888887766

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.

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.13  E-value=1.5e-05  Score=56.81  Aligned_cols=92  Identities=23%  Similarity=0.196  Sum_probs=60.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc-------ccccchhhccC
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER-------FRTITTAYYRG   87 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~-------~~~~~~~~~~~   87 (160)
                      ..++.++|-|++||||++..+.+-..+.......++........+++  -.+++.|+||.-.       -..+..+..+-
T Consensus        59 ~a~vg~vgFPSvGksTl~~~l~g~~s~vasyefttl~~vpG~~~y~g--aKiqlldlpgiiegakdgkgrg~qviavart  136 (358)
T KOG1487|consen   59 DARVGFVGFPSVGKSTLLSKLTGTFSEVAAYEFTTLTTVPGVIRYKG--AKIQLLDLPGIIEGAKDGKGRGKQVIAVART  136 (358)
T ss_pred             ceeeeEEecCccchhhhhhhhcCCCCccccccceeEEEecceEeccc--cceeeecCcchhcccccCCCCccEEEEEeec
Confidence            35899999999999999999987544322222222222222333444  4688999999311       11223445577


Q ss_pred             CcEEEEEEECCChhhHHHHHH
Q 031411           88 AMGILLVYDVTDESSFNNIRN  108 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~  108 (160)
                      |+++++|.|...|-+...+.+
T Consensus       137 cnli~~vld~~kp~~hk~~ie  157 (358)
T KOG1487|consen  137 CNLIFIVLDVLKPLSHKKIIE  157 (358)
T ss_pred             ccEEEEEeeccCcccHHHHHH
Confidence            999999999999888766543

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.05  E-value=8.1e-06  Score=64.16  Aligned_cols=115  Identities=20%  Similarity=0.137  Sum_probs=77.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCC-----CCc-------------cccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSF-----TTS-------------FITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~-----~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      +..-+|.+.-.-.+||||+-++++....     .+.             .....++..-...+.+.  .++++++|||||
T Consensus        37 ~k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~--~~~iNiIDTPGH  114 (721)
T KOG0465|consen   37 NKIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWR--DYRINIIDTPGH  114 (721)
T ss_pred             hhhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeec--cceeEEecCCCc
Confidence            3456889999999999999998874211     111             11112221111122222  578999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      -.+.-.....++-.|++++++++-..-.-+...-|.+.- +   -++|.+...||+|.-
T Consensus       115 vDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ~~-r---y~vP~i~FiNKmDRm  169 (721)
T KOG0465|consen  115 VDFTFEVERALRVLDGAVLVLDAVAGVESQTETVWRQMK-R---YNVPRICFINKMDRM  169 (721)
T ss_pred             eeEEEEehhhhhhccCeEEEEEcccceehhhHHHHHHHH-h---cCCCeEEEEehhhhc
Confidence            999988899999999999999987643333444444332 2   378999999999975

>PRK00098 GTPase RsgA; Reviewed

Probab=98.05  E-value=1.1e-05  Score=59.55  Aligned_cols=24  Identities=42%  Similarity=0.499  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      ..++++|++|+|||||+|.|.+..
T Consensus       165 k~~~~~G~sgvGKStlin~l~~~~  188 (298)
T PRK00098        165 KVTVLAGQSGVGKSTLLNALAPDL  188 (298)
T ss_pred             ceEEEECCCCCCHHHHHHHHhCCc
Confidence            368999999999999999998754

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=98.05  E-value=1.1e-05  Score=62.26  Aligned_cols=60  Identities=22%  Similarity=0.253  Sum_probs=41.6

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      ..+...+.|.++|-|||||||+||.|.+.+.. .+..|..+.++.  .+....   .+.+.|+||-
T Consensus       309 ~~~~~~vtVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKHFQ--Ti~ls~---~v~LCDCPGL  369 (562)
T KOG1424|consen  309 ERYKDVVTVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKHFQ--TIFLSP---SVCLCDCPGL  369 (562)
T ss_pred             cCCCceeEEEeecCCCCchhHHHHHHhcCceeeeecCCCCcceeE--EEEcCC---CceecCCCCc
Confidence            33444899999999999999999999987643 334444443333  333333   4678999993

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.03  E-value=1.3e-05  Score=58.86  Aligned_cols=60  Identities=27%  Similarity=0.253  Sum_probs=35.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCcc-cc-----ceeeeEEEEEEEECCEEEEEEEecCCCccccc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSF-IT-----TIGIDFKIRTIELDGKRIKLQIWDTAGQERFR   78 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~-~~-----~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~   78 (160)
                      -.++++|++|+|||||+|.|.+....... .+     ..........+...+.   ..++|+||...+.
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~---~~liDtPG~~~~~  227 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG---GLLIDTPGFREFG  227 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC---CEEEECCCCCccC
Confidence            47999999999999999999975432111 00     0011112223333321   2589999975543

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.02  E-value=1e-05  Score=58.93  Aligned_cols=59  Identities=25%  Similarity=0.268  Sum_probs=34.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC------CCccccceeeeEEEEEEEECCEEEEEEEecCCCccccc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSF------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR   78 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~   78 (160)
                      ..+++|++|+|||||+|+|.....      .+........+.....+.+++..   .+.||||-..+.
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG---~iiDTPGf~~~~  230 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGG---WIIDTPGFRSLG  230 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCC---EEEeCCCCCccC
Confidence            678999999999999999985221      11111111112233344443211   579999965443

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.97  E-value=2e-05  Score=57.86  Aligned_cols=48  Identities=13%  Similarity=0.210  Sum_probs=40.4

Q ss_pred             hccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           84 YYRGAMGILLVYDVTDES-SFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+.++|.+++|+|+.++. ++..+.+|+..+..   .++|+++++||+||.+
T Consensus        75 i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~~  123 (287)
T cd01854          75 IAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLLD  123 (287)
T ss_pred             EEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCCC
Confidence            378899999999999887 88888888876654   3689999999999963

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.

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.97  E-value=9.4e-05  Score=52.64  Aligned_cols=114  Identities=20%  Similarity=0.321  Sum_probs=67.5

Q ss_pred             eEEEEEEcCCCC--CHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEE----EEEEecCCCcccccccchhhccCC
Q 031411           15 LIKLLLIGDSGV--GKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRI----KLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus        15 ~~~i~v~G~~~~--GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      +..++++|-.|+  ||.+++.+|....+..+..+.....+  ..++++++-+    .+.+.-.-  +.+-........-.
T Consensus         4 rp~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~--hgwtid~kyysadi~lcishic--de~~lpn~~~a~pl   79 (418)
T KOG4273|consen    4 RPCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEF--HGWTIDNKYYSADINLCISHIC--DEKFLPNAEIAEPL   79 (418)
T ss_pred             CceEEEecccccccchHHHHHHhcchhheeeccccCceee--eceEecceeeecceeEEeeccc--chhccCCcccccce
Confidence            347899999998  99999999998877655444433222  2334443211    22221110  00110111112345


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+++.+||.+....+..+..|+....-..- + -.+.++||.|..+
T Consensus        80 ~a~vmvfdlse~s~l~alqdwl~htdinsf-d-illcignkvdrvp  123 (418)
T KOG4273|consen   80 QAFVMVFDLSEKSGLDALQDWLPHTDINSF-D-ILLCIGNKVDRVP  123 (418)
T ss_pred             eeEEEEEeccchhhhHHHHhhccccccccc-h-hheeccccccccc
Confidence            688999999999999999999875433211 1 2455689998643

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.92  E-value=0.00011  Score=56.66  Aligned_cols=22  Identities=18%  Similarity=0.388  Sum_probs=19.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHh
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~   36 (160)
                      ..-|+++|++|+||||++..|.
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA  121 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLA  121 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            3578999999999999998885

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK13695 putative NTPase; Provisional

Probab=97.91  E-value=0.00015  Score=49.15  Aligned_cols=22  Identities=36%  Similarity=0.768  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +++++.|++|+|||||+..+.+
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998654

>cd01855 YqeH YqeH

Probab=97.91  E-value=3.5e-05  Score=53.03  Aligned_cols=52  Identities=23%  Similarity=0.243  Sum_probs=37.0

Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           77 FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +..++..+++++|++++|+|+.++..     .|...+.... .+.|+++|+||+|+.+
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~~-~~~~~ilV~NK~Dl~~   75 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLFG-GNNPVILVGNKIDLLP   75 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHhc-CCCcEEEEEEchhcCC
Confidence            46667788899999999999987531     1222232222 3679999999999963

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.

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.89  E-value=0.00013  Score=54.25  Aligned_cols=22  Identities=36%  Similarity=0.434  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      =.++.|.-|+|||||+++++..
T Consensus         6 v~iltGFLGaGKTTll~~ll~~   27 (318)
T PRK11537          6 VTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc
Confidence            4678899999999999999853

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.88  E-value=8.6e-05  Score=40.59  Aligned_cols=43  Identities=28%  Similarity=0.322  Sum_probs=30.0

Q ss_pred             CcEEEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 031411           88 AMGILLVYDVTDE--SSFNNIRNWIRNIEQHASDNVNKILVGNKAD  131 (160)
Q Consensus        88 ~~~~i~v~d~~~~--~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~D  131 (160)
                      .+++++++|.+..  .+++.-...+.++..... +.|+++|.||+|
T Consensus        14 ~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~-~~P~i~V~nK~D   58 (58)
T PF06858_consen   14 ADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFP-NKPVIVVLNKID   58 (58)
T ss_dssp             -SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTT-TS-EEEEE--TT
T ss_pred             cceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcC-CCCEEEEEeccC
Confidence            5789999999874  556777778888888776 789999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=97.87  E-value=0.00045  Score=52.81  Aligned_cols=138  Identities=20%  Similarity=0.199  Sum_probs=76.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCC--------------CCccccceee----------eEEEEEEEE-CCEEEEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSF--------------TTSFITTIGI----------DFKIRTIEL-DGKRIKLQI   68 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~--------------~~~~~~~~~~----------~~~~~~~~~-~~~~~~~~~   68 (160)
                      ..+-|.++||-.+||||||.|+..-..              ++-+.+..+.          .-....+.. ++-.+++.+
T Consensus        16 GdIYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRL   95 (492)
T PF09547_consen   16 GDIYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRL   95 (492)
T ss_pred             CceEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEE
Confidence            447899999999999999999975211              0111111111          112234444 456788999


Q ss_pred             ecCCC--------c-----cc-ccccch--------h-------hcc--CCcEEEEEEECCC----hhhHHHHH-HHHHH
Q 031411           69 WDTAG--------Q-----ER-FRTITT--------A-------YYR--GAMGILLVYDVTD----ESSFNNIR-NWIRN  112 (160)
Q Consensus        69 ~D~~g--------~-----~~-~~~~~~--------~-------~~~--~~~~~i~v~d~~~----~~~~~~~~-~~~~~  112 (160)
                      .|+.|        +     ++ ....|.        +       .+.  ..-++++.-|.+-    ++++.... +.+.+
T Consensus        96 iDCVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~E  175 (492)
T PF09547_consen   96 IDCVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEE  175 (492)
T ss_pred             EeecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHH
Confidence            99988        0     00 111111        0       011  1235555555542    34443332 34444


Q ss_pred             HHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411          113 IEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus       113 ~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +..   -+.|++++.|-.+=   ..+...+-+.++..+|++..+.
T Consensus       176 Lk~---igKPFvillNs~~P---~s~et~~L~~eL~ekY~vpVlp  214 (492)
T PF09547_consen  176 LKE---IGKPFVILLNSTKP---YSEETQELAEELEEKYDVPVLP  214 (492)
T ss_pred             HHH---hCCCEEEEEeCCCC---CCHHHHHHHHHHHHHhCCcEEE
Confidence            444   37799999997762   3444555567777777766543

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>cd01859 MJ1464 MJ1464

Probab=97.84  E-value=1.7e-05  Score=52.76  Aligned_cols=53  Identities=21%  Similarity=0.221  Sum_probs=35.4

Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           77 FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      |..++...++++|++++|+|++++..... ..+...+.   ..+.|+++++||+|+.
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~---~~~~p~iiv~NK~Dl~   54 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVL---ELGKKLLIVLNKADLV   54 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHH---hCCCcEEEEEEhHHhC
Confidence            34556677788999999999987543222 11222121   2367999999999985

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=97.83  E-value=6.7e-05  Score=49.13  Aligned_cols=71  Identities=13%  Similarity=0.123  Sum_probs=44.2

Q ss_pred             hhhccCCcEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc--ceEEEE
Q 031411           82 TAYYRGAMGILLVYDVTDESSFN--NIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTV--QVHLVI  157 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~~~~~~--~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~  157 (160)
                      ...++++|++++++|+.++.+..  .+.+|+...   . .+.|+++++||+|+.++.   ...+..++..+.  .+.++|
T Consensus         6 ~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~-~~k~~iivlNK~DL~~~~---~~~~~~~~~~~~~~~ii~iS   78 (141)
T cd01857           6 WRVVERSDIVVQIVDARNPLLFRPPDLERYVKEV---D-PRKKNILLLNKADLLTEE---QRKAWAEYFKKEGIVVVFFS   78 (141)
T ss_pred             HHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc---c-CCCcEEEEEechhcCCHH---HHHHHHHHHHhcCCeEEEEE
Confidence            34678999999999998875533  444444432   1 367999999999995322   122333444333  345555


Q ss_pred             ee
Q 031411          158 LK  159 (160)
Q Consensus       158 ~k  159 (160)
                      ++
T Consensus        79 a~   80 (141)
T cd01857          79 AL   80 (141)
T ss_pred             ec
Confidence            53

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=97.82  E-value=4.3e-05  Score=56.36  Aligned_cols=46  Identities=17%  Similarity=0.256  Sum_probs=36.2

Q ss_pred             ccCCcEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           85 YRGAMGILLVYDVTDESSFNN-IRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ..++|++++|+|+.++..... +.+|+..+..   .++|+++++||+|+.
T Consensus        78 aaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~  124 (298)
T PRK00098         78 AANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLL  124 (298)
T ss_pred             eecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcC
Confidence            589999999999988765444 4667666543   478999999999995

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.81  E-value=3.8e-05  Score=58.09  Aligned_cols=78  Identities=19%  Similarity=0.214  Sum_probs=51.4

Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHH----Hhh
Q 031411           74 QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHET----ILL  149 (160)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~----~~~  149 (160)
                      .+.+..+...+.++++++++|+|+.+..     ..|...+.++.. +.|+++|+||+|+.+.  .+..+++++    +++
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~~-~~piilV~NK~DLl~k--~~~~~~~~~~l~~~~k  121 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFVG-GNPVLLVGNKIDLLPK--SVNLSKIKEWMKKRAK  121 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHhC-CCCEEEEEEchhhCCC--CCCHHHHHHHHHHHHH
Confidence            4567777778888999999999997643     235555555443 6799999999999632  233344443    455


Q ss_pred             hcc-----eEEEEee
Q 031411          150 TVQ-----VHLVILK  159 (160)
Q Consensus       150 ~~~-----~~~~~~k  159 (160)
                      +++     ..++|||
T Consensus       122 ~~g~~~~~i~~vSAk  136 (360)
T TIGR03597       122 ELGLKPVDIILVSAK  136 (360)
T ss_pred             HcCCCcCcEEEecCC
Confidence            554     3455554

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.

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.81  E-value=8.7e-05  Score=48.55  Aligned_cols=107  Identities=17%  Similarity=0.180  Sum_probs=62.7

Q ss_pred             EEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECC
Q 031411           19 LLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVT   98 (160)
Q Consensus        19 ~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   98 (160)
                      +.-|..|+|||++.-.+...-.. ...+..-.+...   ....-.+.+.++|+|+..  .......+..+|.++++.+.+
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~~-~~~~~~~vd~D~---~~~~~~yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~   77 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALAK-LGKRVLLLDADL---GLANLDYDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE   77 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHHH-CCCcEEEEECCC---CCCCCCCCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC
Confidence            35578899999997666532110 000111111100   000111678999999753  333456788999999999875


Q ss_pred             ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           99 DESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                       ..++..+...+..+.... ...++.++.|+.+-.
T Consensus        78 -~~s~~~~~~~l~~l~~~~-~~~~~~lVvN~~~~~  110 (139)
T cd02038          78 -PTSITDAYALIKKLAKQL-RVLNFRVVVNRAESP  110 (139)
T ss_pred             -hhHHHHHHHHHHHHHHhc-CCCCEEEEEeCCCCH
Confidence             455555555555554433 245788899998753

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.81  E-value=0.00016  Score=53.86  Aligned_cols=23  Identities=26%  Similarity=0.543  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .--++++|++|+||||++..|..
T Consensus       114 ~~vi~lvGpnGsGKTTt~~kLA~  136 (318)
T PRK10416        114 PFVILVVGVNGVGKTTTIGKLAH  136 (318)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            35788999999999999988864

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.80  E-value=0.00018  Score=54.52  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.++++|++|+||||++..|..
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~  159 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAA  159 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4788999999999999998875

>PRK12289 GTPase RsgA; Reviewed

Probab=97.75  E-value=0.00019  Score=54.08  Aligned_cols=53  Identities=21%  Similarity=0.281  Sum_probs=40.1

Q ss_pred             cccchhhccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           78 RTITTAYYRGAMGILLVYDVTDES-SFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        78 ~~~~~~~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.+....+.++|.+++|+|+.++. ....+.+|+..+..   .++|+++|+||+||.
T Consensus        80 ~~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv  133 (352)
T PRK12289         80 TELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLV  133 (352)
T ss_pred             cceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcC
Confidence            344455688999999999998765 44566777765532   478999999999996

>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=97.73  E-value=0.00026  Score=45.66  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -.+++.|++|+|||++++.+....
T Consensus        20 ~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          20 KNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998754

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.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.73  E-value=0.00019  Score=48.57  Aligned_cols=64  Identities=20%  Similarity=0.150  Sum_probs=36.4

Q ss_pred             EEEEEecCCCcccccccc----hhh--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           64 IKLQIWDTAGQERFRTIT----TAY--YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~----~~~--~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ..+.+.|++|........    ..+  ....+.+++|+|......   ..++...+.+...   ..-++.||.|..
T Consensus        83 ~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~---~~~~~~~~~~~~~---~~~viltk~D~~  152 (173)
T cd03115          83 FDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD---AVNQAKAFNEALG---ITGVILTKLDGD  152 (173)
T ss_pred             CCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH---HHHHHHHHHhhCC---CCEEEEECCcCC
Confidence            457889999964322111    111  124889999999864322   2234444433222   245666999975

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PRK12288 GTPase RsgA; Reviewed

Probab=97.72  E-value=0.00016  Score=54.40  Aligned_cols=47  Identities=26%  Similarity=0.275  Sum_probs=38.7

Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           85 YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ..++|.+++|++...+.++..+..|+.....   .++|.++|+||+||.+
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~  164 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLD  164 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCC
Confidence            3568999999999888889999999875532   4689999999999963

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.71  E-value=3.4e-05  Score=57.98  Aligned_cols=59  Identities=22%  Similarity=0.390  Sum_probs=43.2

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      .-+..+++.|+|-|++||||+||.|....... .....|++.....+..+.   .+.|.|.||
T Consensus       248 ~lk~sIrvGViG~PNVGKSSvINsL~~~k~C~-vg~~pGvT~smqeV~Ldk---~i~llDsPg  306 (435)
T KOG2484|consen  248 ELKTSIRVGIIGYPNVGKSSVINSLKRRKACN-VGNVPGVTRSMQEVKLDK---KIRLLDSPG  306 (435)
T ss_pred             ccCcceEeeeecCCCCChhHHHHHHHHhcccc-CCCCccchhhhhheeccC---CceeccCCc
Confidence            34677999999999999999999999765432 122333445555666665   578999999

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=97.70  E-value=0.0002  Score=55.67  Aligned_cols=129  Identities=19%  Similarity=0.127  Sum_probs=79.3

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCC----------------CCccccceeeeEEEEEEEE--------------CC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSF----------------TTSFITTIGIDFKIRTIEL--------------DG   61 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~--------------~~   61 (160)
                      ..+.-++.++..-..|||||-..|....-                ..+..+..++......+.+              ++
T Consensus        16 ~~NiRNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~   95 (842)
T KOG0469|consen   16 KKNIRNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDG   95 (842)
T ss_pred             ccccccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCC
Confidence            34556889999999999999988853111                0111222222222221111              23


Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCCh
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPF  141 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~  141 (160)
                      ..+-++++|.|||..|.....+.++-.|+.++|+|.-+.-..+.-.-.-+.+..   .-.|+ ++.||+|..--+-+...
T Consensus        96 ~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~E---RIkPv-lv~NK~DRAlLELq~~~  171 (842)
T KOG0469|consen   96 NGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAE---RIKPV-LVMNKMDRALLELQLSQ  171 (842)
T ss_pred             cceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHh---hccce-EEeehhhHHHHhhcCCH
Confidence            357889999999999999999999999999999998775443322212222222   22354 55699996323345555


Q ss_pred             hHH
Q 031411          142 CLH  144 (160)
Q Consensus       142 ~~~  144 (160)
                      |+.
T Consensus       172 EeL  174 (842)
T KOG0469|consen  172 EEL  174 (842)
T ss_pred             HHH
Confidence            554

>PRK08118 topology modulation protein; Reviewed

Probab=97.67  E-value=4.2e-05  Score=51.66  Aligned_cols=23  Identities=39%  Similarity=0.658  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .+|+|+|++|||||||...|...
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            38999999999999999999864

>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=97.67  E-value=4.4e-05  Score=48.45  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .|+|.|++||||||+.+.|...
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            4899999999999999999874

...

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.64  E-value=0.00035  Score=53.04  Aligned_cols=23  Identities=30%  Similarity=0.547  Sum_probs=19.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .-.|+++||+|+||||-+-.|..
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAa  225 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAA  225 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHH
Confidence            45789999999999998877764

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

Probab=97.64  E-value=4.4e-05  Score=52.08  Aligned_cols=23  Identities=30%  Similarity=0.696  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .||+|+|++|+||||+...|...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999999876

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.63  E-value=0.00036  Score=43.04  Aligned_cols=82  Identities=16%  Similarity=0.194  Sum_probs=50.6

Q ss_pred             EEEEc-CCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           18 LLLIG-DSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        18 i~v~G-~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      |.+.| ..|+||||+...+...-.. ...+..       .+..+. .+.+.++|+|+...  ......+..+|.++++.+
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~~-~~~~vl-------~~d~d~-~~d~viiD~p~~~~--~~~~~~l~~ad~viv~~~   70 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALAR-RGKRVL-------LIDLDP-QYDYIIIDTPPSLG--LLTRNALAAADLVLIPVQ   70 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHh-CCCcEE-------EEeCCC-CCCEEEEeCcCCCC--HHHHHHHHHCCEEEEecc
Confidence            56666 5689999998766542211 101111       111221 16789999998642  223467788999999887


Q ss_pred             CCChhhHHHHHHHHH
Q 031411           97 VTDESSFNNIRNWIR  111 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~  111 (160)
                      .+ ..++..+.+++.
T Consensus        71 ~~-~~s~~~~~~~~~   84 (104)
T cd02042          71 PS-PLDLDGLEKLLE   84 (104)
T ss_pred             CC-HHHHHHHHHHHH
Confidence            74 566777766665

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>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=97.62  E-value=5.1e-05  Score=49.52  Aligned_cols=20  Identities=40%  Similarity=0.682  Sum_probs=18.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      |+++|++||||||+++.+..
T Consensus         2 ii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999985

...

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=97.61  E-value=7.6e-05  Score=56.05  Aligned_cols=27  Identities=26%  Similarity=0.466  Sum_probs=22.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSF   40 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~   40 (160)
                      -.+++.++|+-.+|||||+-.|..+..
T Consensus       132 ~E~RVAVVGNVDAGKSTLLGVLTHgeL  158 (641)
T KOG0463|consen  132 IEARVAVVGNVDAGKSTLLGVLTHGEL  158 (641)
T ss_pred             eeEEEEEEecccCCcceeEeeeeeccc
Confidence            458999999999999999988875443

>PRK07261 topology modulation protein; Provisional

Probab=97.60  E-value=5.9e-05  Score=51.14  Aligned_cols=22  Identities=45%  Similarity=0.632  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +|+|+|++|+|||||+..|...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7999999999999999998753

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.60  E-value=0.00037  Score=50.79  Aligned_cols=64  Identities=20%  Similarity=0.182  Sum_probs=36.6

Q ss_pred             EEEEEecCCCcccccccch-------hhc-----cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 031411           64 IKLQIWDTAGQERFRTITT-------AYY-----RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD  131 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~-------~~~-----~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~D  131 (160)
                      +.+.++||+|....+...-       ...     ...|..++|+|++..  .+.+. +...+.+...   +.-++.||.|
T Consensus       155 ~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~--~~~~~-~~~~f~~~~~---~~g~IlTKlD  228 (272)
T TIGR00064       155 IDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTG--QNALE-QAKVFNEAVG---LTGIILTKLD  228 (272)
T ss_pred             CCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCC--HHHHH-HHHHHHhhCC---CCEEEEEccC
Confidence            6789999999654322211       011     237899999999753  22222 2222222211   3567789999


Q ss_pred             CC
Q 031411          132 MD  133 (160)
Q Consensus       132 l~  133 (160)
                      -.
T Consensus       229 e~  230 (272)
T TIGR00064       229 GT  230 (272)
T ss_pred             CC
Confidence            75

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.58  E-value=0.00061  Score=53.77  Aligned_cols=23  Identities=22%  Similarity=0.436  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .-.++|+|++|+||||++..|..
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa  372 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQ  372 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35889999999999999988864

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=97.54  E-value=0.0069  Score=40.85  Aligned_cols=123  Identities=11%  Similarity=0.051  Sum_probs=85.5

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      +..+...|+++|..+.++..|.+.+...+..          +.........       .-.|...  ..    .=...|.
T Consensus        11 p~ln~atiLLVg~e~~~~~~LA~a~l~~~~~----------~~l~Vh~a~s-------LPLp~e~--~~----lRprIDl   67 (176)
T PF11111_consen   11 PELNTATILLVGTEEALLQQLAEAMLEEDKE----------FKLKVHLAKS-------LPLPSEN--NN----LRPRIDL   67 (176)
T ss_pred             CCcceeEEEEecccHHHHHHHHHHHHhhccc----------eeEEEEEecc-------CCCcccc--cC----CCceeEE
Confidence            3445789999999999999999999963211          1111111111       1122111  11    1236899


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEe
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVIL  158 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (160)
                      ++|++|.....+++.++.-+..+.....- -.++++.+-.... +...+...++.+++..|++.++++
T Consensus        68 IVFvinl~sk~SL~~ve~SL~~vd~~ffl-GKVCfl~t~a~~~-~~~sv~~~~V~kla~~y~~plL~~  133 (176)
T PF11111_consen   68 IVFVINLHSKYSLQSVEASLSHVDPSFFL-GKVCFLATNAGRE-SHCSVHPNEVRKLAATYNSPLLFA  133 (176)
T ss_pred             EEEEEecCCcccHHHHHHHHhhCChhhhc-cceEEEEcCCCcc-cccccCHHHHHHHHHHhCCCEEEe
Confidence            99999999999999999888888654432 2577777777665 667899999999999999988765

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.53  E-value=0.00011  Score=41.09  Aligned_cols=23  Identities=35%  Similarity=0.382  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      ..+|.|+.|+||||+++.+.---
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999999887543

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.53  E-value=0.0012  Score=39.63  Aligned_cols=76  Identities=16%  Similarity=0.181  Sum_probs=46.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc-chhhccCCcEEEEEEE
Q 031411           18 LLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI-TTAYYRGAMGILLVYD   96 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~-~~~~~~~~~~~i~v~d   96 (160)
                      +++.|..|+||||+...+...-.... ..         ....+    .+.++|+++....... .......+|.++++++
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~g-~~---------v~~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~   67 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKRG-KR---------VLLID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTT   67 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC-Ce---------EEEEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecC
Confidence            67889999999999988875321100 01         11111    5789999986433221 1455668899998887


Q ss_pred             CCChhhHHHHHH
Q 031411           97 VTDESSFNNIRN  108 (160)
Q Consensus        97 ~~~~~~~~~~~~  108 (160)
                      ... .+......
T Consensus        68 ~~~-~~~~~~~~   78 (99)
T cd01983          68 PEA-LAVLGARR   78 (99)
T ss_pred             Cch-hhHHHHHH
Confidence            754 33444433

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=97.53  E-value=0.00021  Score=52.32  Aligned_cols=64  Identities=16%  Similarity=0.225  Sum_probs=39.7

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCC------CccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFT------TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      .+..+..+++.|+|-||+|||||+|.+......      ....+..+.... ..+.+.+. -.+.+.||||.
T Consensus       137 irt~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~-~~iri~~r-p~vy~iDTPGi  206 (335)
T KOG2485|consen  137 IRTLNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVS-ERIRISHR-PPVYLIDTPGI  206 (335)
T ss_pred             hcccCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeeh-hheEeccC-CceEEecCCCc
Confidence            344567799999999999999999988753322      112222222111 12333332 24788999993

>cd01858 NGP_1 NGP-1

Probab=97.50  E-value=0.00021  Score=47.63  Aligned_cols=46  Identities=17%  Similarity=0.297  Sum_probs=32.5

Q ss_pred             hccCCcEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           84 YYRGAMGILLVYDVTDESS--FNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~--~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .++++|++++|+|+.++..  .+.+.+++.   .. ..+.|++++.||+|+.
T Consensus         5 ~l~~aD~il~VvD~~~p~~~~~~~i~~~l~---~~-~~~~p~ilVlNKiDl~   52 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGTRCKHVEEYLK---KE-KPHKHLIFVLNKCDLV   52 (157)
T ss_pred             hhhhCCEEEEEEECCCCccccCHHHHHHHH---hc-cCCCCEEEEEEchhcC
Confidence            5778999999999988632  233333332   22 3358999999999995

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=97.50  E-value=0.00068  Score=49.52  Aligned_cols=59  Identities=25%  Similarity=0.209  Sum_probs=37.9

Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.+.+++|.|--+.+.   ....-+|.++++.-..-.+..+-++.-+.++.        -+++.||.|..
T Consensus       144 ~DvIIVETVGvGQsev---~I~~~aDt~~~v~~pg~GD~~Q~iK~GimEia--------Di~vINKaD~~  202 (323)
T COG1703         144 YDVIIVETVGVGQSEV---DIANMADTFLVVMIPGAGDDLQGIKAGIMEIA--------DIIVINKADRK  202 (323)
T ss_pred             CCEEEEEecCCCcchh---HHhhhcceEEEEecCCCCcHHHHHHhhhhhhh--------heeeEeccChh
Confidence            4677788887432222   23345788888777766676666665554443        37788999964

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.46  E-value=0.00053  Score=44.49  Aligned_cols=23  Identities=39%  Similarity=0.598  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -|++.|+.|+|||||++.+...-
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            68999999999999999998753

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.

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

Probab=97.45  E-value=0.00045  Score=49.12  Aligned_cols=23  Identities=35%  Similarity=0.446  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -+.++|++|||||||++-+.+-.
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998854

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=97.45  E-value=0.0035  Score=46.81  Aligned_cols=22  Identities=27%  Similarity=0.372  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++-|-=|||||||++.++.+.
T Consensus         4 tvitGFLGsGKTTlL~~lL~~~   25 (323)
T COG0523           4 TVITGFLGSGKTTLLNHLLANR   25 (323)
T ss_pred             EEEeecCCCCHHHHHHHHHhcc
Confidence            5778999999999999998643

>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=97.44  E-value=0.00015  Score=41.54  Aligned_cols=21  Identities=29%  Similarity=0.569  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      |++.|++|+||||+.+.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            688999999999999999875

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.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.42  E-value=9.5e-05  Score=49.56  Aligned_cols=22  Identities=18%  Similarity=0.501  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ||+|.|.+++|||||++.|...
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            7999999999999999999865

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

Probab=97.42  E-value=0.00018  Score=50.20  Aligned_cols=23  Identities=39%  Similarity=0.527  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|||||||++++-.-.
T Consensus        30 vv~iiGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCc
Confidence            58999999999999999998644

>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=97.39  E-value=0.00016  Score=46.83  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++|+|++|+|||||++.+.+..
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            68999999999999999888754

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 ....

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=97.39  E-value=0.0013  Score=41.00  Aligned_cols=100  Identities=16%  Similarity=0.098  Sum_probs=58.6

Q ss_pred             EcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCCh
Q 031411           21 IGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDE  100 (160)
Q Consensus        21 ~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~  100 (160)
                      =+..|+||||+...|...-.........-.+..     ... ...+.+.|+|+...  ......+..+|.++++.+.+ .
T Consensus         6 ~~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~d-----~~~-~~D~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~~-~   76 (106)
T cd03111           6 GAKGGVGATTLAANLAVALAKEAGRRVLLVDLD-----LQF-GDDYVVVDLGRSLD--EVSLAALDQADRVFLVTQQD-L   76 (106)
T ss_pred             CCCCCCcHHHHHHHHHHHHHhcCCCcEEEEECC-----CCC-CCCEEEEeCCCCcC--HHHHHHHHHcCeEEEEecCC-h
Confidence            355779999988776543211101111111111     111 11689999998642  23345678899999988764 5


Q ss_pred             hhHHHHHHHHHHHHHhcCC-CCcEEEEEeC
Q 031411          101 SSFNNIRNWIRNIEQHASD-NVNKILVGNK  129 (160)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~-~~pi~vv~~K  129 (160)
                      .+...+..+++.+.+.... ...+.+++|+
T Consensus        77 ~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          77 PSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             HHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            6677777777777654432 3456676664

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.39  E-value=2.3e-05  Score=57.17  Aligned_cols=133  Identities=15%  Similarity=0.137  Sum_probs=72.3

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCC---CCCccccceeeeEEEE---EEE--------------------------E
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGS---FTTSFITTIGIDFKIR---TIE--------------------------L   59 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~---~~~~~~~~~~~~~~~~---~~~--------------------------~   59 (160)
                      +...++|.-+|.-..||||+...+.+-.   |..+-.+..++...+.   .+.                          .
T Consensus        35 RQATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~~  114 (466)
T KOG0466|consen   35 RQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCDR  114 (466)
T ss_pred             heeeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCccc
Confidence            4467999999999999999999887632   2222222222111000   000                          0


Q ss_pred             ---CC---EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCC----hhhHHHHHHHHHHHHHhcCCCCcEEEEEeC
Q 031411           60 ---DG---KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTD----ESSFNNIRNWIRNIEQHASDNVNKILVGNK  129 (160)
Q Consensus        60 ---~~---~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~----~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K  129 (160)
                         .+   -..++.|.|+|||+-.-...-....-.|++++++..+.    |.+-+.+    ..+.-.  .=..++++.||
T Consensus       115 ~g~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHL----aaveiM--~LkhiiilQNK  188 (466)
T KOG0466|consen  115 PGCEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHL----AAVEIM--KLKHIIILQNK  188 (466)
T ss_pred             CCCCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHH----HHHHHh--hhceEEEEech
Confidence               00   01367789999987443322222233567777776664    2333333    222111  12368999999


Q ss_pred             CCCCCCcc-CCChhHHHHHhhh
Q 031411          130 ADMDESKR-EAPFCLHETILLT  150 (160)
Q Consensus       130 ~Dl~~~~~-~~~~~~~~~~~~~  150 (160)
                      .||..... ....+++++|.+.
T Consensus       189 iDli~e~~A~eq~e~I~kFi~~  210 (466)
T KOG0466|consen  189 IDLIKESQALEQHEQIQKFIQG  210 (466)
T ss_pred             hhhhhHHHHHHHHHHHHHHHhc
Confidence            99963222 3445667777653

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.36  E-value=0.00032  Score=46.62  Aligned_cols=42  Identities=31%  Similarity=0.161  Sum_probs=28.4

Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      |++++|+|+.++.+.+.  .++.. ......+.|+++++||+|+.
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~-~~~~~~~~p~IiVlNK~Dl~   42 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIER-VLIKEKGKKLILVLNKADLV   42 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHH-HHHhcCCCCEEEEEechhcC
Confidence            68999999988755432  23321 11122468999999999995

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.

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.36  E-value=0.00093  Score=49.01  Aligned_cols=102  Identities=19%  Similarity=0.259  Sum_probs=59.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCc-------------------
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ-------------------   74 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~-------------------   74 (160)
                      +..+++++|++|.|||++++++........ ....             ..+.+...+.|..                   
T Consensus        60 Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~-d~~~-------------~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~  125 (302)
T PF05621_consen   60 RMPNLLIVGDSNNGKTMIIERFRRLHPPQS-DEDA-------------ERIPVVYVQMPPEPDERRFYSAILEALGAPYR  125 (302)
T ss_pred             CCCceEEecCCCCcHHHHHHHHHHHCCCCC-CCCC-------------ccccEEEEecCCCCChHHHHHHHHHHhCcccC
Confidence            345799999999999999999998653321 1111             1123344444431                   


Q ss_pred             -----ccccccchhhccCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcC-CCCcEEEEEeC
Q 031411           75 -----ERFRTITTAYYRGAMGILLVYDVTD---ESSFNNIRNWIRNIEQHAS-DNVNKILVGNK  129 (160)
Q Consensus        75 -----~~~~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K  129 (160)
                           .....+....++...+=++++|--.   ..+....+..++.+..... -.+|++.+|++
T Consensus       126 ~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~  189 (302)
T PF05621_consen  126 PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR  189 (302)
T ss_pred             CCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence                 1112223356677888888888643   1223344445555544332 47899999884

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK06217 hypothetical protein; Validated

Probab=97.33  E-value=0.00022  Score=48.82  Aligned_cols=23  Identities=22%  Similarity=0.475  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .+|+|+|.+||||||+...|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999864

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

Probab=97.32  E-value=0.00027  Score=49.83  Aligned_cols=24  Identities=33%  Similarity=0.369  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSF   40 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~   40 (160)
                      -+.++|++|||||||++.+..-..
T Consensus        33 ~vaI~GpSGSGKSTLLniig~ld~   56 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGLDK   56 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccC
Confidence            478999999999999999987543

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.32  E-value=0.0036  Score=47.16  Aligned_cols=22  Identities=23%  Similarity=0.379  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      =.++.|.-|+|||||+++++..
T Consensus         6 v~iltGFLGaGKTTll~~ll~~   27 (341)
T TIGR02475         6 VTIVTGFLGAGKTTLIRHLLQN   27 (341)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc
Confidence            3678899999999999999853

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>PF05729 NACHT: NACHT domain

Probab=97.30  E-value=0.00065  Score=45.12  Aligned_cols=21  Identities=38%  Similarity=0.677  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      ++|.|++|+|||+++..+...
T Consensus         3 l~I~G~~G~GKStll~~~~~~   23 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQ   23 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            789999999999999988753

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=97.30  E-value=0.00021  Score=51.32  Aligned_cols=22  Identities=32%  Similarity=0.368  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -++++|++|||||||++.+.+-
T Consensus        30 i~~iiGpNG~GKSTLLk~l~g~   51 (258)
T COG1120          30 ITGILGPNGSGKSTLLKCLAGL   51 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999999873

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.30  E-value=0.00027  Score=45.18  Aligned_cols=26  Identities=23%  Similarity=0.332  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT   41 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~   41 (160)
                      -.++++|++|+|||+++..+......
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~   28 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGP   28 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCC
Confidence            37899999999999999999876543

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.

>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=97.30  E-value=0.00024  Score=45.50  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=19.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~~   39 (160)
                      |++.|++|+|||++++.+....
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            6899999999999999998753

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 ....

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=97.29  E-value=0.00044  Score=52.36  Aligned_cols=127  Identities=15%  Similarity=0.076  Sum_probs=73.4

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCC--CC-----------------------------CccccceeeeEEEEEEE
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGS--FT-----------------------------TSFITTIGIDFKIRTIE   58 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~--~~-----------------------------~~~~~~~~~~~~~~~~~   58 (160)
                      +.....++++++|.-.+||||+-..+....  ..                             ++.....+.+.....+.
T Consensus        74 ~~pk~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~FE  153 (501)
T KOG0459|consen   74 EYPKEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYFE  153 (501)
T ss_pred             CCCCCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEEE
Confidence            344567899999999999999876664310  00                             00111111111111222


Q ss_pred             ECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCC---hhhHHHHHHHHHH-HHHhcCCCCcEEEEEeCCCCCC
Q 031411           59 LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTD---ESSFNNIRNWIRN-IEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        59 ~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~-~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ..  ..+|++.|.|||..|-........++|+.++++++..   ...|++--+.-.. +...-..-...+++.||+|-+.
T Consensus       154 te--~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~gv~~lVv~vNKMddPt  231 (501)
T KOG0459|consen  154 TE--NKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPT  231 (501)
T ss_pred             ec--ceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhhccceEEEEEEeccCCc
Confidence            22  2478999999998887766666778999999998843   2334433221111 1111112346788899999764


Q ss_pred             CccC
Q 031411          135 SKRE  138 (160)
Q Consensus       135 ~~~~  138 (160)
                      ..|.
T Consensus       232 vnWs  235 (501)
T KOG0459|consen  232 VNWS  235 (501)
T ss_pred             cCcc
Confidence            4443

>cd01856 YlqF YlqF

Probab=97.29  E-value=0.00019  Score=48.60  Aligned_cols=57  Identities=21%  Similarity=0.070  Sum_probs=37.3

Q ss_pred             CCCcc-cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           71 TAGQE-RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        71 ~~g~~-~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +||+. +........++++|++++++|++++...... .++.    .. .+.|++++.||+|+.
T Consensus         2 ~~~~~~~~~~~~~~~i~~aD~il~v~D~~~~~~~~~~-~i~~----~~-~~k~~ilVlNK~Dl~   59 (171)
T cd01856           2 FPGHMAKALRQIKEKLKLVDLVIEVRDARIPLSSRNP-LLEK----IL-GNKPRIIVLNKADLA   59 (171)
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeccCccCcCCh-hhHh----Hh-cCCCEEEEEehhhcC
Confidence            45643 3444456678899999999999875432211 1111    11 256899999999995

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.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.28  E-value=0.00026  Score=46.24  Aligned_cols=21  Identities=52%  Similarity=0.775  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      |+++|++|+|||||++.|...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999864

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=97.27  E-value=0.00021  Score=52.14  Aligned_cols=57  Identities=25%  Similarity=0.213  Sum_probs=37.9

Q ss_pred             CCCcc-cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           71 TAGQE-RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        71 ~~g~~-~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +|||. +........++.+|++++|+|+..+.+.+.  .++....    .+.|+++|.||+|+.
T Consensus         4 fpgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~--~~i~~~l----~~kp~IiVlNK~DL~   61 (276)
T TIGR03596         4 FPGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRN--PMIDEIR----GNKPRLIVLNKADLA   61 (276)
T ss_pred             ChHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCC--hhHHHHH----CCCCEEEEEEccccC
Confidence            57764 334445667889999999999987644322  1111111    257999999999995

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.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.27  E-value=0.00028  Score=48.40  Aligned_cols=22  Identities=36%  Similarity=0.584  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++|+|++|+||||+++.|...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            6899999999999999999764

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=97.27  E-value=0.00071  Score=43.27  Aligned_cols=59  Identities=17%  Similarity=0.182  Sum_probs=31.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCC--ccccceeeeEEEEEEEEC-CEEEEEEEecCCCcccc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTT--SFITTIGIDFKIRTIELD-GKRIKLQIWDTAGQERF   77 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~   77 (160)
                      --|++-|+=|+|||||.+.+...--..  -..||-.+  . ...... ..-+++-++-+.+.+..
T Consensus        16 ~vi~L~GdLGaGKTtf~r~l~~~lg~~~~V~SPTF~l--~-~~Y~~~~~~l~H~DLYRl~~~~e~   77 (123)
T PF02367_consen   16 DVILLSGDLGAGKTTFVRGLARALGIDEEVTSPTFSL--V-NEYEGGNIPLYHFDLYRLEDPEEL   77 (123)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTT--S----TTTTS--E-EEEEETTEEEEEEE-TT-SSTHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHcCCCCCcCCCCeEE--E-EEecCCCceEEEeeccccCCHHHH
Confidence            358999999999999999888643222  22233221  1 122212 23356667766654443

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.26  E-value=0.00029  Score=46.23  Aligned_cols=23  Identities=17%  Similarity=0.384  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .|.|+|+.++|||||+..|.+.-
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~l   24 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINEL   24 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998743

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.26  E-value=0.00026  Score=48.13  Aligned_cols=22  Identities=32%  Similarity=0.434  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++|+|++||||||+++.|...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5799999999999999998764

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.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.25  E-value=0.00029  Score=44.90  Aligned_cols=21  Identities=19%  Similarity=0.378  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      |+|.|.+||||||+++.|...
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            789999999999999999864

...

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.22  E-value=0.00031  Score=47.74  Aligned_cols=22  Identities=36%  Similarity=0.576  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -|+|+|++||||||+++.|.+.
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4899999999999999999874

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.

>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]

Probab=97.22  E-value=0.0025  Score=49.52  Aligned_cols=50  Identities=22%  Similarity=0.341  Sum_probs=32.6

Q ss_pred             cccchhhccCCcEEEEEEECCChhh---HHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 031411           78 RTITTAYYRGAMGILLVYDVTDESS---FNNIRNWIRNIEQHASDNVNKILVGNKAD  131 (160)
Q Consensus        78 ~~~~~~~~~~~~~~i~v~d~~~~~~---~~~~~~~~~~~~~~~~~~~pi~vv~~K~D  131 (160)
                      -.+....+++++++|+  |  .|.+   ..++.+.+..+.+....+..|+++-+|.+
T Consensus       149 VEIlKaLyr~a~iLIL--D--EPTaVLTP~E~~~lf~~l~~l~~~G~tIi~ITHKL~  201 (501)
T COG3845         149 VEILKALYRGARLLIL--D--EPTAVLTPQEADELFEILRRLAAEGKTIIFITHKLK  201 (501)
T ss_pred             HHHHHHHhcCCCEEEE--c--CCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeccHH
Confidence            3345567788888775  3  2322   35666666666666666888999888865

>PRK14530 adenylate kinase; Provisional

Probab=97.22  E-value=0.00032  Score=49.27  Aligned_cols=21  Identities=29%  Similarity=0.631  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      +|+|+|++||||||+.+.|..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            899999999999999999964

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.21  E-value=0.0033  Score=42.69  Aligned_cols=85  Identities=19%  Similarity=0.135  Sum_probs=59.4

Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCCh
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPF  141 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~  141 (160)
                      ..+.+.++|+|+...  ......+..+|.+++++..+ ..+...+..++..+.+.   +.|+.++.|+.|...    ...
T Consensus        91 ~~~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~-~~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~----~~~  160 (179)
T cd03110          91 EGAELIIIDGPPGIG--CPVIASLTGADAALLVTEPT-PSGLHDLERAVELVRHF---GIPVGVVINKYDLND----EIA  160 (179)
T ss_pred             cCCCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCC-cccHHHHHHHHHHHHHc---CCCEEEEEeCCCCCc----chH
Confidence            346899999997542  23445678899999999886 44666666666665543   567899999999742    234


Q ss_pred             hHHHHHhhhcceEEE
Q 031411          142 CLHETILLTVQVHLV  156 (160)
Q Consensus       142 ~~~~~~~~~~~~~~~  156 (160)
                      ++++++..+.++.++
T Consensus       161 ~~~~~~~~~~~~~vl  175 (179)
T cd03110         161 EEIEDYCEEEGIPIL  175 (179)
T ss_pred             HHHHHHHHHcCCCeE
Confidence            567778888776544

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>PRK03839 putative kinase; Provisional

Probab=97.21  E-value=0.00031  Score=47.83  Aligned_cols=22  Identities=23%  Similarity=0.450  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +|+++|.+||||||+...|...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998753

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.20  E-value=0.00031  Score=48.58  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=18.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      |+|.|++|||||||++.|.+.
T Consensus         2 igi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999999763

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.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.19  E-value=0.0004  Score=47.35  Aligned_cols=20  Identities=35%  Similarity=0.361  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 031411           17 KLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~   36 (160)
                      .++++|++|+|||||++.+.
T Consensus        23 ~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          23 LVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            78999999999999999886

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>TIGR00235 udk uridine kinase

Probab=97.18  E-value=0.00053  Score=47.85  Aligned_cols=24  Identities=25%  Similarity=0.284  Sum_probs=21.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...-|+++|++|||||||++.|.+
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999999975

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>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=97.18  E-value=0.0005  Score=46.90  Aligned_cols=23  Identities=17%  Similarity=0.335  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            78999999999999999998754

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.

>TIGR00959 ffh signal recognition particle protein

Probab=97.18  E-value=0.0051  Score=47.66  Aligned_cols=64  Identities=23%  Similarity=0.169  Sum_probs=35.3

Q ss_pred             EEEEEecCCCcccccccchh------hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTA------YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~------~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.+.++||+|....+...-.      ..-..+.+++|+|+....   ....+...+....+   ..-++.||.|-.
T Consensus       183 ~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq---~~~~~a~~f~~~v~---i~giIlTKlD~~  252 (428)
T TIGR00959       183 FDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQ---DAVNTAKTFNERLG---LTGVVLTKLDGD  252 (428)
T ss_pred             CCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchH---HHHHHHHHHHhhCC---CCEEEEeCccCc
Confidence            56899999995433221111      123577889999986532   33333333332222   235557999953

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

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

Probab=97.17  E-value=0.00034  Score=52.23  Aligned_cols=22  Identities=41%  Similarity=0.587  Sum_probs=19.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~~   39 (160)
                      ++++||+|||||||++.+.+-.
T Consensus        32 ~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999998743

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.17  E-value=0.00063  Score=47.51  Aligned_cols=28  Identities=29%  Similarity=0.469  Sum_probs=22.6

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +.....-|+|+|++|||||||++.|...
T Consensus         9 ~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          9 KPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            3344567889999999999999999753

>PRK14532 adenylate kinase; Provisional

Probab=97.16  E-value=0.0004  Score=47.65  Aligned_cols=21  Identities=29%  Similarity=0.520  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      +|+++|++||||||+..+|..
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999975

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=97.16  E-value=0.00043  Score=47.52  Aligned_cols=24  Identities=29%  Similarity=0.391  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -.++++|++|+||||+++.+.+-.
T Consensus        26 ~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          26 KNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhc
Confidence            479999999999999999988643

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.

>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=97.16  E-value=0.00042  Score=48.61  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCc
Confidence            68999999999999999998753

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.

>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=97.15  E-value=0.00042  Score=45.10  Aligned_cols=22  Identities=32%  Similarity=0.537  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .|+++|++|+|||+|++.+...
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~   22 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAAL   22 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999988763

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.

>PRK10646 ADP-binding protein; Provisional

Probab=97.15  E-value=0.0029  Score=42.06  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -|++-|+=|+|||||.+.+...-
T Consensus        30 vi~L~GdLGaGKTtf~rgl~~~L   52 (153)
T PRK10646         30 VIYLYGDLGAGKTTFSRGFLQAL   52 (153)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48899999999999999998643

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.15  E-value=0.00039  Score=47.44  Aligned_cols=22  Identities=18%  Similarity=0.431  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .-|+++|++||||||+++.+..
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999973

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.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=97.15  E-value=0.00042  Score=47.54  Aligned_cols=23  Identities=22%  Similarity=0.433  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .++|.+.|++|||||+|+.++..
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~   35 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLR   35 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHH
Confidence            68999999999999999998765

>PRK14531 adenylate kinase; Provisional

Probab=97.14  E-value=0.00046  Score=47.24  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+|+++|+|||||||+...|..
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~   24 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCA   24 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999865

>PRK13949 shikimate kinase; Provisional

Probab=97.11  E-value=0.00049  Score=46.56  Aligned_cols=21  Identities=29%  Similarity=0.544  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      +|+|+|++|+||||+...|..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998875

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.11  E-value=0.0005  Score=47.99  Aligned_cols=23  Identities=35%  Similarity=0.470  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+..
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          29 FVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998753

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.

>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=97.10  E-value=0.0005  Score=49.04  Aligned_cols=26  Identities=27%  Similarity=0.434  Sum_probs=22.4

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +..++++|+|++|||||+|+..++..
T Consensus        11 ~~~fr~viIG~sGSGKT~li~~lL~~   36 (241)
T PF04665_consen   11 KDPFRMVIIGKSGSGKTTLIKSLLYY   36 (241)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHh
Confidence            34589999999999999999888864

This is thought to be an ATPase involved in viral DNA packaging [].

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

Probab=97.10  E-value=0.00051  Score=48.15  Aligned_cols=23  Identities=35%  Similarity=0.483  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        31 MVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999999753

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=97.10  E-value=0.00053  Score=47.13  Aligned_cols=23  Identities=43%  Similarity=0.615  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999998753

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.

>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=97.10  E-value=0.00042  Score=48.93  Aligned_cols=20  Identities=25%  Similarity=0.287  Sum_probs=18.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      |.+.|++|||||||++.|.+
T Consensus         2 igI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHH
Confidence            67999999999999998875

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=97.10  E-value=0.00052  Score=42.78  Aligned_cols=21  Identities=43%  Similarity=0.776  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHh
Q 031411           16 IKLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~   36 (160)
                      -.++++|++|+|||||++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            358999999999999999986

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

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

Probab=97.09  E-value=0.0007  Score=47.09  Aligned_cols=23  Identities=26%  Similarity=0.345  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999998754

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.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.09  E-value=0.0012  Score=46.26  Aligned_cols=22  Identities=45%  Similarity=0.496  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -..++||+|||||||++++-+-
T Consensus        35 VTAlIGPSGcGKST~LR~lNRm   56 (253)
T COG1117          35 VTALIGPSGCGKSTLLRCLNRM   56 (253)
T ss_pred             eEEEECCCCcCHHHHHHHHHhh
Confidence            3579999999999999988753

>PRK02496 adk adenylate kinase; Provisional

Probab=97.09  E-value=0.0006  Score=46.61  Aligned_cols=22  Identities=23%  Similarity=0.595  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+++|+|++||||||+...|..
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999875

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=97.08  E-value=0.00055  Score=47.89  Aligned_cols=23  Identities=39%  Similarity=0.494  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        30 ~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        30 FLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998753

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.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.08  E-value=0.00043  Score=45.54  Aligned_cols=25  Identities=32%  Similarity=0.489  Sum_probs=22.5

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..+.+|+|.|-||+|||||..++..
T Consensus         5 r~~PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    5 RERPNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             hcCCCEEEeCCCCCCchhHHHHHHH
Confidence            4567999999999999999999974

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=97.08  E-value=0.00056  Score=47.85  Aligned_cols=23  Identities=39%  Similarity=0.531  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          29 FVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998753

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK08233 hypothetical protein; Provisional

Probab=97.08  E-value=0.00051  Score=46.66  Aligned_cols=23  Identities=26%  Similarity=0.300  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .-|+|.|.+|||||||.+.|...
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            56788999999999999999853

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.08  E-value=0.0025  Score=44.21  Aligned_cols=22  Identities=36%  Similarity=0.472  Sum_probs=19.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~~   39 (160)
                      |+++|++||||||+++.+.+..
T Consensus         4 ilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999887643

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=97.07  E-value=0.00065  Score=51.41  Aligned_cols=54  Identities=26%  Similarity=0.254  Sum_probs=0.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc------CCCCCccccceeeeEEEEEEEECCEEEEEEEecCCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD------GSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG   73 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g   73 (160)
                      +++++|.+|+|||||+|.|.+      +......................+   ...++|+||
T Consensus       197 ~~~lvG~sgvGKStLin~L~g~~~~~~G~i~~~~~~g~~tt~~~~l~~l~~---~~~l~DtpG  256 (356)
T PRK01889        197 TVALLGSSGVGKSTLVNALLGEEVQKTGAVREDDSKGRHTTTHRELHPLPS---GGLLIDTPG  256 (356)
T ss_pred             EEEEECCCCccHHHHHHHHHHhcccceeeEEECCCCCcchhhhccEEEecC---CCeecCCCc

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=97.07  E-value=0.00077  Score=46.84  Aligned_cols=23  Identities=39%  Similarity=0.416  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .+.++|++|+|||||++.+.+-.
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999998754

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.07  E-value=0.00064  Score=47.48  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ....|+|.|++|||||||++.|..
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~   28 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYE   28 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            347899999999999999998875

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=97.07  E-value=0.00046  Score=51.89  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=23.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      ...+|+|+|++|||||||++.|...-
T Consensus       161 ~~~nilI~G~tGSGKTTll~aLl~~i  186 (344)
T PRK13851        161 GRLTMLLCGPTGSGKTTMSKTLISAI  186 (344)
T ss_pred             cCCeEEEECCCCccHHHHHHHHHccc
Confidence            45789999999999999999998753

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.07  E-value=0.00076  Score=47.94  Aligned_cols=23  Identities=43%  Similarity=0.434  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999999754

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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=97.07  E-value=0.00051  Score=47.97  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC
Confidence            78999999999999999998743

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.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=97.06  E-value=0.00061  Score=47.56  Aligned_cols=23  Identities=22%  Similarity=0.247  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          28 IFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999999999854

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.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.06  E-value=0.00054  Score=49.11  Aligned_cols=21  Identities=43%  Similarity=0.520  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -+.++||.|+|||||++.+++
T Consensus        32 ~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          32 ITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999998

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=97.06  E-value=0.00077  Score=47.30  Aligned_cols=23  Identities=17%  Similarity=0.265  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        15 ~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177         15 HIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            68999999999999999999754

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=97.06  E-value=0.00061  Score=47.94  Aligned_cols=23  Identities=39%  Similarity=0.465  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          32 FVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999999998754

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.

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=97.05  E-value=0.00049  Score=47.26  Aligned_cols=22  Identities=32%  Similarity=0.599  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +|+|+|++||||||+...|...
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998753

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=97.05  E-value=0.00062  Score=47.58  Aligned_cols=23  Identities=39%  Similarity=0.453  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          28 VVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999998754

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

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=97.05  E-value=0.00062  Score=47.63  Aligned_cols=23  Identities=39%  Similarity=0.485  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          28 FLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998753

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.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=97.05  E-value=0.00063  Score=47.86  Aligned_cols=23  Identities=22%  Similarity=0.310  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          28 IFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998753

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.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=97.04  E-value=0.00063  Score=48.55  Aligned_cols=23  Identities=39%  Similarity=0.439  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.|.+-.
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        30 FVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            68999999999999999998743

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.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.04  E-value=0.00049  Score=46.89  Aligned_cols=24  Identities=38%  Similarity=0.603  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .=+++.||+|+||||+++.|....
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            458899999999999999999765

>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=97.04  E-value=0.00062  Score=47.87  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~   50 (222)
T cd03224          28 IVALLGRNGAGKTTLLKTIMGLL   50 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999988753

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.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.03  E-value=0.00095  Score=44.83  Aligned_cols=23  Identities=35%  Similarity=0.446  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68899999999999999998754

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.

>PRK00300 gmk guanylate kinase; Provisional

Probab=97.03  E-value=0.00058  Score=47.43  Aligned_cols=22  Identities=36%  Similarity=0.542  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -|+|+|++|||||||++.|.+.
T Consensus         7 ~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          7 LIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            6899999999999999999864

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=97.03  E-value=0.0007  Score=46.10  Aligned_cols=23  Identities=39%  Similarity=0.466  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          28 IVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            67899999999999999998743

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.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.03  E-value=0.00089  Score=46.23  Aligned_cols=23  Identities=30%  Similarity=0.343  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         28 ITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999998854

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=97.03  E-value=0.00066  Score=48.17  Aligned_cols=23  Identities=35%  Similarity=0.424  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          33 IFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68899999999999999998754

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=97.03  E-value=0.00059  Score=46.29  Aligned_cols=23  Identities=30%  Similarity=0.344  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .-+.|+|.+|||||||++++...
T Consensus         7 ~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          7 PLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             eEEEEECCCCChHHHHHHHHHHH
Confidence            46899999999999999999864

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=97.03  E-value=0.00086  Score=47.50  Aligned_cols=23  Identities=22%  Similarity=0.293  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          28 IVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999998754

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.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=97.03  E-value=0.00089  Score=47.07  Aligned_cols=23  Identities=35%  Similarity=0.484  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        33 ~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        33 IVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68899999999999999998754

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.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.02  E-value=0.00083  Score=44.17  Aligned_cols=23  Identities=35%  Similarity=0.531  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            57899999999999999998854

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.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=97.02  E-value=0.00066  Score=47.91  Aligned_cols=23  Identities=39%  Similarity=0.406  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          33 TLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999999754

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.02  E-value=0.00064  Score=46.76  Aligned_cols=22  Identities=18%  Similarity=0.339  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      =|+|+|++|||||||+++|...
T Consensus         6 ~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          6 LFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            4899999999999999999864

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=97.02  E-value=0.00096  Score=46.17  Aligned_cols=23  Identities=30%  Similarity=0.444  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        28 ALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999998854

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.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.02  E-value=0.0005  Score=46.03  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=18.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      |+++|++||||||+.+.|...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            579999999999999998865

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=97.01  E-value=0.0007  Score=47.57  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          30 IFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999999854

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.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=97.01  E-value=0.00095  Score=46.66  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          28 FVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999999854

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.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=97.01  E-value=0.0007  Score=47.85  Aligned_cols=23  Identities=43%  Similarity=0.469  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          28 ITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            68999999999999999998754

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).

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	160
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		3e-44
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		4e-44
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		7e-42
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		7e-42
4fmc_B	171	Espg-Rab1 Complex Length = 171		8e-42
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		1e-41
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		1e-41
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		2e-41
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		3e-41
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		6e-41
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		8e-41
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		1e-40
4fmc_F	117	Espg-Rab1 Complex Length = 117		4e-40
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		1e-38
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		2e-38
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-38
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		5e-38
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		9e-37
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		1e-36
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		2e-36
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		2e-36
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		2e-36
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		4e-32
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		5e-32
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		2e-31
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		2e-30
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		2e-30
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		2e-30
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		5e-30
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		8e-30
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		1e-29
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		6e-29
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		7e-29
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		8e-29
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		1e-28
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		2e-28
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		6e-28
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		7e-28
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		1e-27
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		1e-27
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		3e-27
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		5e-27
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		6e-27
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		1e-26
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		1e-26
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		2e-26
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		2e-26
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		2e-26
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		3e-26
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		1e-25
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		1e-25
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		5e-24
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		6e-24
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		6e-24
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		7e-24
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		7e-24
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		8e-24
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		1e-23
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		1e-23
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		1e-23
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		1e-23
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		1e-23
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		2e-23
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-23
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		3e-23
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		3e-23
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		6e-23
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		6e-23
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		1e-22
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-22
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		3e-22
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		1e-21
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		2e-21
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		2e-21
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		5e-21
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		5e-21
2efc_B	181	Ara7-GdpATVPS9A Length = 181		9e-21
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		1e-20
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		2e-20
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		2e-20
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		2e-20
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		2e-20
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		1e-19
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		1e-19
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		2e-19
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		3e-19
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		3e-19
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		7e-17
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		8e-17
1vg1_A	185	Gdp-bound Rab7 Length = 185		1e-16
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		1e-16
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		1e-16
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		2e-16
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		3e-16
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		3e-16
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		1e-15
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		1e-15
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		2e-15
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		4e-15
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		5e-15
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		1e-13
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		2e-13
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		2e-13
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		2e-13
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		2e-13
2bku_A	177	Kap95p:rangtp Complex Length = 177		2e-13
1byu_A	216	Canine Gdp-Ran Length = 216		2e-13
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		2e-13
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		2e-13
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		3e-13
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		6e-13
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		7e-13
3icq_B	171	Karyopherin Nuclear State Length = 171		8e-13
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		9e-13
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		1e-12
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		1e-12
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		1e-12
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		1e-12
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		1e-12
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		1e-12
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		1e-12
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		1e-12
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		1e-12
1s1c_A	183	Crystal Structure Of The Complex Between The Human		1e-12
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		2e-12
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		2e-12
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		2e-12
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		2e-12
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		2e-12
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		2e-12
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		2e-12
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		2e-12
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		2e-12
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		2e-12
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		2e-12
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		3e-12
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		3e-12
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		3e-12
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		3e-12
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		4e-12
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		4e-12
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		4e-12
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		5e-12
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		5e-12
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		5e-12
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		6e-12
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		7e-12
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		2e-11
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		2e-11
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		2e-11
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		2e-11
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		2e-11
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		2e-11
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		2e-11
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		2e-11
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		2e-11
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		2e-11
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		2e-11
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		2e-11
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		2e-11
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		3e-11
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		3e-11
1mh1_A	186	Small G-Protein Length = 186		3e-11
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		4e-11
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		4e-11
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		4e-11
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		4e-11
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		4e-11
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		9e-11
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		1e-10
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		1e-10
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-10
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		1e-10
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		1e-10
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		2e-10
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		2e-10
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		2e-10
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		2e-10
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		2e-10
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		2e-10
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		2e-10
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-10
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		2e-10
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		2e-10
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-10
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		4e-10
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		4e-10
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		4e-10
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		4e-10
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		4e-10
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		4e-10
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		6e-10
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		6e-10
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		1e-09
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		1e-09
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		2e-09
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		4e-09
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		5e-09
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		5e-09
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		5e-09
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		6e-09
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		6e-09
2kb0_A	178	Cdc42(T35a) Length = 178		6e-09
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		6e-09
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		6e-09
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		6e-09
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		6e-09
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		6e-09
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		6e-09
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		6e-09
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		7e-09
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		7e-09
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		7e-09
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		7e-09
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		8e-09
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		9e-09
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		1e-08
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		1e-08
4q21_A	189	Molecular Switch For Signal Transduction: Structura		2e-08
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-08
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		2e-08
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		3e-08
6q21_A	171	Molecular Switch For Signal Transduction: Structura		3e-08
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		3e-08
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		3e-08
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		3e-08
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		3e-08
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		3e-08
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		3e-08
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-08
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		3e-08
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		3e-08
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		4e-08
1wq1_R	166	Ras-Rasgap Complex Length = 166		4e-08
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		4e-08
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		4e-08
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		4e-08
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		4e-08
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		5e-08
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		6e-08
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		7e-08
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		7e-08
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		7e-08
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		8e-08
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		1e-07
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		1e-07
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-07
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		1e-07
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		1e-07
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-07
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		1e-07
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		1e-07
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		2e-07
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		2e-07
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		2e-07
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		2e-07
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		3e-07
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		3e-07
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		4e-07
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-07
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		4e-07
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		4e-07
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		5e-07
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		6e-07
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		7e-07
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		7e-07
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		7e-07
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		1e-06
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		2e-06
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		2e-06
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		4e-06
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		1e-05
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		1e-05
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		2e-05
3d6t_B	171	Structure Of The Roc Domain From The Parkinson's Di		2e-05
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		2e-05
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		3e-05
2zej_A	184	Structure Of The Roc Domain From The Parkinson's Di		3e-05
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		4e-05
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		4e-05
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		4e-05
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		4e-05
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		5e-05
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		5e-05
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		5e-05
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		5e-05
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		5e-05
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		5e-05
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		6e-05
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		6e-05
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		9e-05
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		2e-04
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		2e-04
2ksq_A	181	The Myristoylated Yeast Arf1 In A Gtp And Bicelle B		2e-04
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		2e-04
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		2e-04
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		5e-04
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		5e-04
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		5e-04
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		9e-04

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  173 bits (439), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 82/123 (66%), Positives = 98/123 (79%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGK+C+L R                  KIRTIELDGKRIKLQIWDTAGQ
Sbjct: 8   LFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQ 67
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTITTAYYRGAMGI+LVYD+T+E SF+NIRNWIRNIE+HAS +V K+++GNK D+++
Sbjct: 68  ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVND 127
Query: 135 SKR 137
            ++
Sbjct: 128 KRQ 130

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  173 bits (439), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 82/123 (66%), Positives = 98/123 (79%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGK+C+L R                  KIRTIELDGKRIKLQIWDTAGQ
Sbjct: 6   LFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQ 65
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTITTAYYRGAMGI+LVYD+T+E SF+NIRNWIRNIE+HAS +V K+++GNK D+++
Sbjct: 66  ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVND 125
Query: 135 SKR 137
            ++
Sbjct: 126 KRQ 128

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  166 bits (419), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 79/122 (64%), Positives = 94/122 (77%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGKSCLLLR                  KIRTIELDGK IKLQIWDTAGQ
Sbjct: 6   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 65
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+NVNK+LVGNK D+  
Sbjct: 66  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTT 125
Query: 135 SK 136
            K
Sbjct: 126 KK 127

>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 =  166 bits (419), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 79/122 (64%), Positives = 94/122 (77%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGKSCLLLR                  KIRTIELDGK IKLQIWDTAGQ
Sbjct: 16  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 75
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+NVNK+LVGNK D+  
Sbjct: 76  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTT 135
Query: 135 SK 136
            K
Sbjct: 136 KK 137

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  166 bits (419), Expect = 8e-42,   Method: Compositional matrix adjust.
 Identities = 79/122 (64%), Positives = 94/122 (77%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGKSCLLLR                  KIRTIELDGK IKLQIWDTAGQ
Sbjct: 6   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 65
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+NVNK+LVGNK D+  
Sbjct: 66  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTT 125
Query: 135 SK 136
            K
Sbjct: 126 KK 127

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  165 bits (418), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 79/122 (64%), Positives = 94/122 (77%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGKSCLLLR                  KIRTIELDGK IKLQIWDTAGQ
Sbjct: 25  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 84
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+NVNK+LVGNK D+  
Sbjct: 85  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTT 144
Query: 135 SK 136
            K
Sbjct: 145 KK 146

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  165 bits (417), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 79/122 (64%), Positives = 94/122 (77%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGKSCLLLR                  KIRTIELDGK IKLQIWDTAGQ
Sbjct: 33  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 92
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+NVNK+LVGNK D+  
Sbjct: 93  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTT 152
Query: 135 SK 136
            K
Sbjct: 153 KK 154

>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 =  164 bits (415), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 78/122 (63%), Positives = 94/122 (77%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGK+CLLLR                  KIRTIELDGK IKLQIWDTAGQ
Sbjct: 16  LFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 75
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+NVNK+LVGNK D+  
Sbjct: 76  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTT 135
Query: 135 SK 136
            K
Sbjct: 136 KK 137

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  164 bits (414), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 78/120 (65%), Positives = 93/120 (77%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KLLLIGDSGVGKSCLLLR                  KIRTIELDGK IKLQIWDTAGQER
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 60
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK 136
           FRTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+NVNK+LVGNK D+   K
Sbjct: 61  FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK 120

>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 =  162 bits (411), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 77/122 (63%), Positives = 94/122 (77%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGKSCLLLR                  KIRTIELDGK IKLQIWDTAGQ
Sbjct: 9   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 68
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRGA GI++VYDVTD+ S+ N++ W++ I+++AS+NVNK+LVGNK+D+  
Sbjct: 69  ERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTT 128
Query: 135 SK 136
            K
Sbjct: 129 KK 130

>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 =  162 bits (410), Expect = 8e-41,   Method: Compositional matrix adjust.
 Identities = 77/122 (63%), Positives = 94/122 (77%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGKSCLLLR                  KIRTIELDGK IKLQIWDTAGQ
Sbjct: 9   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 68
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRGA GI++VYDVTD+ S+ N++ W++ I+++AS+NVNK+LVGNK+D+  
Sbjct: 69  ERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTT 128
Query: 135 SK 136
            K
Sbjct: 129 KK 130

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  161 bits (408), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 78/122 (63%), Positives = 93/122 (76%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGKSCLLLR                  KIRTIELDGK IKLQIWDTAGQ
Sbjct: 8   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 67
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+NVNK+LVG K D+  
Sbjct: 68  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCDLTT 127
Query: 135 SK 136
            K
Sbjct: 128 KK 129

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score =  159 bits (403), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 76/115 (66%), Positives = 91/115 (79%)
Query: 18  LLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQERF 77
           LLLIGDSGVGKSCLLLR                  KIRTIELDGK IKLQIWDTAGQERF
Sbjct: 1   LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERF 60
Query: 78  RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           RTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+NVNK+LVGNK D+
Sbjct: 61  RTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 115

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  154 bits (390), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 69/119 (57%), Positives = 91/119 (76%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           ++K+LLIGDSGVGKSCLL+R                  KI+T++++GK++KLQIWDTAGQ
Sbjct: 3   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ 62
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD 133
           ERFRTITTAYYRGAMGI+LVYD+TDE +F NI+ W + + +HA+D    +LVGNK+DM+
Sbjct: 63  ERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME 121

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  154 bits (389), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 69/119 (57%), Positives = 91/119 (76%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           ++K+LLIGDSGVGKSCLL+R                  KI+T++++GK++KLQ+WDTAGQ
Sbjct: 7   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQ 66
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD 133
           ERFRTITTAYYRGAMGI+LVYDVTDE +F NI+ W + + +HA+D    +LVGNK+DM+
Sbjct: 67  ERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME 125

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  154 bits (389), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 69/119 (57%), Positives = 91/119 (76%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           ++K+LLIGDSGVGKSCLL+R                  KI+T++++GK++KLQ+WDTAGQ
Sbjct: 20  IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQ 79
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD 133
           ERFRTITTAYYRGAMGI+LVYDVTDE +F NI+ W + + +HA+D    +LVGNK+DM+
Sbjct: 80  ERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME 138

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  152 bits (385), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 73/118 (61%), Positives = 89/118 (75%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIGDSGVGKSCLLLR                  KIRTI L+ K +KLQIWDTAGQ
Sbjct: 9   LFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQ 68
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           ERFRTIT++YYRGA GI++VYDVTD  SF+N++ WI+ I+++A +NVNK+LVGNK D+
Sbjct: 69  ERFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCDL 126

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  149 bits (375), Expect = 9e-37,   Method: Compositional matrix adjust.
 Identities = 67/119 (56%), Positives = 88/119 (73%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K+LLIGDSGVGKSCLL+R                  KI+T++++GK++KLQIWDTAGQ
Sbjct: 3   IXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ 62
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD 133
           ERFRTITTAYYRGA GI+LVYD+TDE +F NI+ W + + +HA+D    +LVGNK+D +
Sbjct: 63  ERFRTITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXE 121

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  148 bits (374), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 67/119 (56%), Positives = 88/119 (73%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K+LLIGDSGVGKSCLL+R                  KI+T++++GK++KLQ+WDTAGQ
Sbjct: 3   IXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQ 62
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD 133
           ERFRTITTAYYRGA GI+LVYDVTDE +F NI+ W + + +HA+D    +LVGNK+D +
Sbjct: 63  ERFRTITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXE 121

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  147 bits (372), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 69/122 (56%), Positives = 91/122 (74%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIG+SGVGKSCLLLR                  KI+T+ELDGK +KLQIWDTAGQ
Sbjct: 21  LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ 80
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRG+ GI++VYDVTD+ SFN ++ W++ I+++A+  V K+LVGNK D+ +
Sbjct: 81  ERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKD 140
Query: 135 SK 136
            +
Sbjct: 141 KR 142

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  147 bits (372), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 69/122 (56%), Positives = 91/122 (74%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIG+SGVGKSCLLLR                  KI+T+ELDGK +KLQIWDTAGQ
Sbjct: 8   LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ 67
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRG+ GI++VYDVTD+ SFN ++ W++ I+++A+  V K+LVGNK D+ +
Sbjct: 68  ERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKD 127
Query: 135 SK 136
            +
Sbjct: 128 KR 129

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  147 bits (371), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 69/122 (56%), Positives = 91/122 (74%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLLLIG+SGVGKSCLLLR                  KI+T+ELDGK +KLQIWDTAGQ
Sbjct: 8   LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ 67
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT++YYRG+ GI++VYDVTD+ SFN ++ W++ I+++A+  V K+LVGNK D+ +
Sbjct: 68  ERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKD 127
Query: 135 SK 136
            +
Sbjct: 128 KR 129

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  133 bits (335), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 67/122 (54%), Positives = 84/122 (68%), Gaps = 1/122 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KLL+IGDSGVGKS LLLR                  KIRT+E++G+++KLQIWDTAGQ
Sbjct: 9   LFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQ 68
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT+ YYRG  G+++VYDVT   SF N++ W+  I Q+  D+V +ILVGNK D  E
Sbjct: 69  ERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNC-DDVCRILVGNKNDDPE 127
Query: 135 SK 136
            K
Sbjct: 128 RK 129

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  133 bits (334), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 61/122 (50%), Positives = 82/122 (67%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + KLL+IG+S VGK+  L R                  K++T+    KR+KLQIWDTAGQ
Sbjct: 23  MFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQ 82
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ER+RTITTAYYRGAMG +L+YD+T+E SFN +++W   I+ ++ DN   ILVGNK DM+E
Sbjct: 83  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEE 142
Query: 135 SK 136
            +
Sbjct: 143 ER 144

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  130 bits (328), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 60/122 (49%), Positives = 83/122 (68%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K+L+IG+S VGK+  L R                  K++TI  + KRIKLQIWDTAGQ
Sbjct: 5   MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQ 64
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ER+RTITTAYYRGAMG +L+YD+T+E SFN +++W   I+ ++ DN   +LVGNK DM++
Sbjct: 65  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMED 124
Query: 135 SK 136
            +
Sbjct: 125 ER 126

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  128 bits (321), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 61/124 (49%), Positives = 85/124 (68%), Gaps = 1/124 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K ++IGD+GVGKSCLLL+                    R + +DGK+IKLQIWDTAGQ
Sbjct: 21  LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQ 80
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           E FR+IT +YYRGA G LLVYD+T   +FN++ +W+ +  QH+S N+  +L+GNK+D+ E
Sbjct: 81  ESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDL-E 139
Query: 135 SKRE 138
           S+R+
Sbjct: 140 SRRD 143

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  128 bits (321), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 62/124 (50%), Positives = 84/124 (67%), Gaps = 1/124 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K ++IGD+GVGKSCLLL+                    R I +DGK+IKLQIWDTAGQ
Sbjct: 10  LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQ 69
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           E FR+IT +YYRGA G LLVYD+T   +FN++  W+ +  QH++ N+  +L+GNK+D+ E
Sbjct: 70  ESFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSDL-E 128
Query: 135 SKRE 138
           S+RE
Sbjct: 129 SRRE 132

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  127 bits (320), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 60/118 (50%), Positives = 80/118 (67%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++LIGDSGVGKS LL R                    RT+E++GKRIK QIWDTAGQ
Sbjct: 13  LFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQ 72
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           ER+R IT+AYYRGA+G L+VYD++  SS+ N  +W+  + ++A DNV   L+GNK+D+
Sbjct: 73  ERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDL 130

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  126 bits (317), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 62/126 (49%), Positives = 81/126 (64%), Gaps = 1/126 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + KLLLIG+S VGK+  L R                  K++T+    KRIKLQIWDTAGQ
Sbjct: 22  MFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQ 81
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ER+RTITTAYYRGAMG LL+YD+ ++ SF  +++W   I+ ++ DN   ILVGNK D+ E
Sbjct: 82  ERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDL-E 140
Query: 135 SKREAP 140
            +R  P
Sbjct: 141 DERVVP 146

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  125 bits (315), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 55/120 (45%), Positives = 82/120 (68%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L KL+L+GD+ VGK+C++ R                   ++T+E+ GKR+KLQIWDTAGQ
Sbjct: 29  LFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQ 88
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFRTIT +YYR A G +L YD+T  SSF ++ +WI ++ ++A  N+ ++L+GNK+D+ E
Sbjct: 89  ERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSE 148

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  125 bits (313), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 58/122 (47%), Positives = 83/122 (68%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++LIG++GVGK+CL+ R                   I+T+E++G+++KLQIWDTAGQ
Sbjct: 26  LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQ 85
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFR+IT +YYR A  ++L YD+T E SF  +  W+R IEQ+AS+ V  +LVGNK D+ E
Sbjct: 86  ERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAE 145
Query: 135 SK 136
            +
Sbjct: 146 RR 147

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  122 bits (307), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 58/118 (49%), Positives = 77/118 (65%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++LIGDSGVGKS LL R                    R+I++DGK IK QIWDTAGQ
Sbjct: 20  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ 79
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           ER+R IT+AYYRGA+G LLVYD+    ++ N+  W++ +  HA  N+  +LVGNK+D+
Sbjct: 80  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 137

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  122 bits (307), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 58/118 (49%), Positives = 77/118 (65%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++LIGDSGVGKS LL R                    R+I++DGK IK QIWDTAGQ
Sbjct: 29  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ 88
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           ER+R IT+AYYRGA+G LLVYD+    ++ N+  W++ +  HA  N+  +LVGNK+D+
Sbjct: 89  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 146

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  122 bits (306), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 58/118 (49%), Positives = 77/118 (65%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++LIGDSGVGKS LL R                    R+I++DGK IK QIWDTAGQ
Sbjct: 5   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ 64
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           ER+R IT+AYYRGA+G LLVYD+    ++ N+  W++ +  HA  N+  +LVGNK+D+
Sbjct: 65  ERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 122

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  122 bits (305), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 64/144 (44%), Positives = 87/144 (60%), Gaps = 11/144 (7%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++LIGDSGVGKS LL R                    RTIE++ K+IK QIWDTAG 
Sbjct: 10  LFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDTAGL 69
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM-- 132
           ER+R IT+AYYRGA+G L+VYD++  SS+ N  +W+  + ++A DNV   L+GNK+D+  
Sbjct: 70  ERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGNKSDLAH 129
Query: 133 ------DESKREAPFCLHETILLT 150
                 DE+K    F +   +L T
Sbjct: 130 LRAVPTDEAKN---FAMENQMLFT 150

>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 =  120 bits (302), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 57/121 (47%), Positives = 78/121 (64%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            K+L+IG+S VGK+  L R                  K++TI  + KRIKLQIWDTAG E
Sbjct: 9   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLE 68
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+RTITTAYYRGA G +L YD+T+E SFN +++W   I+ ++ DN   +LVGNK D ++ 
Sbjct: 69  RYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDXEDE 128
Query: 136 K 136
           +
Sbjct: 129 R 129

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  119 bits (299), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 57/118 (48%), Positives = 76/118 (64%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++LIGDSGVGKS LL R                    R+I++DGK IK QIWDTAG 
Sbjct: 8   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 67
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           ER+R IT+AYYRGA+G LLVYD+    ++ N+  W++ +  HA  N+  +LVGNK+D+
Sbjct: 68  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 125

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  119 bits (298), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 57/118 (48%), Positives = 76/118 (64%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++LIGDSGVGKS LL R                    R+I++DGK IK QIWDTAG 
Sbjct: 29  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 88
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           ER+R IT+AYYRGA+G LLVYD+    ++ N+  W++ +  HA  N+  +LVGNK+D+
Sbjct: 89  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 146

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  119 bits (297), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 57/118 (48%), Positives = 75/118 (63%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++LIGDSGVGKS LL R                    R+I++DGK IK QIWDTAG 
Sbjct: 5   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 64
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           ER+R IT+AYYRGA+G LLVYD+    ++ N+  W++ +  HA  N+   LVGNK+D+
Sbjct: 65  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDL 122

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  119 bits (297), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 57/118 (48%), Positives = 75/118 (63%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++LIGDSGVGKS LL R                    R+I++DGK IK QIWDTAG 
Sbjct: 11  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 70
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           ER+R IT+AYYRGA+G LLVYD+    ++ N+  W++ +  HA  N+   LVGNK+D+
Sbjct: 71  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDL 128

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  117 bits (293), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 56/123 (45%), Positives = 85/123 (69%), Gaps = 1/123 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +++++IG  GVGK+ L+ R                  KI+T+EL GK+I+LQIWDTAGQE
Sbjct: 27  LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQE 86
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RF +IT+AYYR A GI+LVYD+T + +F+++  W++ I+++AS++   +LVGNK D  E+
Sbjct: 87  RFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDC-ET 145
Query: 136 KRE 138
            RE
Sbjct: 146 DRE 148

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  116 bits (291), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 59/119 (49%), Positives = 79/119 (66%), Gaps = 1/119 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIEL-DGKRIKLQIWDTAG 73
           L K++LIGDSGVGKS LL R                    ++I+L + K IK QIWDTAG
Sbjct: 7   LFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTAG 66
Query: 74  QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           QER+R IT+AYYRGA+G LLVYD+T ++SF NI  W++ +  +A  N+  +LVGNK+D+
Sbjct: 67  QERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKSDL 125

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  116 bits (290), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 56/127 (44%), Positives = 81/127 (63%), Gaps = 1/127 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K ++IGD GVGKSCLL +                    R IE+ G++IKLQIWDTAGQ
Sbjct: 15  IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQ 74
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFR +T +YYRGA G L+VYD+T  S++N++ +W+ +     + N   IL+GNKAD+ E
Sbjct: 75  ERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADL-E 133
Query: 135 SKREAPF 141
           ++R+  +
Sbjct: 134 AQRDVTY 140

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  115 bits (288), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 58/127 (45%), Positives = 77/127 (60%), Gaps = 1/127 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K L+IG++G GKSCLL +                    + I + GK +KLQIWDTAGQ
Sbjct: 11  LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQ 70
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFR++T +YYRGA G LLVYD+T   ++N + NW+ +    AS N+  IL GNK D+D 
Sbjct: 71  ERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD- 129
Query: 135 SKREAPF 141
           + RE  F
Sbjct: 130 ADREVTF 136

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  115 bits (288), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 58/127 (45%), Positives = 77/127 (60%), Gaps = 1/127 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K L+IG++G GKSCLL +                    + I + GK +KLQIWDTAGQ
Sbjct: 10  LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQ 69
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFR++T +YYRGA G LLVYD+T   ++N + NW+ +    AS N+  IL GNK D+D 
Sbjct: 70  ERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD- 128
Query: 135 SKREAPF 141
           + RE  F
Sbjct: 129 ADREVTF 135

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  114 bits (286), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 53/117 (45%), Positives = 81/117 (69%), Gaps = 1/117 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXX-XXKIRTIELDGKRIKLQIWDTAGQ 74
            K++L+GDSGVGK+CLL+R                   + + +++DG ++KLQ+WDTAGQ
Sbjct: 11  FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ 70
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           ERFR++T AYYR A  +LL+YDVT+++SF+NI+ W+  I ++A  +V  +L+GNK D
Sbjct: 71  ERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVD 127

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  114 bits (286), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 57/127 (44%), Positives = 76/127 (59%), Gaps = 1/127 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K L+IG +G GKSCLL +                    R + + GK +KLQIWDTAGQ
Sbjct: 25  LFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQ 84
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFR++T +YYRGA G LLVYD+T   ++N++  W+ +    AS N+  IL GNK D+D 
Sbjct: 85  ERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLD- 143
Query: 135 SKREAPF 141
            +RE  F
Sbjct: 144 PEREVTF 150

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  114 bits (285), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 59/124 (47%), Positives = 80/124 (64%), Gaps = 3/124 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +K+L+IG+SGVGKS LLLR                  K++TI +DG + KL IWDTAGQE
Sbjct: 16  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 75
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN-VNKILVGNKADMDE 134
           RFRT+T +YYRGA G++LVYDVT   +F  + NW+  +E + + N +   LVGNK  +D+
Sbjct: 76  RFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVGNK--IDK 133
Query: 135 SKRE 138
             RE
Sbjct: 134 ENRE 137

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  114 bits (284), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 55/127 (43%), Positives = 80/127 (62%), Gaps = 1/127 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K ++IGD GVGKSCLL +                    R IE+ G++IKLQIWDTAGQ
Sbjct: 30  IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQ 89
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
            RFR +T +YYRGA G L+VYD+T  S++N++ +W+ +     + N   IL+GNKAD+ E
Sbjct: 90  GRFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADL-E 148
Query: 135 SKREAPF 141
           ++R+  +
Sbjct: 149 AQRDVTY 155

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score =  112 bits (280), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 58/128 (45%), Positives = 80/128 (62%), Gaps = 1/128 (0%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           K++L GD+ VGKS  L+R                  +++T+ +DG+R  LQ+WDTAGQER
Sbjct: 30  KIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQER 89
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM-DES 135
           FR+I  +Y+R A G+LL+YDVT E SF NIR W+  IE  A + V  +LVGNKAD+ D +
Sbjct: 90  FRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTA 149
Query: 136 KREAPFCL 143
             E   C+
Sbjct: 150 ATEGQKCV 157

>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 =  112 bits (280), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 57/127 (44%), Positives = 76/127 (59%), Gaps = 1/127 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K L+IG++G GKSCLL +                    + I + GK +KLQIWDTAG 
Sbjct: 8   LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGL 67
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ERFR++T +YYRGA G LLVYD+T   ++N + NW+ +    AS N+  IL GNK D+D 
Sbjct: 68  ERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD- 126
Query: 135 SKREAPF 141
           + RE  F
Sbjct: 127 ADREVTF 133

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  106 bits (265), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 52/126 (41%), Positives = 76/126 (60%), Gaps = 1/126 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K++LIG+SGVGK+ LL R                    RT+ L    +K QIWDTAG 
Sbjct: 10  VFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGL 69
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ER+R IT+AYYRGA+G LLV+D+T   ++  +  W++ +  HA   +  +LVGNK+D+ +
Sbjct: 70  ERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQ 129
Query: 135 SKREAP 140
           + RE P
Sbjct: 130 A-REVP 134

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  106 bits (264), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 51/126 (40%), Positives = 75/126 (59%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+E SF   +NW++ +++ AS N+   L GNKAD+  +
Sbjct: 68  RYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL-AN 126
Query: 136 KREAPF 141
           KR   F
Sbjct: 127 KRAVDF 132

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  106 bits (264), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 52/126 (41%), Positives = 76/126 (60%), Gaps = 1/126 (0%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K++LIG+SGVGK+ LL R                    RT+ L    +K QIWDTAG 
Sbjct: 25  VFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGL 84
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           ER+R IT+AYYRGA+G LLV+D+T   ++  +  W++ +  HA   +  +LVGNK+D+ +
Sbjct: 85  ERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQ 144
Query: 135 SKREAP 140
           + RE P
Sbjct: 145 A-REVP 149

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  106 bits (264), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 51/126 (40%), Positives = 75/126 (59%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+E SF   +NW++ +++ AS N+   L GNKAD+  +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL-AN 125
Query: 136 KREAPF 141
           KR   F
Sbjct: 126 KRAVDF 131

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  106 bits (264), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 51/126 (40%), Positives = 75/126 (59%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+E SF   +NW++ +++ AS N+   L GNKAD+  +
Sbjct: 68  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL-AN 126
Query: 136 KREAPF 141
           KR   F
Sbjct: 127 KRAVDF 132

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  105 bits (263), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 50/126 (39%), Positives = 74/126 (58%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAGQE
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQE 65
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+  +F   +NW++ +++ AS N+   L GNKAD+  S
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADL-AS 124
Query: 136 KREAPF 141
           KR   F
Sbjct: 125 KRAVEF 130

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  105 bits (263), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 51/126 (40%), Positives = 75/126 (59%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAGQE
Sbjct: 7   FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+E SF   +NW++ +++ AS N+   L GNKAD+  +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL-AN 125
Query: 136 KREAPF 141
           KR   F
Sbjct: 126 KRAVDF 131

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  105 bits (262), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 50/126 (39%), Positives = 74/126 (58%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAGQE
Sbjct: 4   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 63
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+  +F   +NW++ +++ AS N+   L GNKAD+  S
Sbjct: 64  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADL-AS 122
Query: 136 KREAPF 141
           KR   F
Sbjct: 123 KRAVEF 128

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score =  105 bits (262), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 54/133 (40%), Positives = 82/133 (61%), Gaps = 11/133 (8%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIEL----------DGKRI 64
           LIK L +GDSGVGK+ +L +                  + + +             G+RI
Sbjct: 11  LIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRI 70
Query: 65  KLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNK 123
            LQ+WDTAG ERFR++TTA++R AMG LL++D+T+E SF N+RNWI  ++ HA S+N + 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDI 130
Query: 124 ILVGNKADMDESK 136
           +L GNK+D+++ +
Sbjct: 131 VLCGNKSDLEDQR 143

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  105 bits (261), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 51/126 (40%), Positives = 75/126 (59%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAGQE
Sbjct: 7   FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+E SF   +NW++ +++ AS N+   L GNKAD+  +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL-AN 125
Query: 136 KREAPF 141
           KR   F
Sbjct: 126 KRAVDF 131

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  105 bits (261), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 51/126 (40%), Positives = 75/126 (59%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAGQE
Sbjct: 7   FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+E SF   +NW++ +++ AS N+   L GNKAD+  +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL-AN 125
Query: 136 KREAPF 141
           KR   F
Sbjct: 126 KRAVDF 131

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  104 bits (260), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 51/126 (40%), Positives = 75/126 (59%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAGQE
Sbjct: 7   FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+E SF   +NW++ +++ AS N+   L GNKAD+  +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL-AN 125
Query: 136 KREAPF 141
           KR   F
Sbjct: 126 KRAVDF 131

>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 =  104 bits (259), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 48/120 (40%), Positives = 76/120 (63%), Gaps = 2/120 (1%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K+++IGDS VGK+CL  R                  + R +++DG+RIK+Q+WDTAGQ
Sbjct: 29  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 88
Query: 75  ERFR-TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADM 132
           ERFR ++   YYR    ++ VYD T+ +SF+++  WI   +QH  ++++ +ILVGNK D+
Sbjct: 89  ERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 148

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  104 bits (259), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 51/126 (40%), Positives = 75/126 (59%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAGQE
Sbjct: 7   FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+E SF   +NW++ +++ AS N+   L GNKAD+  +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL-AN 125
Query: 136 KREAPF 141
           KR   F
Sbjct: 126 KRAVDF 131

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score =  103 bits (258), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 48/120 (40%), Positives = 77/120 (64%), Gaps = 2/120 (1%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K+++IGDS VGK+CL  R                  + R +++DG+RIK+Q+WDTAGQ
Sbjct: 20  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 79
Query: 75  ERFR-TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADM 132
           ERFR ++   YYR    ++ VYD+T+ +SF+++  WI   +QH  ++++ +ILVGNK D+
Sbjct: 80  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 139

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  103 bits (256), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 50/126 (39%), Positives = 74/126 (58%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+E SF   +NW++ +++ AS N+   L GNKAD+  +
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL-AN 124
Query: 136 KREAPF 141
           KR   F
Sbjct: 125 KRAVDF 130

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  102 bits (255), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 51/133 (38%), Positives = 81/133 (60%), Gaps = 11/133 (8%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGK----------RI 64
           LIKLL +GDSGVGK+  L R                  + + +  + +          ++
Sbjct: 25  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKV 84
Query: 65  KLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNK 123
            LQ+WDTAGQERFR++TTA++R AMG LL++D+T + SF N+RNW+  ++ +A  +N + 
Sbjct: 85  HLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDI 144
Query: 124 ILVGNKADMDESK 136
           +L+GNKAD+ + +
Sbjct: 145 VLIGNKADLPDQR 157

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  102 bits (253), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 49/126 (38%), Positives = 73/126 (57%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +T+ LD   +K +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           R+ ++   YYRGA   ++VYD+T+  +F   +NW++ +++ AS N+   L GNKAD+  S
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADL-AS 124
Query: 136 KREAPF 141
           KR   F
Sbjct: 125 KRAVEF 130

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score =  101 bits (251), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 54/133 (40%), Positives = 80/133 (60%), Gaps = 11/133 (8%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELD--------GKRIK- 65
           LIKLL +GDSGVGK+  L R                  + + +  D        GK  K 
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 66  -LQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNK 123
            LQ+WDTAG ERFR++TTA++R AMG LL++D+T + SF N+RNW+  ++ +A  +N + 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDI 130
Query: 124 ILVGNKADMDESK 136
           +L+GNKAD+ + +
Sbjct: 131 VLIGNKADLPDQR 143

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score =  100 bits (249), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 54/133 (40%), Positives = 80/133 (60%), Gaps = 11/133 (8%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELD--------GKRIK- 65
           LIKLL +GDSGVGK+  L R                  + + +  D        GK  K 
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 66  -LQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNK 123
            LQ+WDTAG ERFR++TTA++R AMG LL++D+T + SF N+RNW+  ++ +A  +N + 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDI 130
Query: 124 ILVGNKADMDESK 136
           +L+GNKAD+ + +
Sbjct: 131 VLIGNKADLPDQR 143

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 99.0 bits (245), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 43/117 (36%), Positives = 70/117 (59%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+G+S VGKS L+LR                    +++ LD   +K +IWDTAGQE
Sbjct: 9   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIWDTAGQE 68
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           R+ ++   YYRGA   ++VYD+T++ +F   + W++ +++ AS ++   L GNKAD+
Sbjct: 69  RYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNKADL 125

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 98.2 bits (243), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 42/117 (35%), Positives = 67/117 (57%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +K+ L+GD+GVGKS ++ R                    +T++   +  K  IWDTAGQE
Sbjct: 6   LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQE 65
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           RFR +   YYRG+   ++VYD+T E +F+ ++NW+R + QH   ++   + GNK D+
Sbjct: 66  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDL 122

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 98.2 bits (243), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 51/130 (39%), Positives = 79/130 (60%), Gaps = 9/130 (6%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIK-LQIWDTAG 73
           ++K++++GDSGVGK+ L+ R                    + + +DG ++  +Q+WDTAG
Sbjct: 8   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 67
Query: 74  QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNK------ILVG 127
           QERF+++  A+YRGA   +LVYDVT+ SSF NI++W      HA  NVN       +++G
Sbjct: 68  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHA--NVNSPETFPFVILG 125
Query: 128 NKADMDESKR 137
           NK D +ESK+
Sbjct: 126 NKIDAEESKK 135

>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 = 96.7 bits (239), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 53/133 (39%), Positives = 77/133 (57%), Gaps = 11/133 (8%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELD--------GKRIK- 65
           LIKLL +GDSGVGK+  L R                  + + +  D        GK  K 
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 66  -LQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNK 123
            LQ+WDTAG ERFR++TTA++R A G LL +D+T + SF N+RNW   ++ +A  +N + 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDI 130
Query: 124 ILVGNKADMDESK 136
           +L+GNKAD+ + +
Sbjct: 131 VLIGNKADLPDQR 143

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 96.7 bits (239), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 53/133 (39%), Positives = 77/133 (57%), Gaps = 11/133 (8%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELD--------GKRIK- 65
           LIKLL +GDSGVGK+  L R                  + + +  D        GK  K 
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 66  -LQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNK 123
            LQ+WDTAG ERFR++TTA++R A G LL +D+T + SF N+RNW   ++ +A  +N + 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDI 130
Query: 124 ILVGNKADMDESK 136
           +L+GNKAD+ + +
Sbjct: 131 VLIGNKADLPDQR 143

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 95.9 bits (237), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 41/121 (33%), Positives = 72/121 (59%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+L+GD G GKS L+LR                    +T+ ++   +K +IWDTAGQER
Sbjct: 14  KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQER 73
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK 136
           + ++   YYRGA   ++V+DVT+++SF   + W++ ++   + N+   L GNK+D+ +++
Sbjct: 74  YHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDAR 133
Query: 137 R 137
           +
Sbjct: 134 K 134

>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 = 95.5 bits (236), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 41/117 (35%), Positives = 66/117 (56%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +K+ L+GD+GVGKS ++ R                    +T++   +  K  IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           RFR +   YYRG+   ++VYD+T E +F+ ++NW+R + QH   ++   + GNK D+
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDL 123

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 43/121 (35%), Positives = 70/121 (57%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            K++L+G+  VGK+ L+LR                    + + + GKR+ L IWDTAGQE
Sbjct: 21  FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQE 80
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RF  +   YYR + G +LVYD+TDE SF  ++NW++ + +   + +   +VGNK D+++ 
Sbjct: 81  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 140
Query: 136 K 136
           +
Sbjct: 141 R 141

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 94.7 bits (234), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 42/126 (33%), Positives = 70/126 (55%), Gaps = 1/126 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +K+ L+GD+GVGKS ++ R                    +T+    +  K  IWDTAGQE
Sbjct: 24  LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 83
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RF ++   YYRG+   ++VYD+T + SF  ++ W++ +++H  +N+   + GNK D+ + 
Sbjct: 84  RFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI 143
Query: 136 KREAPF 141
            RE P 
Sbjct: 144 -REVPL 148

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 94.7 bits (234), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 43/121 (35%), Positives = 70/121 (57%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            K++L+G+  VGK+ L+LR                    + + + GKR+ L IWDTAGQE
Sbjct: 7   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RF  +   YYR + G +LVYD+TDE SF  ++NW++ + +   + +   +VGNK D+++ 
Sbjct: 67  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 126
Query: 136 K 136
           +
Sbjct: 127 R 127

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 94.7 bits (234), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 43/121 (35%), Positives = 70/121 (57%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            K++L+G+  VGK+ L+LR                    + + + GKR+ L IWDTAGQE
Sbjct: 7   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RF  +   YYR + G +LVYD+TDE SF  ++NW++ + +   + +   +VGNK D+++ 
Sbjct: 67  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 126
Query: 136 K 136
           +
Sbjct: 127 R 127

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 92.4 bits (228), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 44/116 (37%), Positives = 66/116 (56%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IKL+L+G++ VGKS ++LR                    + + ++   +K +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           RF ++   YYR A   L+VYDVT   SF   R+W++ + + AS ++   LVGNK D
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKID 119

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 92.0 bits (227), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 47/126 (37%), Positives = 72/126 (57%), Gaps = 4/126 (3%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L+K++L+GD GVGKS L+ R                    R +E+DG+ + LQIWDTAGQ
Sbjct: 7   LLKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQ 66
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA----SDNVNKILVGNKA 130
           ERF+++ T +YRGA   LL + V D  SF N+ NW +    +A     ++   +++GNK 
Sbjct: 67  ERFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKV 126
Query: 131 DMDESK 136
           D ++ +
Sbjct: 127 DKEDRQ 132

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 91.3 bits (225), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 46/124 (37%), Positives = 69/124 (55%), Gaps = 4/124 (3%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++L+GD GVGKS L+ R                    + +E+DG  + +QIWDTAGQ
Sbjct: 11  LFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 70
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA----SDNVNKILVGNKA 130
           ERFR++ T +YRG+   LL + V D  SF N+ NW +    +A     ++   +++GNK 
Sbjct: 71  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKT 130
Query: 131 DMDE 134
           D+ E
Sbjct: 131 DIKE 134

>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 = 90.9 bits (224), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 46/124 (37%), Positives = 69/124 (55%), Gaps = 4/124 (3%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++L+GD GVGKS L+ R                    + +E+DG  + +QIWDTAGQ
Sbjct: 9   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 68
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA----SDNVNKILVGNKA 130
           ERFR++ T +YRG+   LL + V D  SF N+ NW +    +A     ++   +++GNK 
Sbjct: 69  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 128
Query: 131 DMDE 134
           D+ E
Sbjct: 129 DISE 132

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 90.5 bits (223), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 46/124 (37%), Positives = 69/124 (55%), Gaps = 4/124 (3%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++L+GD GVGKS L+ R                    + +E+DG  + +QIWDTAGQ
Sbjct: 7   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 66
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA----SDNVNKILVGNKA 130
           ERFR++ T +YRG+   LL + V D  SF N+ NW +    +A     ++   +++GNK 
Sbjct: 67  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 126
Query: 131 DMDE 134
           D+ E
Sbjct: 127 DISE 130

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 83.2 bits (204), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 42/121 (34%), Positives = 68/121 (56%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+ +G+  VGK+ ++ R                    +T+ LD   ++LQ+WDTAGQER
Sbjct: 3   KLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQER 62
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK 136
           FR++  +Y R +   ++VYD+T+  SF N   WI++I      +V   LVGNK D+ + +
Sbjct: 63  FRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLR 122
Query: 137 R 137
           +
Sbjct: 123 K 123

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 82.8 bits (203), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 40/122 (32%), Positives = 68/122 (55%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+ +G+  VGK+ L+ R                    +T+ L+ + I+LQ+WDTAGQE
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RFR++  +Y R +   ++VYD+T+ +SF     WI ++      +V  +LVGNK D+ + 
Sbjct: 67  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 126
Query: 136 KR 137
           ++
Sbjct: 127 RQ 128

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 44/139 (31%), Positives = 77/139 (55%), Gaps = 8/139 (5%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L+K++++GDSGVGK+ L+ +                    + + +D + + +QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKILVGNKA 130
           ERF+++  A+YRGA   +LV+DVT  ++F  + +W       AS    +N   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 131 DMDE----SKREAPFCLHE 145
           D++     +KR   +C  +
Sbjct: 128 DLENRQVATKRAQAWCYSK 146

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 82.0 bits (201), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 69/122 (56%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+ +G+  VGK+ L+ R                    +T+ L+ + ++LQ+WDTAGQE
Sbjct: 15  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 74
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RFR++  +Y R +   ++VYD+T+ +SF+    WI ++      +V  +LVGNK D+ + 
Sbjct: 75  RFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDK 134
Query: 136 KR 137
           ++
Sbjct: 135 RQ 136

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 82.0 bits (201), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 44/139 (31%), Positives = 77/139 (55%), Gaps = 8/139 (5%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L+K++++GDSGVGK+ L+ +                    + + +D + + +QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKILVGNKA 130
           ERF+++  A+YRGA   +LV+DVT  ++F  + +W       AS    +N   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 131 DMDE----SKREAPFCLHE 145
           D++     +KR   +C  +
Sbjct: 128 DLENRQVATKRAQAWCYSK 146

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 81.3 bits (199), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 44/139 (31%), Positives = 76/139 (54%), Gaps = 8/139 (5%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L+K++++GDSGVGK+ L+ +                    + + +D + + +QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKILVGNKA 130
           ERF+++  A+YRGA   +LV+DVT  ++F  + +W       AS    +N   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 131 DMDE----SKREAPFCLHE 145
           D +     +KR   +C  +
Sbjct: 128 DFENRQVATKRAQAWCYSK 146

>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 = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 68/122 (55%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+ +G+  VGK+ L+ R                    +T+ L+ + ++LQ+WDTAGQE
Sbjct: 2   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 61
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RFR++  +Y R +   ++VYD+T+ +SF     WI ++      +V  +LVGNK D+ + 
Sbjct: 62  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 121
Query: 136 KR 137
           ++
Sbjct: 122 RQ 123

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 68/122 (55%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+ +G+  VGK+ L+ R                    +T+ L+ + ++LQ+WDTAGQE
Sbjct: 3   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RFR++  +Y R +   ++VYD+T+ +SF     WI ++      +V  +LVGNK D+ + 
Sbjct: 63  RFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLADK 122
Query: 136 KR 137
           ++
Sbjct: 123 RQ 124

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 67/122 (54%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+ +G+  VGK+ L+ R                    +T+ L+ + I+LQ+WDTAG E
Sbjct: 14  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLE 73
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RFR++  +Y R +   ++VYD+T+ +SF     WI ++      +V  +LVGNK D+ + 
Sbjct: 74  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 133
Query: 136 KR 137
           ++
Sbjct: 134 RQ 135

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 78.6 bits (192), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 43/139 (30%), Positives = 76/139 (54%), Gaps = 8/139 (5%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L+K++++GDSGVGK+ L+ +                    + + +D + + +QIWDTAG 
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGL 67
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKILVGNKA 130
           ERF+++  A+YRGA   +LV+DVT  ++F  + +W       AS    +N   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 131 DMDE----SKREAPFCLHE 145
           D++     +KR   +C  +
Sbjct: 128 DLENRQVATKRAQAWCYSK 146

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 77.8 bits (190), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 41/117 (35%), Positives = 61/117 (52%), Gaps = 1/117 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK++++G+  VGKS ++ R                    R I+++ + ++L +WDTAGQE
Sbjct: 6   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE 65
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
            F  IT AYYRGA   +LV+  TD  SF  I +W   +     D +   LV NK D+
Sbjct: 66  EFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGD-IPTALVQNKIDL 121

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 77.0 bits (188), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 38/122 (31%), Positives = 67/122 (54%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+ +G+  VGK+ L+ R                    +T+ L+ + ++LQ+WDTAG E
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RFR++  +Y R +   ++VYD+T+ +SF     WI ++      +V  +LVGNK D+ + 
Sbjct: 67  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 126
Query: 136 KR 137
           ++
Sbjct: 127 RQ 128

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 76.6 bits (187), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 38/122 (31%), Positives = 67/122 (54%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+ +G+  VGK+ L+ R                    +T+ L+ + ++LQ+WDTAG E
Sbjct: 17  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 76
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RFR++  +Y R +   ++VYD+T+ +SF     WI ++      +V  +LVGNK D+ + 
Sbjct: 77  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 136
Query: 136 KR 137
           ++
Sbjct: 137 RQ 138

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 122
Query: 136 KREA 139
           K +A
Sbjct: 123 KVKA 126

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 134
Query: 136 KREA 139
           K +A
Sbjct: 135 KVKA 138

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 71  KFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 136 KREA 139
           K +A
Sbjct: 130 KVKA 133

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 136 KREA 139
           K +A
Sbjct: 130 KVKA 133

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 134
Query: 136 KREA 139
           K +A
Sbjct: 135 KVKA 138

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 136 KREA 139
           K +A
Sbjct: 130 KVKA 133

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 136 KREA 139
           K +A
Sbjct: 130 KVKA 133

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 136 KREA 139
           K +A
Sbjct: 130 KVKA 133

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 136 KREA 139
           K +A
Sbjct: 130 KVKA 133

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 60/124 (48%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++ +DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 71  KFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 136 KREA 139
           K +A
Sbjct: 130 KVKA 133

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 70.1 bits (170), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 36/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           ++  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 71  KYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 136 KREA 139
           K +A
Sbjct: 130 KVKA 133

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 69.7 bits (169), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                     +   +   IK  +WDTAG E
Sbjct: 6   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 65
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ E 
Sbjct: 66  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGNKVDVKER 124
Query: 136 KREA 139
           K +A
Sbjct: 125 KVKA 128

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 69.7 bits (169), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                     +   +   IK  +WDTAG E
Sbjct: 5   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 64
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ E 
Sbjct: 65  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGNKVDVKER 123
Query: 136 KREA 139
           K +A
Sbjct: 124 KVKA 127

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 69.3 bits (168), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                     +   +   IK  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 72
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ E 
Sbjct: 73  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGNKVDVKER 131
Query: 136 KREA 139
           K +A
Sbjct: 132 KVKA 135

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/124 (34%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    I  IE+DGK+++L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQED 85
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRQD 144
Query: 134 ESKR 137
           E  R
Sbjct: 145 EHTR 148

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/124 (34%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    I  IE+DGK+++L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQED 85
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFXPNVPIILVGNKKDLRQD 144
Query: 134 ESKR 137
           E  R
Sbjct: 145 EHTR 148

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 40/122 (32%), Positives = 63/122 (51%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +K++L+GD G GK+ LL+                    +  +++ GK + L IWDTAGQ+
Sbjct: 35  VKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMV-NLQVKGKPVHLHIWDTAGQD 93
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADMDE 134
            +  +   +Y  A  +LL +DVT  +SF+NI N W   +  H    V  I+VG K D+ +
Sbjct: 94  DYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEV-NHFCKKVPIIVVGCKTDLRK 152
Query: 135 SK 136
            K
Sbjct: 153 DK 154

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 65
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 124
Query: 134 ESKR 137
           E  R
Sbjct: 125 EHTR 128

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 63
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 122
Query: 134 ESKR 137
           E  R
Sbjct: 123 EHTR 126

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 11  KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 69
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 70  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 128
Query: 134 ESKR 137
           E  R
Sbjct: 129 EHTR 132

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 68.6 bits (166), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/124 (34%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    I  IE+DGK+++L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQED 65
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRQD 124
Query: 134 ESKR 137
           E  R
Sbjct: 125 EHTR 128

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 68.6 bits (166), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 63
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 122
Query: 134 ESKR 137
           E  R
Sbjct: 123 EHTR 126

>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 = 68.6 bits (166), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 8   KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 66
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 125
Query: 134 ESKR 137
           E  R
Sbjct: 126 EHTR 129

>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 = 68.6 bits (166), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 67
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 126
Query: 134 ESKR 137
           E  R
Sbjct: 127 EHTR 130

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 65
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 124
Query: 134 ESKR 137
           E  R
Sbjct: 125 EHTR 128

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 36/124 (29%), Positives = 60/124 (48%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAG E
Sbjct: 7   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 67  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 125
Query: 136 KREA 139
           K +A
Sbjct: 126 KVKA 129

>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 = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 8   KLVIVGDVACGKTCLLI-VFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 66
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 125
Query: 134 ESKR 137
           E  R
Sbjct: 126 EHTR 129

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 10  KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 68
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 127
Query: 134 ESKR 137
           E  R
Sbjct: 128 EHTR 131

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 65
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 124
Query: 134 ESKR 137
           E  R
Sbjct: 125 EHTR 128

>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 = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 67
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 126
Query: 134 ESKR 137
           E  R
Sbjct: 127 EHTR 130

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 36/124 (29%), Positives = 60/124 (48%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 72
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 73  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 131
Query: 136 KREA 139
           K +A
Sbjct: 132 KVKA 135

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 62/124 (50%), Gaps = 3/124 (2%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
            IK + +GD  VGK+C+L+                       + +DG  + L +WDTAGQ
Sbjct: 6   FIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVV-VDGNTVNLGLWDTAGQ 64
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMD 133
           E +  +    YRGA   +L + +  ++S+ N+ + WI  + +H +  V  ILVG K D+ 
Sbjct: 65  EDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPEL-RHYAPGVPIILVGTKLDLR 123
Query: 134 ESKR 137
           + K+
Sbjct: 124 DDKQ 127

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 36/124 (29%), Positives = 60/124 (48%), Gaps = 1/124 (0%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD G GK+  + R                         +   IK  +WDTAG E
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 70
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+ + 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 136 KREA 139
           K +A
Sbjct: 130 KVKA 133

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 65
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 124
Query: 134 ESKR 137
           E  R
Sbjct: 125 EHTR 128

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 39/117 (33%), Positives = 58/117 (49%), Gaps = 3/117 (2%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLI-VFSKDEFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 85
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM 132
           +  +    Y     IL+ + V    S  NI   W+  + +H   NV  ILV NK D+
Sbjct: 86  YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEV-KHFCPNVPIILVANKKDL 141

>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 = 67.8 bits (164), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 61/124 (49%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 67
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 126
Query: 134 ESKR 137
           E  R
Sbjct: 127 EHTR 130

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score = 67.4 bits (163), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 39/124 (31%), Positives = 66/124 (53%), Gaps = 2/124 (1%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++++G  GVGKS L L+                  + + + LDG+ +++ I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 62
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD-NVNKILVGNKADMD 133
           E +  I   Y+R   G L V+ +T+  SF    ++   I +   D NV  +LVGNK+D++
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122
Query: 134 ESKR 137
           + ++
Sbjct: 123 DKRQ 126

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 67.4 bits (163), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 39/117 (33%), Positives = 57/117 (48%), Gaps = 3/117 (2%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAGQE 
Sbjct: 7   KLVIVGDVACGKTCLLI-VFSKDQFPAVYVPTVFENYVADIEVDGKQVELALWDTAGQED 65
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM 132
           +       Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+
Sbjct: 66  YDRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDL 121

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 67.4 bits (163), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 39/124 (31%), Positives = 66/124 (53%), Gaps = 2/124 (1%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++++G  GVGKS L L+                  + + + LDG+ +++ I DTAGQ
Sbjct: 14  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 72
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD-NVNKILVGNKADMD 133
           E +  I   Y+R   G L V+ +T+  SF    ++   I +   D NV  +LVGNK+D++
Sbjct: 73  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 132
Query: 134 ESKR 137
           + ++
Sbjct: 133 DKRQ 136

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score = 67.4 bits (163), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 39/124 (31%), Positives = 66/124 (53%), Gaps = 2/124 (1%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++++G  GVGKS L L+                  + + + LDG+ +++ I DTAGQ
Sbjct: 18  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 76
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD-NVNKILVGNKADMD 133
           E +  I   Y+R   G L V+ +T+  SF    ++   I +   D NV  +LVGNK+D++
Sbjct: 77  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 136
Query: 134 ESKR 137
           + ++
Sbjct: 137 DKRQ 140

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 67.4 bits (163), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 39/124 (31%), Positives = 66/124 (53%), Gaps = 2/124 (1%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++++G  GVGKS L L+                  + + + LDG+ +++ I DTAGQ
Sbjct: 6   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 64
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD-NVNKILVGNKADMD 133
           E +  I   Y+R   G L V+ +T+  SF    ++   I +   D NV  +LVGNK+D++
Sbjct: 65  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 124
Query: 134 ESKR 137
           + ++
Sbjct: 125 DKRQ 128

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 67/121 (55%), Gaps = 2/121 (1%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++                  + + +E+D ++  L+I DTAG E+
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDAQQCMLEILDTAGTEQ 63
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDES 135
           F  +   Y +   G  LVY +T +S+FN++++    I +   +D+V  ILVGNK D+++ 
Sbjct: 64  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDE 123
Query: 136 K 136
           +
Sbjct: 124 R 124

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 39/128 (30%), Positives = 66/128 (51%), Gaps = 4/128 (3%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++++G  GVGKS L L+                  + + + LDG+ +++ I DTAG 
Sbjct: 3   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 61
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI--EQHASDNVNKILVGNKADM 132
           E +  I   Y+R   G LLV+ +T+  SF     +   I   +   D +  ++VGNK+D+
Sbjct: 62  EDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDL 121
Query: 133 DESKREAP 140
           +E +R+ P
Sbjct: 122 EE-RRQVP 128

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 36/124 (29%), Positives = 62/124 (50%), Gaps = 3/124 (2%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
            IK + +GD  VGK+C+L+                       + +DG  + L +WDTAGQ
Sbjct: 6   FIKCVTVGDGAVGKTCMLISYTGNTFPTDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQ 64
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMD 133
           E +  +    YRGA   LL + +  ++S+ NI + W+  + +H +  +  +LVG K D+ 
Sbjct: 65  EDYNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPEL-KHYAPGIPIVLVGTKLDLR 123
Query: 134 ESKR 137
           + K+
Sbjct: 124 DDKQ 127

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 39/128 (30%), Positives = 66/128 (51%), Gaps = 4/128 (3%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++++G  GVGKS L L+                  + + + LDG+ +++ I DTAG 
Sbjct: 7   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 65
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI--EQHASDNVNKILVGNKADM 132
           E +  I   Y+R   G LLV+ +T+  SF     +   I   +   D +  ++VGNK+D+
Sbjct: 66  EDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDL 125
Query: 133 DESKREAP 140
           +E +R+ P
Sbjct: 126 EE-RRQVP 132

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 66.6 bits (161), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 36/124 (29%), Positives = 62/124 (50%), Gaps = 3/124 (2%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
            IK + +GD  VGK+CLL+                       + ++G  + L +WDTAGQ
Sbjct: 8   FIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVV-VNGATVNLGLWDTAGQ 66
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMD 133
           E +  +    YRGA   +L + +  ++S+ N+ + WI  + +H +  V  +LVG K D+ 
Sbjct: 67  EDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPEL-KHYAPGVPIVLVGTKLDLR 125
Query: 134 ESKR 137
           + K+
Sbjct: 126 DDKQ 129

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 66.2 bits (160), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 67/121 (55%), Gaps = 2/121 (1%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++                  + + +E+D ++  L+I DTAG E+
Sbjct: 7   KLVVLGSVGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDAQQCMLEILDTAGTEQ 65
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDES 135
           F  +   Y +   G  LVY +T +S+FN++++    I +   +D+V  ILVGNK D+++ 
Sbjct: 66  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDE 125
Query: 136 K 136
           +
Sbjct: 126 R 126

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 41/124 (33%), Positives = 60/124 (48%), Gaps = 5/124 (4%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  IE+DGK+++L +WDTAG E 
Sbjct: 10  KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGLED 68
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM--D 133
           +  +    Y     IL+ + +    S  NI   W   + +H   NV  ILVGNK D+  D
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRND 127
Query: 134 ESKR 137
           E  R
Sbjct: 128 EHTR 131

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 67/121 (55%), Gaps = 2/121 (1%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++                  + + +E+D ++  L+I DTAG E+
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQ 63
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDES 135
           F  +   Y +   G  LVY +T +S+FN++++    I +   +++V  ILVGNK D+++ 
Sbjct: 64  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDE 123
Query: 136 K 136
           +
Sbjct: 124 R 124

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 23  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 81
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 82  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 140
Query: 135 SK 136
            K
Sbjct: 141 DK 142

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 14  IKCVVVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 72
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 73  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 131
Query: 135 SK 136
            K
Sbjct: 132 DK 133

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 89
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 148
Query: 135 SK 136
            K
Sbjct: 149 DK 150

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNALPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 89
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 148
Query: 135 SK 136
            K
Sbjct: 149 DK 150

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score = 64.3 bits (155), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 67/121 (55%), Gaps = 2/121 (1%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++                  + + +E+D ++  L+I DTAG E+
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVDEYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQ 63
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDES 135
           F  +   Y +   G  LVY +T +S+FN++++    I +   +++V  ILVGNK D+++ 
Sbjct: 64  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDE 123
Query: 136 K 136
           +
Sbjct: 124 R 124

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 63.9 bits (154), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 64
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 123
Query: 135 SK 136
            K
Sbjct: 124 DK 125

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 69
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 128
Query: 135 SK 136
            K
Sbjct: 129 DK 130

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 67  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 125
Query: 135 SK 136
            K
Sbjct: 126 DK 127

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 40/136 (29%), Positives = 62/136 (45%), Gaps = 9/136 (6%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGK-RIKLQIWDTAGQ 74
           +K++++GD   GK+ L                      +R I L G   + LQIWD  GQ
Sbjct: 7   LKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQ 66
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNW---IRNIEQHASDNVNKILVGNKAD 131
                +   Y  GA G+LLVYD+T+  SF N+ +W   ++ + + +       LVGNK D
Sbjct: 67  TIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKID 126
Query: 132 MDESKREAP-----FC 142
           ++  +   P     FC
Sbjct: 127 LEHMRTIKPEKHLRFC 142

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 36/123 (29%), Positives = 62/123 (50%), Gaps = 3/123 (2%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
            IK + +GD  VGK+C+L+                       + +DG+ + L +WDTAGQ
Sbjct: 9   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVAVDGQIVNLGLWDTAGQ 67
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMD 133
           E +  +    YRGA   +L + +  ++S+ N+ + W+  + + A  NV  +LVG K D+ 
Sbjct: 68  EDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAP-NVPIVLVGTKLDLR 126
Query: 134 ESK 136
           + K
Sbjct: 127 DDK 129

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 38/124 (30%), Positives = 65/124 (52%), Gaps = 2/124 (1%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L K++++G  GVGKS L L+                  + + + LDG+ +++ I DTAG 
Sbjct: 6   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 64
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD-NVNKILVGNKADMD 133
           E +  I   Y+R   G L V+ +T+  SF    ++   I +   D NV  +LVGNK+D++
Sbjct: 65  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 124
Query: 134 ESKR 137
           + ++
Sbjct: 125 DKRQ 128

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 62.8 bits (151), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 36/122 (29%), Positives = 55/122 (45%), Gaps = 1/122 (0%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELD-GKRIKLQIWDTAGQE 75
           K+ LIGD GVGK+  + R                     T   D G  IK  +WDTAGQE
Sbjct: 13  KICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQE 72
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           +   +   YY GA G +L +DVT   +  N+  W++  +    +    ++  NK D+   
Sbjct: 73  KKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNR 132
Query: 136 KR 137
           ++
Sbjct: 133 QK 134

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 35/122 (28%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   +   +LVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-HTPILLVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 36/141 (25%), Positives = 71/141 (50%), Gaps = 12/141 (8%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           ++K +++GD  VGK+CLL+                    + ++ + GK+  L ++DTAGQ
Sbjct: 18  MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAV-SVTVGGKQYLLGLYDTAGQ 76
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADM- 132
           E +  +    Y      L+ + V + +SF N++  W+  ++++A  NV  +L+G + D+ 
Sbjct: 77  EDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP-NVPFLLIGTQIDLR 135
Query: 133 DESK--------REAPFCLHE 145
           D+ K        +E P C+ +
Sbjct: 136 DDPKTLARLNDMKEKPICVEQ 156

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 37/117 (31%), Positives = 59/117 (50%), Gaps = 2/117 (1%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++                  + + + +DG+   L I DTAGQE 
Sbjct: 5   KLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEE 63
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADM 132
           +  +   Y R   G L V+ + +  SF +I  +   I++   SD+V  +LVGNK D+
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL 120

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 37/117 (31%), Positives = 59/117 (50%), Gaps = 2/117 (1%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++                  + + + +DG+   L I DTAGQE 
Sbjct: 5   KLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEE 63
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADM 132
           +  +   Y R   G L V+ + +  SF +I  +   I++   SD+V  +LVGNK D+
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL 120

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 36/122 (29%), Positives = 55/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/122 (28%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 63
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   +   +LVG K D+ +
Sbjct: 64  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-HTPILLVGTKLDLRD 122
Query: 135 SK 136
            K
Sbjct: 123 DK 124

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 36/122 (29%), Positives = 55/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 36/122 (29%), Positives = 55/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAG E
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLE 65
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 66  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 124
Query: 135 SK 136
            K
Sbjct: 125 DK 126

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 37/117 (31%), Positives = 59/117 (50%), Gaps = 2/117 (1%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++                  + + + +DG+   L I DTAGQE 
Sbjct: 5   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEE 63
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADM 132
           +  +   Y R   G L V+ + +  SF +I  +   I++   SD+V  +LVGNK D+
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL 120

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/125 (36%), Positives = 66/125 (52%), Gaps = 7/125 (5%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +KL + G +GVGKS L++R                  + +   +D + + ++I DTAGQE
Sbjct: 29  VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQAT-IDDEVVSMEILDTAGQE 87
Query: 76  RFRTIT-TAYYRGAMGILLVYDVTDESSFNNIRNWIRNI--EQHASDNVNKILVGNKADM 132
              TI    + R   G +LVYD+TD  SF  +   ++NI  E     NV  ILVGNKAD+
Sbjct: 88  D--TIQREGHMRWGEGFVLVYDITDRGSFEEVLP-LKNILDEIKKPKNVTLILVGNKADL 144
Query: 133 DESKR 137
           D S++
Sbjct: 145 DHSRQ 149

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/122 (28%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 63
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   +   +LVG K D+ +
Sbjct: 64  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-HTPILLVGTKLDLRD 122
Query: 135 SK 136
            K
Sbjct: 123 DK 124

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 36/122 (29%), Positives = 55/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAG E
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLE 89
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+ +
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 148
Query: 135 SK 136
            K
Sbjct: 149 DK 150

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 37/117 (31%), Positives = 59/117 (50%), Gaps = 2/117 (1%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++                  + + + +DG+   L I DTAGQE 
Sbjct: 5   KLVVVGARGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEE 63
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADM 132
           +  +   Y R   G L V+ + +  SF +I  +   I++   SD+V  +LVGNK D+
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL 120

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/80 (41%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +D +  +L I DTAGQE F  +   Y R   G LLV+ VTD  SF  I  + R I +   
Sbjct: 48  IDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKD 107
Query: 118 SDNVNKILVGNKADMDESKR 137
            D    IL+GNKAD+D  ++
Sbjct: 108 RDEFPMILIGNKADLDHQRQ 127

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 34/83 (40%), Positives = 46/83 (55%), Gaps = 2/83 (2%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG   +L I DTAGQE F  +   Y R   G LLV+ + D  SFN +      I +   
Sbjct: 52  VDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKD 111
Query: 118 SDNVNKILVGNKADMDESKREAP 140
            D+   +LVGNKAD+ ES+R+ P
Sbjct: 112 RDDFPVVLVGNKADL-ESQRQVP 133

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 36/117 (30%), Positives = 61/117 (52%), Gaps = 2/117 (1%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++                  + + + +DG+   L I DTAGQE 
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEE 64
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADM 132
           +  +   Y R   G L V+ + +  SF +I ++   I++   S++V  +LVGNK+D+
Sbjct: 65  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDL 121

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 35/117 (29%), Positives = 58/117 (49%), Gaps = 3/117 (2%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD   GK+CLL+                    +  +E+DG+R++L +WDTAGQE 
Sbjct: 12  KLVIVGDGACGKTCLLI-VNSKGQFPEVYVPTVFENYVADVEVDGRRVELALWDTAGQED 70
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
           +  +    Y  +  +L+ + +    S  N++  WI  +  H    V  ILVG K D+
Sbjct: 71  YDRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEV-LHFCQGVPIILVGCKVDL 126

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 36/123 (29%), Positives = 57/123 (46%), Gaps = 3/123 (2%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           LIK +++GD  VGK+CLL+                       + +DGK + L +WDTAG 
Sbjct: 155 LIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGL 213
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMD 133
           E +  +    Y      L+ + +   +SF+++R  W   +  H   N   ILVG K D+ 
Sbjct: 214 EDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCP-NTPIILVGTKLDLR 272
Query: 134 ESK 136
           + K
Sbjct: 273 DDK 275

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 28/72 (38%), Positives = 45/72 (62%), Gaps = 2/72 (2%)
Query: 63  RIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN 122
            IK  IWDTAGQER+ +I   YYRGA   ++V+D+++ ++ +  + W+  ++   S N  
Sbjct: 92  NIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLK--ISSNYI 149
Query: 123 KILVGNKADMDE 134
            ILV NK D ++
Sbjct: 150 IILVANKIDKNK 161

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 36/123 (29%), Positives = 57/123 (46%), Gaps = 3/123 (2%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           LIK +++GD  VGK+CLL+                       + +DGK + L +WDTAG 
Sbjct: 155 LIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGL 213
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMD 133
           E +  +    Y      L+ + +   +SF+++R  W   +  H   N   ILVG K D+ 
Sbjct: 214 EDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCP-NTPIILVGTKLDLR 272
Query: 134 ESK 136
           + K
Sbjct: 273 DDK 275

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 36/117 (30%), Positives = 60/117 (51%), Gaps = 2/117 (1%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++                  + + + +DG+   L I DTAGQE 
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEE 64
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADM 132
           +  +   Y R   G L V+ + +  SF +I ++   I++   S++V  +LVGNK D+
Sbjct: 65  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDL 121

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 36/123 (29%), Positives = 57/123 (46%), Gaps = 3/123 (2%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           LIK +++GD  VGK+CLL+                       + +DGK + L +WDTAG 
Sbjct: 155 LIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGL 213
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMD 133
           E +  +    Y      L+ + +   +SF+++R  W   +  H   N   ILVG K D+ 
Sbjct: 214 EDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCP-NTPIILVGTKLDLR 272
Query: 134 ESK 136
           + K
Sbjct: 273 DDK 275

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 60.1 bits (144), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 3/120 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +K +L+GD  VGK+ L++                       + +DG+ ++LQ+ DTAGQ+
Sbjct: 21  VKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFS-AVVSVDGRPVRLQLCDTAGQD 79
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDE 134
            F  +    Y      LL + V   SSF N+   W+  I  H       ILVG ++D+ E
Sbjct: 80  EFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCP-KAPIILVGTQSDLRE 138

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 59.7 bits (143), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 34/122 (27%), Positives = 55/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +D K + L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +S+ N+R  W   +  H   +   ILVG K D+ +
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCP-STPIILVGTKLDLRD 121
Query: 135 SK 136
            K
Sbjct: 122 DK 123

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 34/122 (27%), Positives = 55/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +D K + L +WDTAGQE
Sbjct: 10  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQE 68
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +S+ N+R  W   +  H   +   ILVG K D+ +
Sbjct: 69  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCP-STPIILVGTKLDLRD 127
Query: 135 SK 136
            K
Sbjct: 128 DK 129

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/141 (26%), Positives = 58/141 (41%), Gaps = 22/141 (15%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +DGK + L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 64
Query: 76  RFRTITTAYYRGAMG-------------------ILLVYDVTDESSFNNIR-NWIRNIEQ 115
            +  +    Y   +G                    L+ + +   +SF N+R  W   +  
Sbjct: 65  DYDRLRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVRH 124
Query: 116 HASDNVNKILVGNKADMDESK 136
           H   N   ILVG K D+ + K
Sbjct: 125 HCP-NTPIILVGTKLDLRDDK 144

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 58.5 bits (140), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 34/122 (27%), Positives = 55/122 (45%), Gaps = 3/122 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                       + +D K + L +WDTAGQE
Sbjct: 11  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQE 69
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +S+ N+R  W   +  H   +   ILVG K D+ +
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCP-STPIILVGTKLDLRD 128
Query: 135 SK 136
            K
Sbjct: 129 DK 130

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 57.4 bits (137), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVXIGGEPYTLGLFDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 65
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 66  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 122

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 56.6 bits (135), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 56.6 bits (135), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 14  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 72
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 73  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 129

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 56.6 bits (135), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPAVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 56.6 bits (135), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 63
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 64  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 120

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 56.6 bits (135), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 56.6 bits (135), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 64
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 65  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 121

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 56.6 bits (135), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKLPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 56.6 bits (135), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 56.6 bits (135), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 56.6 bits (135), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 67  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 123

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score = 56.6 bits (135), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 64
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 65  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 121

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score = 56.2 bits (134), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 56.2 bits (134), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 65
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 66  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 122

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 56.2 bits (134), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 11  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 69
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 70  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 126

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 56.2 bits (134), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDVAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 56.2 bits (134), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 35/118 (29%), Positives = 56/118 (47%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +K++++GD  VGK+CLLL                       ++   +   L +WDTAGQE
Sbjct: 24  LKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQE 82
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y  +  +LL + V + +SF+NI   W   I +H  D    +LVG K D+
Sbjct: 83  EYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEI-KHYIDTAKTVLVGLKVDL 139

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 35/118 (29%), Positives = 56/118 (47%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +K++++GD  VGK+CLLL                       ++   +   L +WDTAGQE
Sbjct: 23  LKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQE 81
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y  +  +LL + V + +SF+NI   W   I +H  D    +LVG K D+
Sbjct: 82  EYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEI-KHYIDTAKTVLVGLKVDL 138

>pdb|3VHL|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex With Cdc42 (T17n Mutant) Length = 195

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAGQE
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 69
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 70  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 126

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 42  KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 101
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 102 RVKDSDDVPMVLVGNKCDL 120

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK+D+
Sbjct: 106 SDDVPMVLVGNKSDL 120

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 53/118 (44%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L + DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLRDTAGQE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 47  KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 106
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 107 RVKDSDDVPMVLVGNKCDL 125

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 47  KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 106
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 107 RVKDSDDVPMVLVGNKCDL 125

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 48  KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 107
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 108 RVKDSDDVPMVLVGNKCDL 126

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 42  KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 101
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 102 RVKDSDDVPMVLVGNKCDL 120

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDEYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 42  KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 101
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 102 RVKDSDDVPMVLVGNKCDL 120

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 42  KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 101
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 102 RVKDSDDVPMVLVGNKCDL 120

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 49  KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 108
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 109 RVKDSDDVPMVLVGNKCDL 127

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 32/118 (27%), Positives = 53/118 (44%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGLE 62
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 119

>pdb|1NF3|A Chain A, Structure Of Cdc42 In A Complex With The Gtpase-Binding Domain Of The Cell Polarity Protein, Par6 Length = 195

Iteration: 1
 Score = 53.1 bits (126), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 32/118 (27%), Positives = 53/118 (44%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+                    + T+ + G+   L ++DTAG E
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGLE 66
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + V   SSF N++  W+  I  H       +LVG + D+
Sbjct: 67  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDL 123

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 53.1 bits (126), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 42  KQVVIDGEICLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 101
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 102 RVKDSDDVPMVLVGNKCDL 120

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 53.1 bits (126), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 44/75 (58%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I ++   I++   
Sbjct: 47  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKD 106
Query: 118 SDNVNKILVGNKADM 132
           S++V  +LVGNK+D+
Sbjct: 107 SEDVPMVLVGNKSDL 121

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 53.1 bits (126), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 44/75 (58%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I ++   I++   
Sbjct: 47  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKD 106
Query: 118 SDNVNKILVGNKADM 132
           S++V  +LVGNK+D+
Sbjct: 107 SEDVPMVLVGNKSDL 121

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 52.8 bits (125), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGN+ D+
Sbjct: 106 SDDVPMVLVGNRCDL 120

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DT GQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTGGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAG+E +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGKEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DT GQE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTTGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/117 (23%), Positives = 57/117 (48%), Gaps = 3/117 (2%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           K++++GDS  GK+  LL                      + E+D +RI+L +WDT+G   
Sbjct: 9   KIVVVGDSQCGKT-ALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPY 67
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM 132
           +  +    Y  +  +L+ +D++   + +++ + W   I++    N   +LVG K+D+
Sbjct: 68  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDL 123

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/117 (23%), Positives = 57/117 (48%), Gaps = 3/117 (2%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           K++++GDS  GK+  LL                      + E+D +RI+L +WDT+G   
Sbjct: 30  KIVVVGDSQCGKT-ALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPY 88
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM 132
           +  +    Y  +  +L+ +D++   + +++ + W   I++    N   +LVG K+D+
Sbjct: 89  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDL 144

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/79 (34%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAG E +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 42  KQVVIDGETCLLDILDTAGHEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 101
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 102 RVKDSDDVPMVLVGNKCDL 120

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAGQE +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 60  KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIK 119
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 120 RVKDSDDVPMVLVGNKCDL 138

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/117 (23%), Positives = 57/117 (48%), Gaps = 3/117 (2%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           K++++GDS  GK+  LL                      + E+D +RI+L +WDT+G   
Sbjct: 25  KIVVVGDSQCGKT-ALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPY 83
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADM 132
           +  +    Y  +  +L+ +D++   + +++ + W   I++    N   +LVG K+D+
Sbjct: 84  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDL 139

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAGQE    +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGQEEASAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 48/81 (59%), Gaps = 5/81 (6%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNI---RNWIR 111
           + IE+D     L+I DTAG E+F ++   Y +   G +LVY + ++ SF +I   R+ I 
Sbjct: 42  KEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQII 101
Query: 112 NIEQHASDNVNKILVGNKADM 132
            ++++  + V  ILVGNK D+
Sbjct: 102 RVKRY--EKVPVILVGNKVDL 120

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTA QE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAAQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKXDL 120

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTA QE +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAAQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKXDL 120

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/79 (34%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAG E +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 42  KQVVIDGETCLLDILDTAGGEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 101
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 102 RVKDSDDVPMVLVGNKCDL 120

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/79 (34%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAG E +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 47  KQVVIDGETCLLDILDTAGLEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 106
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 107 RVKDSDDVPMVLVGNKCDL 125

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAG E +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGVEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 27/79 (34%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAG E +  +   Y R   G L V+ + +  SF +I  +   I+
Sbjct: 42  KQVVIDGETCLLDILDTAGLEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIK 101
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   SD+V  +LVGNK D+
Sbjct: 102 RVKDSDDVPMVLVGNKCDL 120

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAG E +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETXLLDILDTAGGEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 26/79 (32%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
           + + +DG+   L I DTAG E +  +   Y R   G L V+ + +  SF +I ++   I+
Sbjct: 60  KQVVIDGETCLLDILDTAGHEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIK 119
Query: 115 Q-HASDNVNKILVGNKADM 132
           +   S++V  +LVGNK D+
Sbjct: 120 RVKDSEDVPMVLVGNKCDL 138

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 50.4 bits (119), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 59  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HA 117
           +DG+   L I DTAG E +  +   Y R   G L V+ + +  SF +I  +   I++   
Sbjct: 46  IDGETCLLDILDTAGIEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105
Query: 118 SDNVNKILVGNKADM 132
           SD+V  +LVGNK D+
Sbjct: 106 SDDVPMVLVGNKCDL 120

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 49.7 bits (117), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 45/80 (56%), Gaps = 1/80 (1%)
Query: 54  IRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI 113
           ++  E+D +   L + DTAGQE F  +   Y R   G L+VY VTD++SF ++  + + I
Sbjct: 56  LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLI 115
Query: 114 EQ-HASDNVNKILVGNKADM 132
            +    ++   ILV NK D+
Sbjct: 116 LRVKDRESFPMILVANKVDL 135

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 49.7 bits (117), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 27/83 (32%), Positives = 42/83 (50%), Gaps = 1/83 (1%)
Query: 55  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI- 113
           + + L      L + DTAGQ+ +  +  ++  G  G +LVY VT   SF  I +  + + 
Sbjct: 63  KIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLH 122
Query: 114 EQHASDNVNKILVGNKADMDESK 136
           E H    V  +LVGNKAD+   +
Sbjct: 123 EGHGKTRVPVVLVGNKADLSPER 145

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 49.7 bits (117), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 45/80 (56%), Gaps = 1/80 (1%)
Query: 54  IRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI 113
           ++  E+D +   L + DTAGQE F  +   Y R   G L+VY VTD++SF ++  + + I
Sbjct: 56  LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLI 115
Query: 114 EQ-HASDNVNKILVGNKADM 132
            +    ++   ILV NK D+
Sbjct: 116 LRVKDRESFPMILVANKVDL 135

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 49.7 bits (117), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 45/80 (56%), Gaps = 1/80 (1%)
Query: 54  IRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI 113
           ++  E+D +   L + DTAGQE F  +   Y R   G L+VY VTD++SF ++  + + I
Sbjct: 51  LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLI 110
Query: 114 EQ-HASDNVNKILVGNKADM 132
            +    ++   ILV NK D+
Sbjct: 111 LRVKDRESFPMILVANKVDL 130

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 43/76 (56%), Gaps = 1/76 (1%)
Query: 58  ELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-H 116
           E+D +   L + DTAGQE F  +   Y R   G L+VY VTD++SF ++  + + I +  
Sbjct: 60  EIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVK 119
Query: 117 ASDNVNKILVGNKADM 132
             ++   ILV NK D+
Sbjct: 120 DRESFPMILVANKVDL 135

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 31/125 (24%), Positives = 55/125 (44%), Gaps = 6/125 (4%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G  G GK+ +L +                   + T++   K I   +WD  GQ+
Sbjct: 1   MRILMVGLDGAGKTTVLYKLKLGEVITTIPTIGF---NVETVQY--KNISFTVWDVGGQD 55
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADMDE 134
           R R++   YYR   G++ V D  D S     R  + R + +    N   ++  NK D+ E
Sbjct: 56  RIRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLPE 115
Query: 135 SKREA 139
           +   A
Sbjct: 116 AMSAA 120

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 31/125 (24%), Positives = 55/125 (44%), Gaps = 6/125 (4%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G  G GK+ +L +                   + T++   K I   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVITTIPTIGF---NVETVQY--KNISFTVWDVGGQD 72
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADMDE 134
           R R++   YYR   G++ V D  D S     R  + R + +    N   ++  NK D+ E
Sbjct: 73  RIRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLPE 132
Query: 135 SKREA 139
           +   A
Sbjct: 133 AMSAA 137

>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2 (Scarf2) Complexed With Gdp-3'p At 1.6a Resolution Length = 181

Iteration: 1
 Score = 47.0 bits (110), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 31/125 (24%), Positives = 55/125 (44%), Gaps = 6/125 (4%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G  G GK+ +L +                   + T++   K I   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVITTIPTIGF---NVETVQY--KNISFTVWDVGGQD 72
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADMDE 134
           R R++   YYR   G++ V D  D S     R  + R + +    N   ++  NK D+ E
Sbjct: 73  RIRSLWRHYYRNTEGVIFVIDSNDRSRIGEAREVMQRMLNEDELRNAVWLVFANKQDLPE 132
Query: 135 SKREA 139
           +   A
Sbjct: 133 AMSAA 137

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 38/125 (30%), Positives = 59/125 (47%), Gaps = 7/125 (5%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K+LL+G  GVGKS L                       R+I +DG+   L ++D   Q
Sbjct: 2   VYKVLLLGAPGVGKSALA--RIFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQ 59
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSF---NNIRNWIRNIEQHASDNVNKILVGNKAD 131
           +  R +           ++VY VTD+ SF   + +R  +R   Q  +D+V  ILVGNK+D
Sbjct: 60  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQ--TDDVPIILVGNKSD 117
Query: 132 MDESK 136
           +  S+
Sbjct: 118 LVRSR 122

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 38/125 (30%), Positives = 59/125 (47%), Gaps = 7/125 (5%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K+LL+G  GVGKS L                       R+I +DG+   L ++D   Q
Sbjct: 7   VYKVLLLGAPGVGKSALA--RIFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQ 64
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSF---NNIRNWIRNIEQHASDNVNKILVGNKAD 131
           +  R +           ++VY VTD+ SF   + +R  +R   Q  +D+V  ILVGNK+D
Sbjct: 65  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQ--TDDVPIILVGNKSD 122
Query: 132 MDESK 136
           +  S+
Sbjct: 123 LVRSR 127

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 38/125 (30%), Positives = 59/125 (47%), Gaps = 7/125 (5%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           + K+LL+G  GVGKS L                       R+I +DG+   L ++D   Q
Sbjct: 7   VYKVLLLGAPGVGKSALA--RIFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQ 64
Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSF---NNIRNWIRNIEQHASDNVNKILVGNKAD 131
           +  R +           ++VY VTD+ SF   + +R  +R   Q  +D+V  ILVGNK+D
Sbjct: 65  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQ--TDDVPIILVGNKSD 122
Query: 132 MDESK 136
           +  S+
Sbjct: 123 LVRSR 127

>pdb|3D6T|B Chain B, Structure Of The Roc Domain From The Parkinson's Disease-Associated Leucine-Rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 171

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 38/130 (29%), Positives = 65/130 (50%), Gaps = 8/130 (6%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIR--TIELDGKRIK---LQIWDT 71
           KL ++G++G GK+ LL +                   ++   I++  KR +   L +WD 
Sbjct: 2   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 61
Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTD-ESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           AG+E F +    +       L VYD++  ++  +  + W+ NI+  AS +   ILVG   
Sbjct: 62  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSS-PVILVGTHL 120
Query: 131 DM-DESKREA 139
           D+ DE +R+A
Sbjct: 121 DVSDEKQRKA 130

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 64  IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRN-IEQHASDNVN 122
           + ++IWD  GQ RFR++   Y RG   I+ + D  D       RN + N +++     + 
Sbjct: 67  VTIKIWDIGGQPRFRSMWERYCRGVNAIVYMIDAADREKIEASRNELHNLLDKPQLQGIP 126
Query: 123 KILVGNKADMDES 135
            +++GNK D+  +
Sbjct: 127 VLVLGNKRDLPNA 139

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/118 (21%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD   GK+  +L+                      +E + +R++L +WDT+G  
Sbjct: 12  CKLVLVGDVQCGKT-AMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSP 70
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNN-IRNWIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y  +  +LL +D++   + ++ ++ W   I  +   +   +L+G K D+
Sbjct: 71  YYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDL 127

>pdb|2ZEJ|A Chain A, Structure Of The Roc Domain From The Parkinson's Disease-associated Leucine-rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 184

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 38/130 (29%), Positives = 65/130 (50%), Gaps = 8/130 (6%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIR--TIELDGKRIK---LQIWDT 71
           KL ++G++G GK+ LL +                   ++   I++  KR +   L +WD 
Sbjct: 4   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 63
Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTD-ESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           AG+E F +    +       L VYD++  ++  +  + W+ NI+  AS +   ILVG   
Sbjct: 64  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSP-VILVGTHL 122
Query: 131 DM-DESKREA 139
           D+ DE +R+A
Sbjct: 123 DVSDEKQRKA 132

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 43.9 bits (102), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 3/90 (3%)
Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDN 120
           K +K  +WD  GQ++ R +   YY G  G++ V D  D    +  R  + R I      +
Sbjct: 42  KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREXRD 101
Query: 121 VNKILVGNKADMDESKREAPFCLHETILLT 150
              ++  NK D+ ++ +  P  + E + LT
Sbjct: 102 AIILIFANKQDLPDAXK--PHEIQEKLGLT 129

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 43.9 bits (102), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/118 (21%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD   GK+  +L+                      +E + +R++L +WDT+G  
Sbjct: 11  CKLVLVGDVQCGKT-AMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSP 69
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNN-IRNWIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y  +  +LL +D++   + ++ ++ W   I  +   +   +L+G K D+
Sbjct: 70  YYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDL 126

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 43.9 bits (102), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 36/123 (29%), Positives = 59/123 (47%), Gaps = 8/123 (6%)
Query: 15  LIKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQ 74
           L +++L+GD GVGK+ L                     + RT+ +DG+   L + DT   
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFAGKQERDLHEQLGEDVYE-RTLTVDGEDTTLVVVDTWEA 62
Query: 75  ERFRTITT--AYYRGAMGILLVYDVTDESSFNN---IRNWIRNIEQHASDNVNKILVGNK 129
           E+     +  +  +G    ++VY + D  SF +   +R  +R    H +D+V  ILVGNK
Sbjct: 63  EKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRT--HQADHVPIILVGNK 120
Query: 130 ADM 132
           AD+
Sbjct: 121 ADL 123

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 43.9 bits (102), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 64  IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRN-IEQHASDNVN 122
           + +++WD  GQ RFR++   Y RG   I+ + D  D+      +N + N +++     + 
Sbjct: 67  VTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIP 126
Query: 123 KILVGNKADM 132
            +++GNK D+
Sbjct: 127 VLVLGNKRDL 136

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/118 (21%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD   GK+  +L+                      +E + +R++L +WDT+G  
Sbjct: 28  CKLVLVGDVQCGKT-AMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSP 86
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNN-IRNWIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y  +  +LL +D++   + ++ ++ W   I  +   +   +L+G K D+
Sbjct: 87  YYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDL 143

>pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In Trans State Soaked With Calcium Length = 497

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/91 (26%), Positives = 44/91 (48%), Gaps = 5/91 (5%)
Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI--EQHASD 119
           K +K  +WD  GQ++ R +   YY G  G++ V D  D    +  R  +  I  ++   D
Sbjct: 364 KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRD 423
Query: 120 NVNKILVGNKADMDESKREAPFCLHETILLT 150
            +  ++  NK D+ ++ +  P  + E + LT
Sbjct: 424 AI-ILIFANKQDLPDAMK--PHEIQEKLGLT 451

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/129 (22%), Positives = 57/129 (44%), Gaps = 7/129 (5%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIR----TIELDGKRIKLQIWDTA 72
           K+ ++G++ VGKS L+                    ++     TI      ++L + DTA
Sbjct: 22  KVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTA 81
Query: 73  GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD---NVNKILVGNK 129
           G + ++   + Y+ G    +LV+DV+   SF + + W   ++    D    +  +LV NK
Sbjct: 82  GSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANK 141
Query: 130 ADMDESKRE 138
            D+   + +
Sbjct: 142 TDLPPQRHQ 150

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 64  IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRN-IEQHASDNVN 122
           + +++WD  GQ RFR++   Y RG   I+ + D  D+      +N + N +++     + 
Sbjct: 76  VTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIP 135
Query: 123 KILVGNKADM 132
            +++GNK D+
Sbjct: 136 VLVLGNKRDL 145

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 3/90 (3%)
Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDN 120
           K +K  +WD  GQ++ R +   YY G  G++ V D  D    +  R  + R I      +
Sbjct: 54  KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRD 113
Query: 121 VNKILVGNKADMDESKREAPFCLHETILLT 150
              ++  NK D+ ++ +  P  + E + LT
Sbjct: 114 AIILIFANKQDLPDAMK--PHEIQEKLGLT 141

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/91 (26%), Positives = 44/91 (48%), Gaps = 5/91 (5%)
Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI--EQHASD 119
           K +K  +WD  GQ++ R +   YY G  G++ V D  D    +  R  +  I  ++   D
Sbjct: 55  KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRD 114
Query: 120 NVNKILVGNKADMDESKREAPFCLHETILLT 150
            +  ++  NK D+ ++ +  P  + E + LT
Sbjct: 115 AI-ILIFANKQDLPDAMK--PHEIQEKLGLT 142

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 3/90 (3%)
Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDN 120
           K +K  +WD  GQ++ R +   YY G  G++ V D  D    +  R  + R I      +
Sbjct: 42  KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRD 101
Query: 121 VNKILVGNKADMDESKREAPFCLHETILLT 150
              ++  NK D+ ++ +  P  + E + LT
Sbjct: 102 AIILIFANKQDLPDAMK--PHEIQEKLGLT 129

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 3/90 (3%)
Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDN 120
           K +K  +WD  GQ++ R +   YY G  G++ V D  D    +  R  + R I      +
Sbjct: 42  KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRD 101
Query: 121 VNKILVGNKADMDESKREAPFCLHETILLT 150
              ++  NK D+ ++ +  P  + E + LT
Sbjct: 102 AIILIFANKQDLPDAMK--PHEIQEKLGLT 129

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 42.7 bits (99), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 32/122 (26%), Positives = 49/122 (40%), Gaps = 3/122 (2%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           ++ + G  GVGKS L+LR                  + + I  D     LQI DT G  +
Sbjct: 5   RVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSHQ 63
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD--NVNKILVGNKADMDE 134
           F  +           +LVY +T   S   ++     I +   D  ++  +LVGNK D   
Sbjct: 64  FPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESP 123
Query: 135 SK 136
           S+
Sbjct: 124 SR 125

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 52/121 (42%), Gaps = 10/121 (8%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           K+ ++G   VGKS L ++                    + I ++G+   LQ+ DTAGQ+ 
Sbjct: 6   KIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 64
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI-----LVGNKAD 131
           +      Y     G +LVY VT   SF      I+ I     D V K+     LVGNK D
Sbjct: 65  YSIFPQTYSIDINGYILVYSVTSIKSF----EVIKVIHGKLLDMVGKVQIPIMLVGNKKD 120
Query: 132 M 132
           +
Sbjct: 121 L 121

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 52/121 (42%), Gaps = 10/121 (8%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           K+ ++G   VGKS L ++                    + I ++G+   LQ+ DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 66
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI-----LVGNKAD 131
           +      Y     G +LVY VT   SF      I+ I     D V K+     LVGNK D
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIKSF----EVIKVIHGKLLDMVGKVQIPIMLVGNKKD 122
Query: 132 M 132
           +
Sbjct: 123 L 123

>pdb|2KSQ|A Chain A, The Myristoylated Yeast Arf1 In A Gtp And Bicelle Bound Conformation Length = 181

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/125 (22%), Positives = 51/125 (40%), Gaps = 6/125 (4%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G  G GK+ +L +                   ++        I   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVITTIPTIGFNVECVQYC-----NISFTVWDVGGQD 72
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADMDE 134
           R R++   YY    G++ V D  D S     R  + R + +    N   ++  NK D+ E
Sbjct: 73  RIRSLWRHYYCNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELCNAAWLVFANKQDLPE 132
Query: 135 SKREA 139
           +   A
Sbjct: 133 AMSAA 137

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 52/121 (42%), Gaps = 10/121 (8%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           K+ ++G   VGKS L ++                    + I ++G+   LQ+ DTAGQ+ 
Sbjct: 3   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVDTAGQDE 61
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI-----LVGNKAD 131
           +      Y     G +LVY VT   SF      I+ I     D V K+     LVGNK D
Sbjct: 62  YSIFPQTYSIDINGYILVYSVTSIKSF----EVIKVIHGKLLDMVGKVQIPIMLVGNKKD 117
Query: 132 M 132
           +
Sbjct: 118 L 118

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 52/121 (42%), Gaps = 10/121 (8%)
Query: 17  KLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQER 76
           K+ ++G   VGKS L ++                    + I ++G+   LQ+ DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 66
Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI-----LVGNKAD 131
           +      Y     G +LVY VT   SF      I+ I     D V K+     LVGNK D
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIKSF----EVIKVIHGKLLDMVGKVQIPIMLVGNKKD 122
Query: 132 M 132
           +
Sbjct: 123 L 123

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 3/90 (3%)
Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDN 120
           K +K  +WD  G ++ R +   YY G  G++ V D  D    +  R  + R I      +
Sbjct: 55  KNVKFNVWDVGGLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRD 114
Query: 121 VNKILVGNKADMDESKREAPFCLHETILLT 150
              ++  NK D+ ++ +  P  + E + LT
Sbjct: 115 AIILIFANKQDLPDAMK--PHEIQEKLGLT 142

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 3/90 (3%)
Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDN 120
           K +K  +WD  G ++ R +   YY G  G++ V D  D    +  R  + R I      +
Sbjct: 45  KNVKFNVWDVGGLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRD 104
Query: 121 VNKILVGNKADMDESKREAPFCLHETILLT 150
              ++  NK D+ ++ +  P  + E + LT
Sbjct: 105 AIILIFANKQDLPDAMK--PHEIQEKLGLT 132

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 3/90 (3%)
Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDN 120
           K +K  +WD  G ++ R +   YY G  G++ V D  D    +  R  + R I      +
Sbjct: 44  KNVKFNVWDVGGLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRD 103
Query: 121 VNKILVGNKADMDESKREAPFCLHETILLT 150
              ++  NK D+ ++ +  P  + E + LT
Sbjct: 104 AIILIFANKQDLPDAMK--PHEIQEKLGLT 131

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score = 39.3 bits (90), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 26/125 (20%), Positives = 52/125 (41%), Gaps = 6/125 (4%)
Query: 16  IKLLLIGDSGVGKSCLLLRXXXXXXXXXXXXXXXXXXKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +                   + T+E   + I   +WD  GQ+
Sbjct: 18  VRILMVGLDAAGKTTILYKVKLGEVVTTIPTIGF---NVETVEF--RNISFTVWDVGGQD 72
Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADMDE 134
           + R +   YY    G++ V D  D    ++ R  + R I +    +   ++  NK D+  
Sbjct: 73  KIRPLWRHYYSNTDGLIFVVDSNDRERIDDAREELHRMINEEELKDAIILVFANKQDLPN 132
Query: 135 SKREA 139
           +   A
Sbjct: 133 AMSAA 137

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	160
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	3e-95
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	4e-95
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	4e-95
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	5e-95
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	6e-95
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	7e-95
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-94
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	2e-94
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	3e-94
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	4e-94
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	7e-94
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	8e-94
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	2e-93
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	4e-93
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	6e-93
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	9e-93
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	1e-92
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-91
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-91
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	1e-91
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-91
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	4e-91
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	9e-91
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-90
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	5e-90
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	6e-90
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	7e-90
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	1e-89
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	4e-88
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	3e-87
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	3e-87
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	1e-86
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	3e-86
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	3e-86
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	1e-85
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	1e-84
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	5e-84
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	8e-84
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-83
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	8e-83
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-82
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-81
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	8e-73
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	2e-71
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	1e-70
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	7e-70
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	2e-69
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	6e-69
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	9e-69
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	2e-68
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	3e-67
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	5e-67
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	3e-66
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	6e-66
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	7e-66
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	3e-65
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	5e-65
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	1e-64
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	2e-64
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	8e-64
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	1e-63
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	2e-63
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	2e-62
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	6e-62
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	4e-61
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	8e-59
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	2e-57
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	6e-57
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	7e-55
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-48
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	4e-48
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	6e-44
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	3e-43
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	9e-43
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	4e-41
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	6e-40
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	1e-39
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	4e-39
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	3e-38
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	1e-37
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	2e-37
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	5e-37
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	9e-37
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	3e-27
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	4e-20
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	4e-19
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	3e-15
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	9e-15
3llu_A	196	RAS-related GTP-binding protein C; structural geno	9e-15
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	2e-14
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	4e-14
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	7e-14
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	7e-14
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	8e-14
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	2e-13
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	3e-13
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	3e-13
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	4e-13
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	7e-13
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	1e-12
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	2e-12
2fh5_B	214	SR-beta, signal recognition particle receptor beta	7e-12
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	1e-10
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	1e-10
2ged_A	193	SR-beta, signal recognition particle receptor beta	1e-10
1nrj_B	218	SR-beta, signal recognition particle receptor beta	2e-10
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	1e-07
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	3e-05
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	8e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	4e-04
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	4e-04

>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 =  272 bits (699), Expect = 3e-95
 Identities = 65/137 (47%), Positives = 102/137 (74%), Gaps = 1/137 (0%)

Query: 5   PARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRI 64
           P  +    D+ +++++IG  GVGK+ L+ RF+D +F  +  +T+G+DFKI+T+EL GK+I
Sbjct: 16  PRGSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKI 75

Query: 65  KLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI 124
           +LQIWDTAGQERF +IT+AYYR A GI+LVYD+T + +F+++  W++ I+++AS++   +
Sbjct: 76  RLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELL 135

Query: 125 LVGNKADMDESKREAPF 141
           LVGNK D  E+ RE   
Sbjct: 136 LVGNKLDC-ETDREITR 151

>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 =  272 bits (699), Expect = 4e-95
 Identities = 73/134 (54%), Positives = 101/134 (75%), Gaps = 1/134 (0%)

Query: 8   ARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQ 67
               +DY+ K+L+IG+S VGK+  L R++D SFT +F++T+GIDFK++TI  + KRIKLQ
Sbjct: 1   GSHMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQ 60

Query: 68  IWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVG 127
           IWDTAG ER+RTITTAYYRGAMG +L+YD+T+E SFN +++W   I+ ++ DN   +LVG
Sbjct: 61  IWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVG 120

Query: 128 NKADMDESKREAPF 141
           NK DM E +R    
Sbjct: 121 NKCDM-EDERVVSS 133

>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 =  272 bits (698), Expect = 4e-95
 Identities = 71/137 (51%), Positives = 100/137 (72%), Gaps = 1/137 (0%)

Query: 5   PARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRI 64
           P  +  DYD+L K++LIG++GVGK+CL+ RF+ G F      TIG+DF I+T+E++G+++
Sbjct: 16  PRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKV 75

Query: 65  KLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI 124
           KLQIWDTAGQERFR+IT +YYR A  ++L YD+T E SF  +  W+R IEQ+AS+ V  +
Sbjct: 76  KLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITV 135

Query: 125 LVGNKADMDESKREAPF 141
           LVGNK D+   +RE   
Sbjct: 136 LVGNKIDL-AERREVSQ 151

>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 =  271 bits (696), Expect = 5e-95
 Identities = 74/137 (54%), Positives = 99/137 (72%), Gaps = 1/137 (0%)

Query: 5   PARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRI 64
                   DY+ KLLLIG+S VGK+  L R++D SFT +F++T+GIDFK++T+    KRI
Sbjct: 12  SGLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRI 71

Query: 65  KLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI 124
           KLQIWDTAGQER+RTITTAYYRGAMG LL+YD+ ++ SF  +++W   I+ ++ DN   I
Sbjct: 72  KLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVI 131

Query: 125 LVGNKADMDESKREAPF 141
           LVGNK D+ E +R  P 
Sbjct: 132 LVGNKCDL-EDERVVPA 147

>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 =  272 bits (698), Expect = 6e-95
 Identities = 83/134 (61%), Positives = 108/134 (80%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
             +  +     YD ++K+LLIGDSGVGKSCLL+RF +  F  SFITTIGIDFKI+T++++
Sbjct: 6   TVSASSGNGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDIN 65

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GK++KLQ+WDTAGQERFRTITTAYYRGAMGI+LVYDVTDE +F NI+ W + + +HA+D 
Sbjct: 66  GKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDE 125

Query: 121 VNKILVGNKADMDE 134
              +LVGNK+DM+ 
Sbjct: 126 AQLLLVGNKSDMET 139

>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 =  272 bits (697), Expect = 7e-95
 Identities = 66/141 (46%), Positives = 99/141 (70%), Gaps = 1/141 (0%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           +          YD+L KL+L+GD+ VGK+C++ RF  G+F+    +TIG+DF ++T+E+ 
Sbjct: 15  VPRGSGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQ 74

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKR+KLQIWDTAGQERFRTIT +YYR A G +L YD+T  SSF ++ +WI ++ ++A  N
Sbjct: 75  GKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSN 134

Query: 121 VNKILVGNKADMDESKREAPF 141
           + ++L+GNK+D+    RE   
Sbjct: 135 IVQLLIGNKSDL-SELREVSL 154

>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 =  270 bits (693), Expect = 1e-94
 Identities = 98/131 (74%), Positives = 116/131 (88%), Gaps = 1/131 (0%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
            YDYL KLLLIGDSGVGK+C+L RFS+ +F ++FI+TIGIDFKIRTIELDGKRIKLQIWD
Sbjct: 4   TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWD 63

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           TAGQERFRTITTAYYRGAMGI+LVYD+T+E SF+NIRNWIRNIE+HAS +V K+++GNK 
Sbjct: 64  TAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKC 123

Query: 131 DMDESKREAPF 141
           D+   KR+   
Sbjct: 124 DV-NDKRQVSK 133

>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 =  271 bits (694), Expect = 2e-94
 Identities = 84/131 (64%), Positives = 112/131 (85%), Gaps = 1/131 (0%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
           +YDYL KLLLIG+SGVGKSCLLLRFSD ++T  +I+TIG+DFKI+T+ELDGK +KLQIWD
Sbjct: 4   EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWD 63

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           TAGQERFRTIT++YYRG+ GI++VYDVTD+ SFN ++ W++ I+++A+  V K+LVGNK 
Sbjct: 64  TAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKC 123

Query: 131 DMDESKREAPF 141
           D+ + KR   +
Sbjct: 124 DL-KDKRVVEY 133

>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 =  269 bits (691), Expect = 3e-94
 Identities = 74/135 (54%), Positives = 104/135 (77%), Gaps = 1/135 (0%)

Query: 7   RARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKL 66
             + ++DY+ KLL+IG+S VGK+  L R++D +FT +F++T+GIDFK++T+    KR+KL
Sbjct: 15  YFQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKL 74

Query: 67  QIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV 126
           QIWDTAGQER+RTITTAYYRGAMG +L+YD+T+E SFN +++W   I+ ++ DN   ILV
Sbjct: 75  QIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILV 134

Query: 127 GNKADMDESKREAPF 141
           GNK DM E +R  P 
Sbjct: 135 GNKCDM-EEERVVPT 148

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  269 bits (691), Expect = 4e-94
 Identities = 92/141 (65%), Positives = 118/141 (83%), Gaps = 1/141 (0%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
                +    +YDYL KLLLIGDSGVGKSCLLLRF+D ++T S+I+TIG+DFKIRTIELD
Sbjct: 2   PLGSMSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELD 61

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GK IKLQIWDTAGQERFRTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+N
Sbjct: 62  GKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASEN 121

Query: 121 VNKILVGNKADMDESKREAPF 141
           VNK+LVGNK D+  +K+   +
Sbjct: 122 VNKLLVGNKCDL-TTKKVVDY 141

>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 =  269 bits (690), Expect = 7e-94
 Identities = 93/141 (65%), Positives = 119/141 (84%), Gaps = 1/141 (0%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
              P +    +YDYL KLLLIGDSGVGKSCLLLRF+D ++T S+I+TIG+DFKIRTIELD
Sbjct: 19  QGRPMSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELD 78

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GK IKLQIWDTAGQERFRTIT++YYRGA GI++VYDVTD+ SFNN++ W++ I+++AS+N
Sbjct: 79  GKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASEN 138

Query: 121 VNKILVGNKADMDESKREAPF 141
           VNK+LVGNK D+  +K+   +
Sbjct: 139 VNKLLVGNKCDL-TTKKVVDY 158

>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 =  269 bits (689), Expect = 8e-94
 Identities = 62/136 (45%), Positives = 90/136 (66%), Gaps = 1/136 (0%)

Query: 6   ARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIK 65
            R   DY+++ K++LIG+SGVGK+ LL RF+   F+    TTIG++F  RT+ L    +K
Sbjct: 16  PRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVK 75

Query: 66  LQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKIL 125
            QIWDTAG ER+R IT+AYYRGA+G LLV+D+T   ++  +  W++ +  HA   +  +L
Sbjct: 76  AQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVML 135

Query: 126 VGNKADMDESKREAPF 141
           VGNK+D+    RE P 
Sbjct: 136 VGNKSDL-SQAREVPT 150

>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 =  268 bits (687), Expect = 2e-93
 Identities = 64/146 (43%), Positives = 91/146 (62%), Gaps = 6/146 (4%)

Query: 2   AAPPARARA-DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
             P   A++       K++L GD+ VGKS  L+R     F  +   T+G+DF+++T+ +D
Sbjct: 14  LVPRGSAKSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVD 73

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           G+R  LQ+WDTAGQERFR+I  +Y+R A G+LL+YDVT E SF NIR W+  IE  A + 
Sbjct: 74  GERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHET 133

Query: 121 VNKILVGNKADMD-----ESKREAPF 141
           V  +LVGNKAD+      E ++  P 
Sbjct: 134 VPIMLVGNKADIRDTAATEGQKCVPG 159

>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 =  266 bits (683), Expect = 4e-93
 Identities = 67/132 (50%), Positives = 100/132 (75%), Gaps = 2/132 (1%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIW 69
            YD   K++L+GDSGVGK+CLL+RF DG+F   +FI+T+GIDF+ + +++DG ++KLQ+W
Sbjct: 6   FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMW 65

Query: 70  DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNK 129
           DTAGQERFR++T AYYR A  +LL+YDVT+++SF+NI+ W+  I ++A  +V  +L+GNK
Sbjct: 66  DTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNK 125

Query: 130 ADMDESKREAPF 141
            D    +R    
Sbjct: 126 VDS-AHERVVKR 136

>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 =  266 bits (683), Expect = 6e-93
 Identities = 69/131 (52%), Positives = 96/131 (73%), Gaps = 1/131 (0%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
              YL K ++IGD+GVGKSCLLL+F+D  F      TIG++F  R + +DGK+IKLQIWD
Sbjct: 17  RGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWD 76

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           TAGQE FR+IT +YYRGA G LLVYD+T   +FN++ +W+ +  QH+S N+  +L+GNK+
Sbjct: 77  TAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKS 136

Query: 131 DMDESKREAPF 141
           D+ ES+R+   
Sbjct: 137 DL-ESRRDVKR 146

>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 =  266 bits (682), Expect = 9e-93
 Identities = 60/140 (42%), Positives = 88/140 (62%), Gaps = 3/140 (2%)

Query: 4   PPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKR 63
                R     + K+++IGDS VGK+CL  RF  G F      TIG+DF+ R +++DG+R
Sbjct: 9   GSLVPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGER 68

Query: 64  IKLQIWDTAGQERFR-TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN-V 121
           IK+Q+WDTAGQERFR ++   YYR    ++ VYD+T+ +SF+++  WI   +QH   N +
Sbjct: 69  IKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDI 128

Query: 122 NKILVGNKADMDESKREAPF 141
            +ILVGNK D+  S  + P 
Sbjct: 129 PRILVGNKCDL-RSAIQVPT 147

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  265 bits (680), Expect = 1e-92
 Identities = 81/126 (64%), Positives = 104/126 (82%), Gaps = 1/126 (0%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
           DYD+L KLL+IGDSGVGKS LLLRF+D +F+ S+ITTIG+DFKIRT+E++G+++KLQIWD
Sbjct: 5   DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWD 64

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           TAGQERFRTIT+ YYRG  G+++VYDVT   SF N++ W+  I Q+  D+V +ILVGNK 
Sbjct: 65  TAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNC-DDVCRILVGNKN 123

Query: 131 DMDESK 136
           D  E K
Sbjct: 124 DDPERK 129

>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 =  264 bits (676), Expect = 1e-91
 Identities = 64/140 (45%), Positives = 89/140 (63%), Gaps = 1/140 (0%)

Query: 2   AAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG 61
           +    R     D+L K L+IG +G GKSCLL +F +  F      TIG++F  R + + G
Sbjct: 12  SGLVPRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGG 71

Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNV 121
           K +KLQIWDTAGQERFR++T +YYRGA G LLVYD+T   ++N++  W+ +    AS N+
Sbjct: 72  KTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNI 131

Query: 122 NKILVGNKADMDESKREAPF 141
             IL GNK D+ + +RE  F
Sbjct: 132 VVILCGNKKDL-DPEREVTF 150

>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 =  264 bits (677), Expect = 1e-91
 Identities = 72/141 (51%), Positives = 98/141 (69%), Gaps = 3/141 (2%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           M++       DYD L K++LIGDSGVGKS LL RF+   F     +TIG++F  RT+E++
Sbjct: 1   MSSE--DYGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIE 58

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GKRIK QIWDTAGQER+R IT+AYYRGA+G L+VYD++  SS+ N  +W+  + ++A DN
Sbjct: 59  GKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDN 118

Query: 121 VNKILVGNKADMDESKREAPF 141
           V   L+GNK+D+    R  P 
Sbjct: 119 VAVGLIGNKSDL-AHLRAVPT 138

>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 =  263 bits (674), Expect = 1e-91
 Identities = 66/134 (49%), Positives = 93/134 (69%), Gaps = 1/134 (0%)

Query: 2   AAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG 61
           ++  +    D    +K+L+IG+SGVGKS LLLRF+D +F      TIG+DFK++TI +DG
Sbjct: 2   SSGSSGMDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDG 61

Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN- 120
            + KL IWDTAGQERFRT+T +YYRGA G++LVYDVT   +F  + NW+  +E + + N 
Sbjct: 62  NKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRND 121

Query: 121 VNKILVGNKADMDE 134
           +  +LVGNK D + 
Sbjct: 122 IVNMLVGNKIDKEN 135

>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 =  263 bits (674), Expect = 1e-91
 Identities = 68/140 (48%), Positives = 92/140 (65%), Gaps = 1/140 (0%)

Query: 2   AAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG 61
                    +YDYL K++LIGDSGVGKS LL RF+   F     +TIG++F  R+I++DG
Sbjct: 16  GRAMGTRDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDG 75

Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNV 121
           K IK QIWDTAG ER+R IT+AYYRGA+G LLVYD+    ++ N+  W++ +  HA  N+
Sbjct: 76  KTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNI 135

Query: 122 NKILVGNKADMDESKREAPF 141
             +LVGNK+D+    R  P 
Sbjct: 136 VIMLVGNKSDL-RHLRAVPT 154

>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 =  261 bits (669), Expect = 4e-91
 Identities = 82/122 (67%), Positives = 105/122 (86%)

Query: 13  DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTA 72
           D ++K+LLIGDSGVGKSCLL+RF +  F  SFITTIGIDFKI+T++++GK++KLQIWDTA
Sbjct: 1   DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60

Query: 73  GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           GQERFRTITTAYYRGAMGI+LVYD+TDE +F NI+ W + + +HA+D    +LVGNK+DM
Sbjct: 61  GQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 120

Query: 133 DE 134
           + 
Sbjct: 121 ET 122

>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 =  261 bits (669), Expect = 9e-91
 Identities = 71/144 (49%), Positives = 103/144 (71%), Gaps = 12/144 (8%)

Query: 6   ARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD----- 60
           + +  DYDYLIK L +GDSGVGK+ +L +++DG F + FITT+GIDF+ + +        
Sbjct: 2   SMSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPD 61

Query: 61  -----GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ 115
                G+RI LQ+WDTAG ERFR++TTA++R AMG LL++D+T+E SF N+RNWI  ++ 
Sbjct: 62  GAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQM 121

Query: 116 HA-SDNVNKILVGNKADMDESKRE 138
           HA S+N + +L GNK+D+ E +R 
Sbjct: 122 HAYSENPDIVLCGNKSDL-EDQRA 144

>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 =  260 bits (666), Expect = 1e-90
 Identities = 66/136 (48%), Positives = 96/136 (70%), Gaps = 1/136 (0%)

Query: 6   ARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIK 65
           A A  +Y Y+ K ++IGD GVGKSCLL +F++  F      TIG++F  R IE+ G++IK
Sbjct: 6   ATAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIK 65

Query: 66  LQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKIL 125
           LQIWDTAGQERFR +T +YYRGA G L+VYD+T  S++N++ +W+ +     + N   IL
Sbjct: 66  LQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIIL 125

Query: 126 VGNKADMDESKREAPF 141
           +GNKAD+ E++R+  +
Sbjct: 126 IGNKADL-EAQRDVTY 140

>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 =  259 bits (663), Expect = 5e-90
 Identities = 65/131 (49%), Positives = 89/131 (67%), Gaps = 1/131 (0%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
            YD+L K L+IG++G GKSCLL +F +  F      TIG++F  + I + GK +KLQIWD
Sbjct: 6   TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWD 65

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           TAGQERFR++T +YYRGA G LLVYD+T   ++N + NW+ +    AS N+  IL GNK 
Sbjct: 66  TAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKK 125

Query: 131 DMDESKREAPF 141
           D+ ++ RE  F
Sbjct: 126 DL-DADREVTF 135

>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 =  258 bits (661), Expect = 6e-90
 Identities = 52/132 (39%), Positives = 80/132 (60%), Gaps = 1/132 (0%)

Query: 10  ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIW 69
               Y  K++L+G+  VGK+ L+LR+ +  F    ITT+G  F  + + + GKR+ L IW
Sbjct: 1   GSRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIW 60

Query: 70  DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNK 129
           DTAGQERF  +   YYR + G +LVYD+TDE SF  ++NW++ + +   + +   +VGNK
Sbjct: 61  DTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNK 120

Query: 130 ADMDESKREAPF 141
            D+ E +R    
Sbjct: 121 IDL-EKERHVSI 131

>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 =  259 bits (663), Expect = 7e-90
 Identities = 69/130 (53%), Positives = 92/130 (70%), Gaps = 1/130 (0%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           YDYL K++LIGDSGVGKS LL RF+   F     +TIG++F  R+I++DGK IK QIWDT
Sbjct: 2   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           AGQER+R IT+AYYRGA+G LLVYD+    ++ N+  W++ +  HA  N+  +LVGNK+D
Sbjct: 62  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 121

Query: 132 MDESKREAPF 141
           +    R  P 
Sbjct: 122 L-RHLRAVPT 130

>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 =  259 bits (663), Expect = 1e-89
 Identities = 68/145 (46%), Positives = 100/145 (68%), Gaps = 12/145 (8%)

Query: 5   PARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGK-- 62
             R   DYDYLIKLL +GDSGVGK+  L R++D  F   FITT+GIDF+ + +  + +  
Sbjct: 15  VPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGP 74

Query: 63  --------RIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE 114
                   ++ LQ+WDTAGQERFR++TTA++R AMG LL++D+T + SF N+RNW+  ++
Sbjct: 75  NGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQ 134

Query: 115 QHA-SDNVNKILVGNKADMDESKRE 138
            +A  +N + +L+GNKAD+   +RE
Sbjct: 135 ANAYCENPDIVLIGNKADL-PDQRE 158

>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 =  253 bits (649), Expect = 4e-88
 Identities = 48/125 (38%), Positives = 74/125 (59%), Gaps = 1/125 (0%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
            +  IK++++G+  VGKS ++ R+  G FT  +  TIG+DF  R I+++ + ++L +WDT
Sbjct: 2   SEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDT 61

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           AGQE F  IT AYYRGA   +LV+  TD  SF  I +W   +      ++   LV NK D
Sbjct: 62  AGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKID 120

Query: 132 MDESK 136
           + +  
Sbjct: 121 LLDDS 125

>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 =  253 bits (647), Expect = 3e-87
 Identities = 49/140 (35%), Positives = 79/140 (56%), Gaps = 1/140 (0%)

Query: 2   AAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG 61
                    +     KL+ +G+  VGK+ L+ RF   SF  ++  TIGIDF  +T+ L+ 
Sbjct: 3   GMSTGGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED 62

Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNV 121
           + ++LQ+WDTAG ERFR++  +Y R +   ++VYD+T+ +SF     WI ++      +V
Sbjct: 63  RTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDV 122

Query: 122 NKILVGNKADMDESKREAPF 141
             +LVGNK D+   KR+   
Sbjct: 123 IIMLVGNKTDL-ADKRQVSI 141

>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 =  251 bits (644), Expect = 3e-87
 Identities = 51/141 (36%), Positives = 81/141 (57%), Gaps = 6/141 (4%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAA       +     KL+L+GD G GKS L+LRF    F     +TIG  F  +T+ ++
Sbjct: 3   MAAAG-----NKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVN 57

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
              +K +IWDTAGQER+ ++   YYRGA   ++V+DVT+++SF   + W++ ++   + N
Sbjct: 58  DATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPN 117

Query: 121 VNKILVGNKADMDESKREAPF 141
           +   L GNK+D+    R+   
Sbjct: 118 MVMALAGNKSDL-LDARKVTA 137

>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 =  250 bits (642), Expect = 1e-86
 Identities = 49/139 (35%), Positives = 78/139 (56%), Gaps = 1/139 (0%)

Query: 3   APPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGK 62
           +     R      +K+ L+GD+GVGKS ++ RF    F  +   TIG  F  +T+    +
Sbjct: 11  SSGLVPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNE 70

Query: 63  RIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN 122
             K  IWDTAGQERF ++   YYRG+   ++VYD+T + SF  ++ W++ +++H  +N+ 
Sbjct: 71  LHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIV 130

Query: 123 KILVGNKADMDESKREAPF 141
             + GNK D+    RE P 
Sbjct: 131 MAIAGNKCDL-SDIREVPL 148

>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 =  250 bits (640), Expect = 3e-86
 Identities = 50/140 (35%), Positives = 86/140 (61%), Gaps = 8/140 (5%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
               L+K++++GDSGVGK+ L+ ++ +  F+  +  TIG DF  + + +D + + +QIWD
Sbjct: 4   RKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWD 63

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKILV 126
           TAGQERF+++  A+YRGA   +LV+DVT  ++F  + +W       AS    +N   +++
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVL 123

Query: 127 GNKADMDE----SKREAPFC 142
           GNK D++     +KR   +C
Sbjct: 124 GNKIDLENRQVATKRAQAWC 143

>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 =  248 bits (637), Expect = 3e-86
 Identities = 56/137 (40%), Positives = 82/137 (59%), Gaps = 7/137 (5%)

Query: 10  ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIW 69
           A    L K++L+GD GVGKS L+ R+    F T    TIG++F  + +E+DG  + +QIW
Sbjct: 2   AGKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIW 61

Query: 70  DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKIL 125
           DTAGQERFR++ T +YRG+   LL + V D  SF N+ NW +    +A     ++   ++
Sbjct: 62  DTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVI 121

Query: 126 VGNKADMDE---SKREA 139
           +GNK D+ E   S  EA
Sbjct: 122 LGNKIDISERQVSTEEA 138

>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 =  247 bits (634), Expect = 1e-85
 Identities = 50/131 (38%), Positives = 81/131 (61%), Gaps = 1/131 (0%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
           +     KL+ +G+  VGK+ L+ RF   SF  ++  TIGIDF  +T+ L+ + ++LQ+WD
Sbjct: 10  NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 69

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           TAGQERFR++  +Y R +   ++VYD+T+ +SF+    WI ++      +V  +LVGNK 
Sbjct: 70  TAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKT 129

Query: 131 DMDESKREAPF 141
           D+   KR+   
Sbjct: 130 DL-SDKRQVST 139

>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 =  246 bits (631), Expect = 1e-84
 Identities = 39/131 (29%), Positives = 67/131 (51%), Gaps = 1/131 (0%)

Query: 7   RARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIG-IDFKIRTIELDGKRIK 65
            +    +   K+ LIGD GVGK+  + R  DG F  ++  T+G ++  +  ++  G  IK
Sbjct: 3   GSMERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIK 62

Query: 66  LQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKIL 125
             +WDTAGQE+   +   YY GA G +L +DVT   +  N+  W++  +    +    ++
Sbjct: 63  FNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVV 122

Query: 126 VGNKADMDESK 136
             NK D+   +
Sbjct: 123 CANKIDIKNRQ 133

>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 =  243 bits (623), Expect = 5e-84
 Identities = 46/133 (34%), Positives = 70/133 (52%), Gaps = 5/133 (3%)

Query: 10  ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGK-RIKLQI 68
             +   +K++++GD   GK+ L   F+  +F   +  TIG+DF +R I L G   + LQI
Sbjct: 1   GSHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQI 60

Query: 69  WDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ---HASDNVNKIL 125
           WD  GQ     +   Y  GA G+LLVYD+T+  SF N+ +W   +++    +       L
Sbjct: 61  WDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVAL 120

Query: 126 VGNKADMDESKRE 138
           VGNK D+ E  R 
Sbjct: 121 VGNKIDL-EHMRT 132

>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 =  242 bits (621), Expect = 8e-84
 Identities = 50/126 (39%), Positives = 77/126 (61%), Gaps = 1/126 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +K+ L+GD+GVGKS ++ RF + SF  +   TIG  F  +T++   +  K  IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RFR +   YYRG+   ++VYD+T E +F+ ++NW+R + QH   ++   + GNK D+   
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDL-TD 125

Query: 136 KREAPF 141
            RE   
Sbjct: 126 VREVME 131

>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 =  242 bits (621), Expect = 1e-83
 Identities = 53/133 (39%), Positives = 87/133 (65%), Gaps = 5/133 (3%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKR-IKLQIW 69
               ++K++++GDSGVGK+ L+ R+ +  ++  +  TIG DF  + + +DG +   +Q+W
Sbjct: 4   RKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVW 63

Query: 70  DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKIL 125
           DTAGQERF+++  A+YRGA   +LVYDVT+ SSF NI++W      HA+    +    ++
Sbjct: 64  DTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVI 123

Query: 126 VGNKADMDESKRE 138
           +GNK D +ESK+ 
Sbjct: 124 LGNKIDAEESKKI 136

>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 =  240 bits (614), Expect = 8e-83
 Identities = 58/132 (43%), Positives = 84/132 (63%), Gaps = 1/132 (0%)

Query: 10  ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIW 69
            +     KL+L+G+S VGKS L+LRF  G F     +TIG  F  +T+ LD   +K +IW
Sbjct: 1   GNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

Query: 70  DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNK 129
           DTAGQER+ ++   YYRGA   ++VYD+T+E SF   +NW++ +++ AS N+   L GNK
Sbjct: 61  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNK 120

Query: 130 ADMDESKREAPF 141
           AD+  +KR   F
Sbjct: 121 ADL-ANKRAVDF 131

>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 =  241 bits (618), Expect = 1e-82
 Identities = 43/136 (31%), Positives = 74/136 (54%), Gaps = 4/136 (2%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MA+    A+ +     KL+L+GD G GK+  + R   G F   ++ T+G++        +
Sbjct: 4   MASA---AQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTN 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
              IK  +WDTAGQE+F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N
Sbjct: 61  RGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-EN 119

Query: 121 VNKILVGNKADMDESK 136
           +  +L GNK D+ + K
Sbjct: 120 IPIVLCGNKVDIKDRK 135

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  238 bits (610), Expect = 1e-81
 Identities = 29/135 (21%), Positives = 64/135 (47%), Gaps = 7/135 (5%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSD--GSFTTSFITTIGIDFKIRTIELDGKRIKLQI 68
                 K+ ++G++ VGKS L+  F+     F   +  T G++  +  + +    + +++
Sbjct: 16  TATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVEL 75

Query: 69  W--DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ---HASDNVNK 123
           +  DTAG + ++   + Y+ G    +LV+DV+   SF + + W   ++         +  
Sbjct: 76  FLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRA 135

Query: 124 ILVGNKADMDESKRE 138
           +LV NK D+   + +
Sbjct: 136 VLVANKTDLPPQRHQ 150

>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 =  215 bits (551), Expect = 8e-73
 Identities = 35/132 (26%), Positives = 60/132 (45%), Gaps = 3/132 (2%)

Query: 9   RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQI 68
           +   D + K++L+G+SGVGKS L   F      ++       D   R I +D + + L +
Sbjct: 17  QGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVV 76

Query: 69  WDTAGQERFR-TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILV 126
           +D   Q      +     +     L+V+ VTD  SF+ +   +  +       ++  ILV
Sbjct: 77  YDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILV 136

Query: 127 GNKADMDESKRE 138
           GNK+D+    RE
Sbjct: 137 GNKSDL-ARSRE 147

>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 =  212 bits (543), Expect = 2e-71
 Identities = 47/139 (33%), Positives = 77/139 (55%), Gaps = 4/139 (2%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MAA   + + +   L K++++G  GVGKS L L+F    F   +  T    ++ + + LD
Sbjct: 1   MAANKPKGQ-NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLD 58

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASD 119
           G+ +++ I DTAGQE +  I   Y+R   G L V+ +T+  SF    ++   I +    +
Sbjct: 59  GEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDE 118

Query: 120 NVNKILVGNKADMDESKRE 138
           NV  +LVGNK+D+ E KR+
Sbjct: 119 NVPFLLVGNKSDL-EDKRQ 136

>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 =  210 bits (537), Expect = 1e-70
 Identities = 44/138 (31%), Positives = 73/138 (52%), Gaps = 3/138 (2%)

Query: 2   AAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG 61
            +       +   L K++++G  GVGKS L L+F    F   +  T    ++ + + LDG
Sbjct: 5   ISGGGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDG 63

Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDN 120
           + +++ I DTAGQE +  I   Y+R   G L V+ +T+  SF    ++   I +    +N
Sbjct: 64  EEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDEN 123

Query: 121 VNKILVGNKADMDESKRE 138
           V  +LVGNK+D+ E KR+
Sbjct: 124 VPFLLVGNKSDL-EDKRQ 140

>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 =  208 bits (531), Expect = 7e-70
 Identities = 47/129 (36%), Positives = 66/129 (51%), Gaps = 3/129 (2%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
                 KL+++G  GVGKS L ++F    F + +  TI  D   +   +DG   +L I D
Sbjct: 5   PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILD 63

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNK 129
           TAGQE F  +   Y R   G LLV+ + D  SFN +      I      D+   +LVGNK
Sbjct: 64  TAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNK 123

Query: 130 ADMDESKRE 138
           AD+ ES+R+
Sbjct: 124 ADL-ESQRQ 131

>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 =  207 bits (528), Expect = 2e-69
 Identities = 44/138 (31%), Positives = 72/138 (52%), Gaps = 3/138 (2%)

Query: 2   AAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG 61
           +   +   ++     KL+++GD GVGKS L ++F    F   +  TI  D  ++  E+D 
Sbjct: 5   SMATSAVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTEIDN 63

Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDN 120
           +   L + DTAGQE F  +   Y R   G L+VY VTD++SF ++  + + I +    ++
Sbjct: 64  QWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRES 123

Query: 121 VNKILVGNKADMDESKRE 138
              ILV NK D+    R+
Sbjct: 124 FPMILVANKVDL-MHLRK 140

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  205 bits (524), Expect = 6e-69
 Identities = 34/126 (26%), Positives = 57/126 (45%), Gaps = 3/126 (2%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           + K++L+G+SGVGKS L   F       +       D   R I +D + + L ++D   Q
Sbjct: 2   VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61

Query: 75  ERFR-TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADM 132
                 +     +     L+V+ VTD  SF+ +   +  +       ++  ILVGNK+D+
Sbjct: 62  GDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDL 121

Query: 133 DESKRE 138
               RE
Sbjct: 122 -ARSRE 126

>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 =  205 bits (523), Expect = 9e-69
 Identities = 38/136 (27%), Positives = 72/136 (52%), Gaps = 8/136 (5%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTT--SFITTIGIDFKIRTIELDGKR---IKLQIWD 70
           +KL+++G++G GK+ LL +      +       T+GID K   I++  KR   + L +WD
Sbjct: 3   MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTD-ESSFNNIRNWIRNIEQHASDNVNKILVGNK 129
            AG+E F +    +       L VYD++  ++  + ++ W+ NI+  AS +   ILVG  
Sbjct: 63  FAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSP-VILVGTH 121

Query: 130 ADMDESKREAPFCLHE 145
            D+ + +++   C+ +
Sbjct: 122 LDVSD-EKQRKACMSK 136

>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 =  204 bits (520), Expect = 2e-68
 Identities = 51/123 (41%), Positives = 75/123 (60%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IKL+L+G++ VGKS ++LRF    F  +   TIG  F  + + ++   +K +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RF ++   YYR A   L+VYDVT   SF   R+W++ + + AS ++   LVGNK D  + 
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQE 123

Query: 136 KRE 138
             E
Sbjct: 124 GGE 126

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  202 bits (515), Expect = 3e-67
 Identities = 45/161 (27%), Positives = 72/161 (44%), Gaps = 39/161 (24%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIK----- 65
           +     K +L+G+S VGKS ++LR +  +F  +  TTIG  F    + L+   IK     
Sbjct: 3   EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNN 62

Query: 66  --------------------------------LQIWDTAGQERFRTITTAYYRGAMGILL 93
                                             IWDTAGQER+ +I   YYRGA   ++
Sbjct: 63  EKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIV 122

Query: 94  VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE 134
           V+D+++ ++ +  + W+  +    S N   ILV NK D ++
Sbjct: 123 VFDISNSNTLDRAKTWVNQL--KISSNYIIILVANKIDKNK 161

>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 =  201 bits (513), Expect = 5e-67
 Identities = 40/135 (29%), Positives = 65/135 (48%), Gaps = 6/135 (4%)

Query: 10  ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIW 69
            +     ++++ G  GVGKS L+LRF  G+F  ++I TI   ++ + I  D     LQI 
Sbjct: 3   PEQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQIT 61

Query: 70  DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ--HASDNVNKILVG 127
           DT G  +F  +           +LV+ VT + S   +    + I Q   + +++  +LVG
Sbjct: 62  DTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVG 121

Query: 128 NKADMDE---SKREA 139
           NK D  +     REA
Sbjct: 122 NKCDETQREVDTREA 136

>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 =  198 bits (507), Expect = 3e-66
 Identities = 40/128 (31%), Positives = 62/128 (48%), Gaps = 3/128 (2%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
                K+ ++G   VGKS L ++F +G F  S+  TI   F  + I ++G+   LQ+ DT
Sbjct: 3   QSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVDT 61

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNKA 130
           AGQ+ +      Y     G +LVY VT   SF  I+     + +      +  +LVGNK 
Sbjct: 62  AGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKK 121

Query: 131 DMDESKRE 138
           D+   +R 
Sbjct: 122 DL-HMERV 128

>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 =  197 bits (504), Expect = 6e-66
 Identities = 44/125 (35%), Positives = 71/125 (56%), Gaps = 3/125 (2%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           L K++++G  GVGKS L L+F    F   +  T    ++ + + LDG+ +++ I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQ 62

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMD 133
           E +  I   Y+R   G L V+ +T+  SF    ++   I +    +NV  +LVGNK+D+ 
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDL- 121

Query: 134 ESKRE 138
           E KR+
Sbjct: 122 EDKRQ 126

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  198 bits (506), Expect = 7e-66
 Identities = 39/128 (30%), Positives = 65/128 (50%), Gaps = 3/128 (2%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
                K++++G   VGK+ L  +F +G F+  +  T+   +  + + L      L + DT
Sbjct: 21  LVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYS-KIVTLGKDEFHLHLVDT 79

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNKA 130
           AGQ+ +  +  ++  G  G +LVY VT   SF  I +  + + E H    V  +LVGNKA
Sbjct: 80  AGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKA 139

Query: 131 DMDESKRE 138
           D+   +RE
Sbjct: 140 DL-SPERE 146

>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 =  195 bits (499), Expect = 3e-65
 Identities = 47/123 (38%), Positives = 71/123 (57%), Gaps = 3/123 (2%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K++++G  GVGKS L ++F  G+F   +  TI  DF  + IE+D     L+I DTAG E+
Sbjct: 5   KVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQ 63

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNKADMDES 135
           F ++   Y +   G +LVY + ++ SF +I+     I      + V  ILVGNK D+ ES
Sbjct: 64  FASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDL-ES 122

Query: 136 KRE 138
           +RE
Sbjct: 123 ERE 125

>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 =  195 bits (497), Expect = 5e-65
 Identities = 42/127 (33%), Positives = 67/127 (52%), Gaps = 5/127 (3%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++     F      TI   ++ + + +DG+   L I DTAGQE 
Sbjct: 5   KLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYR-KQVVIDGETCLLDILDTAGQEE 63

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE- 134
           +  +   Y R   G L V+ + +  SF +I  +   I++   SD+V  +LVGNK+D+   
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAAR 123

Query: 135 --SKREA 139
               R+A
Sbjct: 124 TVESRQA 130

>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 =  195 bits (497), Expect = 1e-64
 Identities = 41/127 (32%), Positives = 67/127 (52%), Gaps = 5/127 (3%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++     F   +  TI   ++ + + +DG+   L I DTAGQE 
Sbjct: 23  KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEE 81

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE- 134
           +  +   Y R   G L V+ + +  SF +I  +   I++   SD+V  +LVGNK D+   
Sbjct: 82  YSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPTR 141

Query: 135 --SKREA 139
               ++A
Sbjct: 142 TVDTKQA 148

>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 =  194 bits (496), Expect = 2e-64
 Identities = 40/127 (31%), Positives = 68/127 (53%), Gaps = 5/127 (3%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++     F   +  TI   ++ + + +DG+   L I DTAGQE 
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEE 64

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDE- 134
           +  +   Y R   G L V+ + +  SF +I ++   I++   S++V  +LVGNK D+   
Sbjct: 65  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSR 124

Query: 135 --SKREA 139
               ++A
Sbjct: 125 TVDTKQA 131

>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 =  192 bits (490), Expect = 8e-64
 Identities = 44/123 (35%), Positives = 74/123 (60%), Gaps = 3/123 (2%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++F  G F   +  TI   ++ + +E+D ++  L+I DTAG E+
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQ 63

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDES 135
           F  +   Y +   G  LVY +T +S+FN++++    I +   +++V  ILVGNK D+ E 
Sbjct: 64  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDL-ED 122

Query: 136 KRE 138
           +R 
Sbjct: 123 ERV 125

>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 =  191 bits (488), Expect = 1e-63
 Identities = 38/124 (30%), Positives = 59/124 (47%), Gaps = 4/124 (3%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           ++ + G  GVGKS L+LRF  G+F  S+I T+   ++ + I  D     LQI DT G  +
Sbjct: 5   RVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSHQ 63

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA--SDNVNKILVGNKADMDE 134
           F  +           +LVY +T   S   ++     I +     +++  +LVGNK D   
Sbjct: 64  FPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDE-S 122

Query: 135 SKRE 138
             RE
Sbjct: 123 PSRE 126

>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 =  191 bits (487), Expect = 2e-63
 Identities = 39/125 (31%), Positives = 59/125 (47%), Gaps = 4/125 (3%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           + K+LL+G  GVGKS L   F  G          G  +  R+I +DG+   L ++D   Q
Sbjct: 2   VYKVLLLGAPGVGKSALARIFG-GVEDGPEAEAAGHTYD-RSIVVDGEEASLMVYDIWEQ 59

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMD 133
           +  R +           ++VY VTD+ SF         + +   +D+V  ILVGNK+D+ 
Sbjct: 60  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDL- 118

Query: 134 ESKRE 138
              RE
Sbjct: 119 VRSRE 123

>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 =  188 bits (481), Expect = 2e-62
 Identities = 38/127 (29%), Positives = 60/127 (47%), Gaps = 5/127 (3%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           L +++L+GD GVGK+ L   F+              D   RT+ +DG+   L + DT   
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFAGKQERDLHEQLG-EDVYERTLTVDGEDTTLVVVDTWEA 62

Query: 75  ERFRTITT--AYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNKAD 131
           E+     +  +  +G    ++VY + D  SF +       +   H +D+V  ILVGNKAD
Sbjct: 63  EKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKAD 122

Query: 132 MDESKRE 138
           +    RE
Sbjct: 123 L-ARCRE 128

>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 =  189 bits (481), Expect = 6e-62
 Identities = 38/143 (26%), Positives = 67/143 (46%), Gaps = 8/143 (5%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIEL 59
           M+     +    +   +++LIG+ GVGKS L   F+    +  S    +G D   RT+ +
Sbjct: 23  MSTDSVISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMV 82

Query: 60  DGKR---IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQ 115
           DG+    I L +W+  G+  +  +     +     L+VY +TD +SF         +   
Sbjct: 83  DGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRA 140

Query: 116 HASDNVNKILVGNKADMDESKRE 138
             ++++  ILVGNK+D+    RE
Sbjct: 141 RQTEDIPIILVGNKSDL-VRCRE 162

>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 =  186 bits (474), Expect = 4e-61
 Identities = 42/128 (32%), Positives = 66/128 (51%), Gaps = 4/128 (3%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
               +KL + G +GVGKS L++RF    F   +  T+   ++     +D + + ++I DT
Sbjct: 25  KSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDT 83

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKA 130
           AGQE        + R   G +LVYD+TD  SF  +      +++     NV  ILVGNKA
Sbjct: 84  AGQEDTIQ-REGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKA 142

Query: 131 DMDESKRE 138
           D+ +  R+
Sbjct: 143 DL-DHSRQ 149

>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 =  180 bits (458), Expect = 8e-59
 Identities = 35/131 (26%), Positives = 62/131 (47%), Gaps = 7/131 (5%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKR---IKLQ 67
                +++LIG+ GVGKS L   F+    +  S    +G D   RT+ +DG+    I L 
Sbjct: 3   GMTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLD 62

Query: 68  IWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILV 126
           +W+  G+  +  +     +     L+VY +TD +SF         +     ++++  ILV
Sbjct: 63  MWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILV 120

Query: 127 GNKADMDESKR 137
           GNK+D+   + 
Sbjct: 121 GNKSDLVRXRE 131

>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 =  176 bits (449), Expect = 2e-57
 Identities = 29/125 (23%), Positives = 55/125 (44%), Gaps = 9/125 (7%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +K+ ++G+   GKS L+ R+  G++        G  FK + I +DG+   L I D  G  
Sbjct: 21  LKVGIVGNLSSGKSALVHRYLTGTYVQEESPEGG-RFK-KEIVVDGQSYLLLIRDEGGPP 78

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMD- 133
             +     +      ++ V+ + DE SF  + N+   +     +  V  +LVG +  +  
Sbjct: 79  ELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISA 133

Query: 134 ESKRE 138
            + R 
Sbjct: 134 ANPRV 138

>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 =  175 bits (446), Expect = 6e-57
 Identities = 32/138 (23%), Positives = 61/138 (44%), Gaps = 8/138 (5%)

Query: 4   PPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKR 63
                +   +    L ++G  G GKS L ++F    F + +   +   +      +D + 
Sbjct: 12  ENLYFQGPLEV--NLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYS-SEETVDHQP 68

Query: 64  IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD---N 120
           + L++ DTA  +  R     Y   A   L+VY V    SF++  +++  +  HA +   +
Sbjct: 69  VHLRVMDTADLDTPRNCER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRS 127

Query: 121 VNKILVGNKADMDESKRE 138
           +  +L+GNK DM    R+
Sbjct: 128 IPALLLGNKLDM-AQYRQ 144

>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 =  170 bits (432), Expect = 7e-55
 Identities = 29/128 (22%), Positives = 57/128 (44%), Gaps = 11/128 (8%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
            ++L ++GD+  GKS L+ RF  GS+      T    +K + + +DG+   + I + AG 
Sbjct: 7   ELRLGVLGDARSGKSSLIHRFLTGSYQ-VLEKTESEQYK-KEMLVDGQTHLVLIREEAGA 64

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNW---IRNIEQHASDNVNKILVGNKAD 131
              +     +   A  ++ V+ + DE+SF  +      + ++       +   LVG +  
Sbjct: 65  PDAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDR 119

Query: 132 MD-ESKRE 138
           +   S R 
Sbjct: 120 ISASSPRV 127

>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 =  154 bits (390), Expect = 2e-48
 Identities = 42/134 (31%), Positives = 71/134 (52%), Gaps = 3/134 (2%)

Query: 6   ARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIK 65
           A    +    +K++++GD  VGK+CLLL FS G   T+++ T+  +F    ++   +   
Sbjct: 14  AGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH-VMKYKNEEFI 72

Query: 66  LQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKI 124
           L +WDTAGQE +  +    Y  +  +LL + V + +SF+NI   W   I +H  D    +
Sbjct: 73  LHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEI-KHYIDTAKTV 131

Query: 125 LVGNKADMDESKRE 138
           LVG K D+ +   +
Sbjct: 132 LVGLKVDLRKDGSD 145

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  162 bits (410), Expect = 4e-48
 Identities = 33/144 (22%), Positives = 55/144 (38%), Gaps = 12/144 (8%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL- 59
             A        +   IK+ LIGD   GK+ LL +    +F      T G++   +     
Sbjct: 27  EEARSKGEALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNI 86

Query: 60  -------DGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRN 112
                  + K      WD  GQE        +   +   +L+ D     + +N   W+R+
Sbjct: 87  KGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRH 143

Query: 113 IEQHASDNVNKILVGNKADMDESK 136
           IE++   +   I+V NK D + S 
Sbjct: 144 IEKYGGKSP-VIVVMNKIDENPSY 166

>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 =  143 bits (362), Expect = 6e-44
 Identities = 46/122 (37%), Positives = 74/122 (60%), Gaps = 3/122 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +K++L+GD G GK+ LL+ F+DG+F  S+  T+   + +  +++ GK + L IWDTAGQ+
Sbjct: 35  VKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQD 93

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADMDE 134
            +  +   +Y  A  +LL +DVT  +SF+NI N W   +  H    V  I+VG K D+ +
Sbjct: 94  DYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEV-NHFCKKVPIIVVGCKTDLRK 152

Query: 135 SK 136
            K
Sbjct: 153 DK 154

>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 =  140 bits (355), Expect = 3e-43
 Identities = 40/124 (32%), Positives = 72/124 (58%), Gaps = 3/124 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK + +GD  VGK+CLL+ ++  +F T ++ T+  +F    + ++G  + L +WDTAGQE
Sbjct: 9   IKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLGLWDTAGQE 67

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    YRGA   +L + +  ++S+ N+   WI  + +H +  V  +LVG K D+ +
Sbjct: 68  DYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPEL-KHYAPGVPIVLVGTKLDLRD 126

Query: 135 SKRE 138
            K+ 
Sbjct: 127 DKQF 130

>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 =  139 bits (353), Expect = 9e-43
 Identities = 44/132 (33%), Positives = 67/132 (50%), Gaps = 3/132 (2%)

Query: 2   AAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG 61
           +    R         KL+++GD   GK+CLL+ FS   F   ++ T+  +  I  IE+DG
Sbjct: 12  SGLVPRGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVDG 70

Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDN 120
           K+++L +WDTAGQE +  +    Y     IL+ + +    S  NI   W   ++     N
Sbjct: 71  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-N 129

Query: 121 VNKILVGNKADM 132
           V  ILVGNK D+
Sbjct: 130 VPIILVGNKKDL 141

>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 =  136 bits (343), Expect = 4e-41
 Identities = 42/122 (34%), Positives = 67/122 (54%), Gaps = 3/122 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            KL+++GD   GK+CLL+ FS   F   ++ T+  ++ +  IE+DGK+++L +WDTAGQE
Sbjct: 26  KKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQE 84

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y     IL+ + V    S  NI   W+  ++     NV  ILV NK D+  
Sbjct: 85  DYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRS 143

Query: 135 SK 136
            +
Sbjct: 144 DE 145

>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 =  132 bits (334), Expect = 6e-40
 Identities = 31/123 (25%), Positives = 68/123 (55%), Gaps = 3/123 (2%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
           + +   K++++GDS  GK+ LL  F+   F  +++ T+  ++   + E+D +RI+L +WD
Sbjct: 24  NQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLWD 82

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNK 129
           T+G   +  +    Y  +  +L+ +D++   + +++   W   I++    N   +LVG K
Sbjct: 83  TSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCK 141

Query: 130 ADM 132
           +D+
Sbjct: 142 SDL 144

>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 =  131 bits (332), Expect = 1e-39
 Identities = 41/122 (33%), Positives = 66/122 (54%), Gaps = 3/122 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+ ++  +F   +I T+  D     + +DGK + L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQE 89

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    Y      L+ + +   +SF N+R  W   + +H   N   ILVG K D+ +
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 148

Query: 135 SK 136
            K
Sbjct: 149 DK 150

>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 =  130 bits (328), Expect = 4e-39
 Identities = 31/118 (26%), Positives = 66/118 (55%), Gaps = 3/118 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            K++++GDS  GK+ LL  F+   F  +++ T+  ++   + E+D +RI+L +WDT+G  
Sbjct: 8   CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLWDTSGSP 66

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y  +  +L+ +D++   + +++   W   I++    N   +LVG K+D+
Sbjct: 67  YYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDL 123

>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 =  128 bits (324), Expect = 3e-38
 Identities = 26/118 (22%), Positives = 60/118 (50%), Gaps = 3/118 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            KL+L+GD   GK+ +L   +   +  +++ T+  ++    +E + +R++L +WDT+G  
Sbjct: 28  CKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSP 86

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y  +  +LL +D++   + ++    W   I  +   +   +L+G K D+
Sbjct: 87  YYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDL 143

>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 =  126 bits (318), Expect = 1e-37
 Identities = 40/118 (33%), Positives = 63/118 (53%), Gaps = 3/118 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+ ++  +F   +I T+  D     + +DGK + L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 64

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADM 132
            +  +    Y      L+ + +   +SF N+R  W   +  H   N   ILVG K D+
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDL 121

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  126 bits (318), Expect = 2e-37
 Identities = 41/134 (30%), Positives = 66/134 (49%), Gaps = 5/134 (3%)

Query: 2   AAPPARARA--DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL 59
             P  R RA       +K +L+GD  VGK+ L++ ++   + T +I T   D     + +
Sbjct: 5   GEPGGRGRAGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAVVSV 63

Query: 60  DGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHAS 118
           DG+ ++LQ+ DTAGQ+ F  +    Y      LL + V   SSF N+   W+  I +   
Sbjct: 64  DGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEI-RCHC 122

Query: 119 DNVNKILVGNKADM 132
                ILVG ++D+
Sbjct: 123 PKAPIILVGTQSDL 136

>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 =  124 bits (314), Expect = 5e-37
 Identities = 35/132 (26%), Positives = 74/132 (56%), Gaps = 3/132 (2%)

Query: 2   AAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG 61
           A   + A      ++K +++GD  VGK+CLL+ +++ +F   ++ T+  D    ++ + G
Sbjct: 5   AGRSSMAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGG 63

Query: 62  KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDN 120
           K+  L ++DTAGQE +  +    Y      L+ + V + +SF N++  W+  ++++ + N
Sbjct: 64  KQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APN 122

Query: 121 VNKILVGNKADM 132
           V  +L+G + D+
Sbjct: 123 VPFLLIGTQIDL 134

>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 =  124 bits (314), Expect = 9e-37
 Identities = 40/122 (32%), Positives = 70/122 (57%), Gaps = 3/122 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK + +GD  VGK+C+L+ ++   F T +I T+  D     + +DG+ + L +WDTAGQE
Sbjct: 10  IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVAVDGQIVNLGLWDTAGQE 68

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADMDE 134
            +  +    YRGA   +L + +  ++S+ N+   W+  + +  + NV  +LVG K D+ +
Sbjct: 69  DYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPEL-RRFAPNVPIVLVGTKLDLRD 127

Query: 135 SK 136
            K
Sbjct: 128 DK 129

>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 =  101 bits (253), Expect = 3e-27
 Identities = 33/182 (18%), Positives = 50/182 (27%), Gaps = 66/182 (36%)

Query: 22  GDSGVGKSCLLLRF---SDGSFTTSFITTIG-IDFKIRTIELD--------------GKR 63
           G  G+GKSCL  RF   S   F     + +   DF  R +  D                 
Sbjct: 35  GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94

Query: 64  IKLQIW-------DTAGQERFRTITTAYYRGAM--------------------------- 89
            K+ I        D   Q    T    Y + A                            
Sbjct: 95  CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQK 154

Query: 90  ----------GILLVYDVT--DESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESK 136
                     G LL  DV+     +F++   ++ N+    +      ++V  K D    +
Sbjct: 155 QMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDE-GVE 213

Query: 137 RE 138
           R 
Sbjct: 214 RY 215

>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* Length = 332

 Score = 83.9 bits (207), Expect = 4e-20
 Identities = 39/133 (29%), Positives = 65/133 (48%), Gaps = 3/133 (2%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           +             LIK +++GD  VGK+CLL+ ++  +F   +I T+  D     + +D
Sbjct: 141 IKKTAENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVD 199

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-WIRNIEQHASD 119
           GK + L +WDTAG E +  +    Y      L+ + +   +SF+++R  W   +  H   
Sbjct: 200 GKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCP- 258

Query: 120 NVNKILVGNKADM 132
           N   ILVG K D+
Sbjct: 259 NTPIILVGTKLDL 271

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 79.0 bits (195), Expect = 4e-19
 Identities = 27/133 (20%), Positives = 43/133 (32%), Gaps = 16/133 (12%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDG----------SFTTSFITTIGIDFKIRTIE-LDGKRI 64
            K++  G    GK+  L                S  T    T+  DF    I  + G + 
Sbjct: 15  FKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKT 74

Query: 65  KLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNK- 123
           +  ++   GQ  +        RG  GI+ V D        N  +     E  A   +   
Sbjct: 75  RFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLD 134

Query: 124 ---ILVG-NKADM 132
              I++  NK D+
Sbjct: 135 DVPIVIQVNKRDL 147

>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* Length = 188

 Score = 68.4 bits (168), Expect = 3e-15
 Identities = 34/121 (28%), Positives = 57/121 (47%), Gaps = 5/121 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           ++L L+G    GK+  +   + G F    I T+G  F +R I      + +++WD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITK--GNVTIKLWDIGGQP 78

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDE 134
           RFR++   Y RG   I+ + D  D+      +N + N+          +LV GNK D+  
Sbjct: 79  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 138

Query: 135 S 135
           +
Sbjct: 139 A 139

>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* Length = 171

 Score = 66.8 bits (164), Expect = 9e-15
 Identities = 32/125 (25%), Positives = 57/125 (45%), Gaps = 6/125 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G  G GK+ +L R   G   T+ I TIG  F + T+    K +K Q+WD  G  
Sbjct: 8   MRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTY--KNLKFQVWDLGGLT 62

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDE 134
             R     YY     ++ V D  D       ++ +  + +        ++V  NK DM++
Sbjct: 63  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ 122

Query: 135 SKREA 139
           +   +
Sbjct: 123 AMTSS 127

>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* Length = 196

 Score = 67.3 bits (164), Expect = 9e-15
 Identities = 29/136 (21%), Positives = 46/136 (33%), Gaps = 12/136 (8%)

Query: 13  DYLIKLLLIGDSGVGKSCLL-LRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
               ++LL+G    GKS +  + F   S   +             I      +  QIWD 
Sbjct: 18  GSKPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISNSSF-VNFQIWDF 76

Query: 72  AGQERFRTIT---TAYYRGAMGILLVYDVTDES--SFNNIRNWIRNIEQHASDNVNKILV 126
            GQ  F   T      +RG   ++ V D  D+   +   +   +    +   D      V
Sbjct: 77  PGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPD--MNFEV 134

Query: 127 -GNKADM--DESKREA 139
             +K D   D+ K E 
Sbjct: 135 FIHKVDGLSDDHKIET 150

>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* Length = 192

 Score = 66.6 bits (163), Expect = 2e-14
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 6/121 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +   G   T+ I TIG  F + T+E   K I   +WD  GQ+
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNICFTVWDVGGQD 84

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDE 134
           + R +   Y++   G++ V D  D        + ++ + Q        +LV  NK DM  
Sbjct: 85  KIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPN 144

Query: 135 S 135
           +
Sbjct: 145 A 145

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 65.7 bits (161), Expect = 4e-14
 Identities = 30/125 (24%), Positives = 57/125 (45%), Gaps = 6/125 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           I++L++G    GK+ +L R   G   T+ + T+G    + T++   K I  ++WD  GQ 
Sbjct: 23  IRVLMLGLDNAGKTSILYRLHLGDVVTT-VPTVG--VNLETLQY--KNISFEVWDLGGQT 77

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDE 134
             R     Y+     ++ V D TD       ++ +  +        + +L+  NK D+ +
Sbjct: 78  GVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPD 137

Query: 135 SKREA 139
           +  EA
Sbjct: 138 AASEA 142

>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* ... Length = 164

 Score = 64.1 bits (157), Expect = 7e-14
 Identities = 33/121 (27%), Positives = 57/121 (47%), Gaps = 6/121 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +   G   T+ I TIG  F + T+E   K I   +WD  GQ+
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGQD 55

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDE 134
           + R +   Y++   G++ V D  D    N  R  +  +          +LV  NK D+  
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 115

Query: 135 S 135
           +
Sbjct: 116 A 116

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 64.6 bits (158), Expect = 7e-14
 Identities = 34/118 (28%), Positives = 53/118 (44%), Gaps = 6/118 (5%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G  G GK+ +L R   G   T+   TIG  F + T+    K +KL +WD  GQ 
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEVVTT-KPTIG--FNVETLSY--KNLKLNVWDLGGQT 73

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADM 132
             R     YY     ++ V D TD+   +     +  + Q        +LV  NK D 
Sbjct: 74  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQ 131

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 66.2 bits (161), Expect = 8e-14
 Identities = 37/136 (27%), Positives = 61/136 (44%), Gaps = 14/136 (10%)

Query: 17  KLLLIGDSGVGKSCLL-LRFSDGSF--TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG 73
           KLLL+G SG GKS +  + FS+ S   T     TI ++     +   G  + L +WD  G
Sbjct: 5   KLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHS--HLRFLGN-MTLNLWDCGG 61

Query: 74  QERF-----RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILV- 126
           Q+ F            ++    ++ V+DV       +I  + + ++Q    + + KI V 
Sbjct: 62  QDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVL 121

Query: 127 GNKADM-DESKREAPF 141
            +K D+    KRE  F
Sbjct: 122 LHKMDLVQLDKREELF 137

>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* Length = 186

 Score = 63.4 bits (155), Expect = 2e-13
 Identities = 31/118 (26%), Positives = 57/118 (48%), Gaps = 6/118 (5%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           ++LL++G    GK+ +L +F+     T    T+G  F I+T+E   +  KL IWD  GQ+
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGEDVDTI-SPTLG--FNIKTLEH--RGFKLNIWDVGGQK 73

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADM 132
             R+    Y+    G++ V D  D     + +  ++++          +L+  NK D+
Sbjct: 74  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDL 131

>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* Length = 181

 Score = 63.0 bits (154), Expect = 3e-13
 Identities = 27/125 (21%), Positives = 55/125 (44%), Gaps = 6/125 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++LL+G    GK+ LL + +    +     T G  F I++++   +  KL +WD  GQ 
Sbjct: 17  VRILLLGLDNAGKTTLLKQLASEDISHI-TPTQG--FNIKSVQS--QGFKLNVWDIGGQR 71

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDE 134
           + R    +Y+     ++ V D  D   F      +  + +    +   +L+  NK D+  
Sbjct: 72  KIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLT 131

Query: 135 SKREA 139
           +   +
Sbjct: 132 AAPAS 136

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 63.0 bits (154), Expect = 3e-13
 Identities = 30/121 (24%), Positives = 52/121 (42%), Gaps = 6/121 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            K++++G    GK+ +L +FS      +   TIG    +  I +     +  +WD  GQE
Sbjct: 17  HKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIG--SNVEEIVI--NNTRFLMWDIGGQE 71

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDE 134
             R+    YY     +++V D TD    +  R  +  +  H       +L+  NK D+ E
Sbjct: 72  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE 131

Query: 135 S 135
            
Sbjct: 132 C 132

>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* Length = 181

 Score = 62.7 bits (153), Expect = 4e-13
 Identities = 30/121 (24%), Positives = 52/121 (42%), Gaps = 6/121 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            K++++G    GK+ +L +FS      +   TIG    +  I +     +  +WD  GQE
Sbjct: 22  HKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIG--SNVEEIVI--NNTRFLMWDIGGQE 76

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADMDE 134
             R+    YY     +++V D TD    +  R  +  +  H       +L+  NK D+ E
Sbjct: 77  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE 136

Query: 135 S 135
            
Sbjct: 137 C 137

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 62.3 bits (152), Expect = 7e-13
 Identities = 27/124 (21%), Positives = 53/124 (42%), Gaps = 8/124 (6%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFIT-TIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           + +L +G    GK+ ++ +    +  +  I  TIG  F I   +     +   ++D +GQ
Sbjct: 22  VHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKS--SSLSFTVFDMSGQ 77

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNK--ILV-GNKAD 131
            R+R +   YY+    I+ V D +D       +  +  +  H      +  IL   NK D
Sbjct: 78  GRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMD 137

Query: 132 MDES 135
           + ++
Sbjct: 138 LRDA 141

>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* Length = 198

 Score = 61.5 bits (150), Expect = 1e-12
 Identities = 23/118 (19%), Positives = 42/118 (35%), Gaps = 6/118 (5%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            KL+ +G    GK+ LL    D       + T+        + +    +    +D  G  
Sbjct: 26  GKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLH--PTSEELTI--AGMTFTTFDLGGHI 80

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADM 132
           + R +   Y     GI+ + D  D       +  + ++    +     IL+ GNK D 
Sbjct: 81  QARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDR 138

>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* Length = 190

 Score = 61.1 bits (149), Expect = 2e-12
 Identities = 27/118 (22%), Positives = 43/118 (36%), Gaps = 6/118 (5%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            KLL +G    GK+ LL    +    T    T         + +    IK   +D  G  
Sbjct: 24  GKLLFLGLDNAGKTTLLHMLKNDRLATL-QPTWH--PTSEELAI--GNIKFTTFDLGGHI 78

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKADM 132
           + R +   Y+    GI+ + D  D   F+  R  +  +   A       ++ GNK D 
Sbjct: 79  QARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDA 136

>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 Length = 214

 Score = 59.8 bits (145), Expect = 7e-12
 Identities = 22/126 (17%), Positives = 48/126 (38%), Gaps = 9/126 (7%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQE 75
            +L +G    GK+ L +R   G +  +  T+I         ++ + +   L + D  G E
Sbjct: 9   AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSIT--DSSAIYKVNNNRGNSLTLIDLPGHE 65

Query: 76  RFR-TITTAYYRGAMGILLVYDVTD-ESSFNNIRNWIRNIEQHASDNVNKILV---GNKA 130
             R  +   +   A  ++ V D    +    ++  ++  +   +    N   +    NK 
Sbjct: 66  SLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQ 125

Query: 131 DMDESK 136
           D+  +K
Sbjct: 126 DIAMAK 131

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 57.6 bits (139), Expect = 1e-10
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 6/122 (4%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
               +++L++G    GK+ +L +   G   T+ I TIG  F + T+E   K I   +WD 
Sbjct: 162 GKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDV 216

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV-GNKA 130
            GQ++ R +   Y++   G++ V D  D    N  R  +  +          +LV  NK 
Sbjct: 217 GGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQ 276

Query: 131 DM 132
           D+
Sbjct: 277 DL 278

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 56.3 bits (136), Expect = 1e-10
 Identities = 20/129 (15%), Positives = 48/129 (37%), Gaps = 15/129 (11%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
            +++ G    GK+ LL   +  S   + + +            D     + + D  G  +
Sbjct: 50  SIIIAGPQNSGKTSLLTLLTTDSVRPT-VVSQE-----PLSAADYDGSGVTLVDFPGHVK 103

Query: 77  FRTITTAYYRGAM----GILLVYD-VTDESSFNNIRNWIRNI---EQHASDNVNKILV-G 127
            R   + Y +       G++ + D   D         ++ +I    + + +N   IL+  
Sbjct: 104 LRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIAC 163

Query: 128 NKADMDESK 136
           NK+++  ++
Sbjct: 164 NKSELFTAR 172

>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 Length = 218

 Score = 55.9 bits (135), Expect = 2e-10
 Identities = 20/131 (15%), Positives = 49/131 (37%), Gaps = 15/131 (11%)

Query: 18  LLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF 77
           +++ G    GK+ LL   +  S   + + +            D     + + D  G  + 
Sbjct: 15  IIIAGPQNSGKTSLLTLLTTDSVRPT-VVSQE-----PLSAADYDGSGVTLVDFPGHVKL 68

Query: 78  RTITTAYY----RGAMGILLVYD-VTDESSFNNIRNWIRNI---EQHASDNVNKILV-GN 128
           R   + Y     +   G++ + D   D         ++ +I    + + +N   IL+  N
Sbjct: 69  RYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACN 128

Query: 129 KADMDESKREA 139
           K+++  ++  +
Sbjct: 129 KSELFTARPPS 139

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 48.9 bits (116), Expect = 1e-07
 Identities = 21/130 (16%), Positives = 49/130 (37%), Gaps = 12/130 (9%)

Query: 18  LLLIGDSGVGKSCLL-LRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           +LL+G    GKS +  + F +     +    +               I L + +  GQ  
Sbjct: 2   VLLMGVRRCGKSSICKVVFHNMQPLDTL--YLESTSNPSLEHFSTL-IDLAVMELPGQLN 58

Query: 77  FR---TITTAYYRGAMGILLVYDVTD--ESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           +      +   ++    ++ V D  D   ++  N+   I    +  + ++N  ++ +K D
Sbjct: 59  YFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKV-NPSINIEVLIHKVD 117

Query: 132 M--DESKREA 139
              ++ K +A
Sbjct: 118 GLSEDFKVDA 127

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A* Length = 262

 Score = 41.7 bits (98), Expect = 3e-05
 Identities = 27/135 (20%), Positives = 44/135 (32%), Gaps = 22/135 (16%)

Query: 16  IKLLLIGDSGVGKSCL---LLRFSDGS--FTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
           + +L++G  GVGKS     L+    G      S     G+   + +  + G  I   I D
Sbjct: 37  MTVLVLGKGGVGKSSTVNSLI----GEQVVRVSPFQAEGLRPVMVSRTMGGFTIN--IID 90

Query: 71  TAG--------QERFRTITTAYYRGAMGILLVYDVTDESSF-NNIRNWIRNIEQHASDNV 121
           T G         +    I        + +LL  D  D  +     +  +  I Q     +
Sbjct: 91  TPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEI 150

Query: 122 NK--ILVGNKADMDE 134
               +LV   A    
Sbjct: 151 WCKTLLVLTHAQFSP 165

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A* Length = 270

 Score = 40.7 bits (95), Expect = 8e-05
 Identities = 21/139 (15%), Positives = 41/139 (29%), Gaps = 22/139 (15%)

Query: 16  IKLLLIGDSGVGKSCL---LLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTA 72
           + +L++G  GVGKS     ++   +   + S   + G    + +    G    L I DT 
Sbjct: 40  LTILVMGKGGVGKSSTVNSIIG--ERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTP 95

Query: 73  G-----------QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNV 121
           G               ++      +    +L V  +      N  +   + I       +
Sbjct: 96  GLIEGGYINDMALNIIKSFLLD--KTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGI 153

Query: 122 NK--ILVGNKADMDESKRE 138
               I+    A        
Sbjct: 154 WNKAIVALTHAQFSPPDGL 172

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 39.1 bits (90), Expect = 3e-04
 Identities = 23/149 (15%), Positives = 38/149 (25%), Gaps = 46/149 (30%)

Query: 18  LLLIGDSGVGKSCLLLR-FSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           +L+ G  G GK+ + L                  DFKI              W       
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKM------DFKI-------------FWLNLKNCN 193

Query: 77  -----FRTITTAYYR--GAMGILLVYDVTDESSFNNIRNWIRNIEQHAS--------DNV 121
                   +    Y+          +    +   ++I+  +R + +            NV
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNV 253

Query: 122 NKILVGNKADMDESKREAPFCLHETILLT 150
                 N    +       F L   ILLT
Sbjct: 254 Q-----NAKAWN------AFNLSCKILLT 271

>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* Length = 413

 Score = 38.5 bits (89), Expect = 4e-04
 Identities = 20/131 (15%), Positives = 35/131 (26%), Gaps = 7/131 (5%)

Query: 13  DYLIKLLLIGDSGVGKSCLL--LRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
             ++ + + G++G GKS  +  LR        +  T +      R          +  WD
Sbjct: 67  SSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWD 126

Query: 71  TAG--QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGN 128
             G     F   T               ++      N  +  + I            V  
Sbjct: 127 LPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIAKAISMM---KKEFYFVRT 183

Query: 129 KADMDESKREA 139
           K D D +    
Sbjct: 184 KVDSDITNEAD 194

>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} Length = 427

 Score = 38.6 bits (89), Expect = 4e-04
 Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 4/60 (6%)

Query: 18  LLLIGDSGVGKSCLL--LRFSDGSFTTSFITTIGIDFKIRTIEL--DGKRIKLQIWDTAG 73
           +L +G++G+GKS L+  L  +      +  T  G+  +  T +L     R+KL I  T G
Sbjct: 45  ILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVG 104

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	160
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.98
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.98
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.98
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.97
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.97
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.97
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.97
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.97
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.97
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.97
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.97
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.97
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.97
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.97
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.97
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.97
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.97
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.97
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.97
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.97
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.97
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.97
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.97
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.97
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.97
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.97
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.97
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.97
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.97
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.97
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.97
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.97
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.97
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.97
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.97
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.97
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.97
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.97
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.97
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.97
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.97
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.97
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.97
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.97
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.97
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.97
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.97
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.96
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.96
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.96
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.96
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.96
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.96
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.96
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.96
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.96
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.96
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.96
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.96
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.96
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.96
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.96
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.96
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.96
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.96
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.96
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.96
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.96
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.96
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.96
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.95
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.95
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.95
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.95
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.95
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.95
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.95
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.95
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.95
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.95
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.95
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.94
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.94
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.94
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.94
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.94
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.94
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.94
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.93
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.93
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.93
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.93
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.93
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.93
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.93
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.88
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.93
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.92
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.91
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.91
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.91
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.91
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.91
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.9
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.9
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.9
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.89
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.89
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.89
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.89
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.87
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.87
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.87
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.87
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.87
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.86
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.86
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.86
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.86
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.84
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.84
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.84
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.84
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.84
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.83
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.83
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.82
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.81
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.81
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.8
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.8
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.8
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.8
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.8
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.79
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.79
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.79
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.79
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.79
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.79
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.78
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.78
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.78
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.78
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.78
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.78
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.78
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.77
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.77
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.77
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.76
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.76
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.76
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.76
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.76
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.76
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.76
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.75
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.75
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.75
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.73
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.72
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.72
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.72
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.71
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.71
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.71
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.7
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.7
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.7
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.7
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.69
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.69
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.68
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.68
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.68
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.68
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.66
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.65
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.64
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.63
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.63
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.63
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.6
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.6
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.58
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.58
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.57
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.55
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.54
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.52
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.52
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.49
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.48
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.48
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.42
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.39
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.25
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.23
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.21
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.17
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.17
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.07
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	99.02
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.0
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.99
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.89
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	98.88
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.88
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	98.84
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.82
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.79
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.61
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.58
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	98.53
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.47
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.27
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.18
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.06
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	98.02
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.02
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.98
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.92
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.83
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.7
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.68
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.68
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.67
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.56
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.54
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.51
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.45
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.44
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.43
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.43
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.43
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.39
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.39
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.37
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.36
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.36
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.33
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.32
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.31
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.31
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.31
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.28
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.26
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.25
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.25
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.24
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.24
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.24
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.23
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.23
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.2
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.2
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.19
1b0u_A	262	Histidine permease; ABC transporter, transport pro	97.19
1sgw_A	214	Putative ABC transporter; structural genomics, P p	97.19
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.19
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.19
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.18
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.18
1g6h_A	257	High-affinity branched-chain amino acid transport	97.18
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.17
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.17
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.17
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.16
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	97.15
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.14
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.14
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.14
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	97.14
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	97.13
1ji0_A	240	ABC transporter; ATP binding protein, structural g	97.13
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	97.13
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	97.12
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.12
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	97.12
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	97.11
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	97.1
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	97.1
3co5_A	143	Putative two-component system transcriptional RES	97.1
2ghi_A	260	Transport protein; multidrug resistance protein, M	97.1
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.09
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.09
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.09
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.09
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	97.07
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	97.07
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.06
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	97.06
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	97.06
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.06
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.06
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.06
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.05
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.04
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.04
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	97.04
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	97.04
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.03
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.03
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.03
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.03
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.03
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.02
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.02
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	97.01
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.01
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.0
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.0
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.0
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.99
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.98
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.97
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.97
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.97
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.96
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.96
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.96
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	96.96
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.93
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.93
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.92
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.91
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.91
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.91
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.91
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.9
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.9
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.89
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.89
1via_A	175	Shikimate kinase; structural genomics, transferase	96.88
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.88
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.88
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.87
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.87
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.87
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.86
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.86
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.86
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.85
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.84
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.83
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.83
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.83
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.83
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.82
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.82
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.82
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.82
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.81
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.81
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	96.81
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.81
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.81
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.8
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.8
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.79
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.79
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.78
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.78
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.78
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.76
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.76
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.75
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.74
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.74
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.73
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.73
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.73
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.72
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.71
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.71
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.7
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.7
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.69
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.68
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.68
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.67
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.67
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.66
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.66
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.65
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.65
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.64
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.62
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.61
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.61
2og2_A	359	Putative signal recognition particle receptor; nuc	96.61
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.6
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.59
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.58
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.57
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.57
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.57
3bos_A	242	Putative DNA replication factor; P-loop containing	96.57
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.56
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	96.55
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.52
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	96.51
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.51
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.49
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.49
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.47
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.45
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.45
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.43
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.42
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.42
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.41
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.41
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.4
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.39
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.37
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.36
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.34
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	96.33
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.32
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.32
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	96.29
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.29
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.28
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.27
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.27
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	96.27
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.26
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.26
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.24
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.23
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.23
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.22
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.19
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.17
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.17
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.16
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	96.13
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	96.13
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.11
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	96.11
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.1
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.09
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.07
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.07
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	96.06
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	96.06
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.06
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.05
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	96.04
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.03
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.02
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.99
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.99
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.99
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.99
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.97
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.96
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	95.96
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.95
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.94
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.92
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	95.91
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.9
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.9
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.87
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	95.85
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.84
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.83
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.82
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.81
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.79
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	95.79
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.77
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	95.77
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.77
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.76
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	95.74
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.72
2qgz_A	308	Helicase loader, putative primosome component; str	95.71
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.69
3uc9_A	233	Increased recombination centers protein 6; rossman	95.68
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.68
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.67
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	95.66
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	95.66
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	95.66
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.65
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.64
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.62
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	95.61
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	95.58
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.58
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	95.57
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.56
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	95.56

>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=100.00  E-value=1e-34  Score=202.59  Aligned_cols=144  Identities=36%  Similarity=0.656  Sum_probs=124.5

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      .+.+||+|+|+++||||||++++..+.|...+.+|.+.++....+..++..+.+.+|||+|++++..++..+++++++++
T Consensus        11 ~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~i   90 (216)
T 4dkx_A           11 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAV   90 (216)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEEE
T ss_pred             CCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEEE
Confidence            45699999999999999999999999999999999999998888999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|||++++++|+.+..|+..+......++|++|||||+|+. ..+.+..++++++++++++.|+.
T Consensus        91 lv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~-~~r~V~~~e~~~~a~~~~~~~~e  154 (216)
T 4dkx_A           91 VVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLA-DKRQVSIEEGERKAKELNVMFIE  154 (216)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             EEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchH-hcCcccHHHHhhHHHHhCCeeEE
Confidence            99999999999999999999988877789999999999997 66789999999999999987763

>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=100.00  E-value=1e-30  Score=178.51  Aligned_cols=152  Identities=48%  Similarity=0.831  Sum_probs=132.0

Q ss_pred             CCCCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhh
Q 031411            5 PARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY   84 (160)
Q Consensus         5 ~~~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~   84 (160)
                      +.......+..+||+++|++++|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+
T Consensus        12 ~~~~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   91 (189)
T 2gf9_A           12 SGLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAY   91 (189)
T ss_dssp             --CCCTTCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGG
T ss_pred             cCCCCcccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHh
Confidence            33445677788999999999999999999999988877777777777777788888888999999999999999999999


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           85 YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +..+|++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        92 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  163 (189)
T 2gf9_A           92 YRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLE-DERVVPAEDGRRLADDLGFEFFE  163 (189)
T ss_dssp             GTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             ccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccc-cccCCCHHHHHHHHHHcCCeEEE
Confidence            9999999999999999999999999999988776689999999999996 44566778899999988866553

>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=100.00  E-value=1e-30  Score=178.86  Aligned_cols=149  Identities=46%  Similarity=0.820  Sum_probs=128.2

Q ss_pred             CCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccC
Q 031411            8 ARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG   87 (160)
Q Consensus         8 ~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~   87 (160)
                      +....+..+||+|+|++++|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+..++..++.+
T Consensus        14 ~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   93 (191)
T 2a5j_A           14 LVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRG   93 (191)
T ss_dssp             CCCTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTT
T ss_pred             cccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhcc
Confidence            35667788999999999999999999999988877777777777777888889988999999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|++++|||++++.+++.+..|+..+......+.|+++++||+|+. ..+.+..+++++++.++++.++.
T Consensus        94 ~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  162 (191)
T 2a5j_A           94 AAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE-SRRDVKREEGEAFAREHGLIFME  162 (191)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccC-CccccCHHHHHHHHHHcCCEEEE
Confidence            9999999999999999999999999988776789999999999996 44567788899999888876543

>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=99.98  E-value=3.8e-31  Score=182.59  Aligned_cols=147  Identities=45%  Similarity=0.872  Sum_probs=121.5

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ....+..+||+|+|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++++..++..+++++
T Consensus        23 ~~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  102 (201)
T 2hup_A           23 DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSA  102 (201)
T ss_dssp             ---CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTC
T ss_pred             ccccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhC
Confidence            45667789999999999999999999999888777778877778778888898889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce-EEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV-HLV  156 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~-~~~  156 (160)
                      |++++|||++++.+++.+..|+..+......+.|+++++||+|+. ..+.+..+++++++..+++ .++
T Consensus       103 d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  170 (201)
T 2hup_A          103 NGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLS-ELREVSLAEAQSLAEHYDILCAI  170 (201)
T ss_dssp             SEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCSEEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccc-cccccCHHHHHHHHHHcCCCEEE
Confidence            999999999999999999999999988776689999999999997 4456778889999998887 544

>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=99.98  E-value=3.2e-31  Score=179.88  Aligned_cols=147  Identities=68%  Similarity=1.137  Sum_probs=105.3

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ...+..+||+++|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++++|
T Consensus         3 ~~~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   82 (183)
T 2fu5_C            3 KTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   82 (183)
T ss_dssp             CCCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCS
T ss_pred             cccCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCC
Confidence            34678899999999999999999999998887777888888888788888998899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++++|||++++.+++.+..|+..+......+.|+++++||+|+. ..+.+..+++++++..+++.++.
T Consensus        83 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  149 (183)
T 2fu5_C           83 GIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVN-DKRQVSKERGEKLALDYGIKFME  149 (183)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CC-SCCCSCHHHHHHHHHHHTCEEEE
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCC-ccCcCCHHHHHHHHHHcCCeEEE
Confidence            99999999999999999999999988766689999999999997 44567788899999988876553

>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=99.98  E-value=5.1e-31  Score=182.16  Aligned_cols=148  Identities=48%  Similarity=0.855  Sum_probs=130.4

Q ss_pred             CCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccC
Q 031411            8 ARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG   87 (160)
Q Consensus         8 ~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~   87 (160)
                      ....++..+||+++|++|+|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++++..++..++++
T Consensus        19 ~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~   98 (201)
T 2ew1_A           19 SMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRS   98 (201)
T ss_dssp             ---CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTT
T ss_pred             CccccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhc
Confidence            34567888999999999999999999999998887788888888888888899988999999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +|++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++...++.++
T Consensus        99 ~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  166 (201)
T 2ew1_A           99 ANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLA-ERREVSQQRAEEFSEAQDMYYL  166 (201)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCSSCHHHHHHHHHHHTCCEE
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-cccccCHHHHHHHHHHcCCEEE
Confidence            9999999999999999999999999988776789999999999996 4456778888999888776554

>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=99.97  E-value=1.4e-30  Score=177.02  Aligned_cols=150  Identities=44%  Similarity=0.803  Sum_probs=132.3

Q ss_pred             CCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhcc
Q 031411            7 RARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYR   86 (160)
Q Consensus         7 ~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~   86 (160)
                      ++....+..+||+++|++|+|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..++.
T Consensus         2 ~m~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   81 (186)
T 2bme_A            2 HMSETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYR   81 (186)
T ss_dssp             --CCCCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTST
T ss_pred             CcccccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHh
Confidence            45667788999999999999999999999999888777888887888888888988889999999999999999999999


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++|++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        82 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  151 (186)
T 2bme_A           82 GAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD-ADREVTFLEASRFAQENELMFLE  151 (186)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-cccccCHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999999999988776789999999999996 44567788899999988876653

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.97  E-value=3.9e-30  Score=176.16  Aligned_cols=148  Identities=62%  Similarity=1.081  Sum_probs=133.0

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ....+..+||+++|++++|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+
T Consensus        10 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   89 (196)
T 3tkl_A           10 NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGA   89 (196)
T ss_dssp             -CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTC
T ss_pred             CcccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhC
Confidence            44557789999999999999999999999998888888888888888889999889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        90 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  157 (196)
T 3tkl_A           90 HGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT-TKKVVDYTTAKEFADSLGIPFLE  157 (196)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT-TTCCSCHHHHHHHHHHTTCCEEE
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccc-cccccCHHHHHHHHHHcCCcEEE
Confidence            999999999999999999999999988877789999999999997 55667778899999988766554

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.97  E-value=3.5e-30  Score=174.04  Aligned_cols=148  Identities=53%  Similarity=0.907  Sum_probs=127.4

Q ss_pred             CCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccC
Q 031411            8 ARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG   87 (160)
Q Consensus         8 ~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~   87 (160)
                      +....+..+||+++|++|+|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..++..
T Consensus         2 m~~~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   81 (181)
T 3tw8_B            2 MARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRG   81 (181)
T ss_dssp             ----CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTT
T ss_pred             CccccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhcc
Confidence            34567788999999999999999999999998887888888888888888999988999999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|++++|||++++.+++.+..|+..+....+ +.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        82 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  149 (181)
T 3tw8_B           82 THGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKNDDP-ERKVVETEDAYKFAGQMGIQLFE  149 (181)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHHHCT-TSEEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCCEEE
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECCCCc-hhcccCHHHHHHHHHHcCCeEEE
Confidence            9999999999999999999999999987665 78999999999997 45567778899999888776553

>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=99.97  E-value=2.7e-30  Score=174.28  Aligned_cols=147  Identities=43%  Similarity=0.826  Sum_probs=130.3

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ...+..+||+++|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++++|
T Consensus        10 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   89 (179)
T 1z0f_A           10 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAA   89 (179)
T ss_dssp             -CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCS
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCC
Confidence            45678899999999999999999999998887777788777777788888888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++.++++.++.
T Consensus        90 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  156 (179)
T 1z0f_A           90 GALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE-AQRDVTYEEAKQFAEENGLLFLE  156 (179)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-cccccCHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999999988776689999999999996 44567788899999988876553

>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=99.97  E-value=6.2e-30  Score=176.78  Aligned_cols=145  Identities=58%  Similarity=1.044  Sum_probs=130.0

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      ..+..+||+|+|++|+|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..++.++|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (206)
T 2bcg_Y            4 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHG   83 (206)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCE
Confidence            46788999999999999999999999998887778888888888888889988999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +++|||++++.+++.+..|+..+......+.|+++++||+|+. ..+.+..+++++++..+++.++
T Consensus        84 vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  148 (206)
T 2bcg_Y           84 IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK-DKRVVEYDVAKEFADANKMPFL  148 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCT-TTCCSCHHHHHHHHHHTTCCEE
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-cccccCHHHHHHHHHHcCCeEE
Confidence            9999999999999999999999988776689999999999997 4456778889999988876554

>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=99.97  E-value=3.2e-30  Score=176.52  Aligned_cols=149  Identities=41%  Similarity=0.749  Sum_probs=130.2

Q ss_pred             CCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccC
Q 031411            8 ARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG   87 (160)
Q Consensus         8 ~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~   87 (160)
                      ....++..+||+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++++..++..++..
T Consensus        18 ~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   97 (193)
T 2oil_A           18 GSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRG   97 (193)
T ss_dssp             --CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTT
T ss_pred             cccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhcc
Confidence            35667788999999999999999999999988887777787777877888888888999999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        98 ~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  166 (193)
T 2oil_A           98 AVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLS-QAREVPTEEARMFAENNGLLFLE  166 (193)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcc-cccccCHHHHHHHHHHcCCEEEE
Confidence            9999999999999999999999999987766689999999999997 34566778899999888765543

>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=99.97  E-value=1.2e-29  Score=171.61  Aligned_cols=147  Identities=33%  Similarity=0.611  Sum_probs=128.5

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ......+||+++|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.+|
T Consensus         7 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   86 (181)
T 2efe_B            7 GNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAA   86 (181)
T ss_dssp             ---CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCS
T ss_pred             CCCccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCC
Confidence            34567799999999999999999999998888777777777777788888888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        87 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  153 (181)
T 2efe_B           87 AAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLL-DARKVTAEDAQTYAQENGLFFME  153 (181)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCT-TTCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCccc-ccccCCHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999999988776689999999999996 44567788899999888866543

>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=99.97  E-value=4.3e-30  Score=175.96  Aligned_cols=149  Identities=34%  Similarity=0.650  Sum_probs=128.9

Q ss_pred             CCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccC
Q 031411            8 ARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG   87 (160)
Q Consensus         8 ~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~   87 (160)
                      +...++..+||+++|++++|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..++..
T Consensus        16 ~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   95 (192)
T 2fg5_A           16 PRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRG   95 (192)
T ss_dssp             -----CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTT
T ss_pred             cccccCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhcc
Confidence            45667889999999999999999999999988877777888877777778888888899999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|++++|||++++.+++.+..|+..+......+.|+++++||+|+. ..+.+..+++++++.++++.++.
T Consensus        96 ~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  164 (192)
T 2fg5_A           96 SAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLS-DIREVPLKDAKEYAESIGAIVVE  164 (192)
T ss_dssp             CSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHTTTCEEEE
T ss_pred             CCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc-cccccCHHHHHHHHHHcCCEEEE
Confidence            9999999999999999999999999988776689999999999996 44567788899999988876553

>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=99.97  E-value=3.1e-30  Score=172.82  Aligned_cols=145  Identities=37%  Similarity=0.731  Sum_probs=121.3

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      .+..+||+++|++|+|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++++|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGA   82 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEE
Confidence            46789999999999999999999999888777778888777777888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  147 (170)
T 1z08_A           83 ILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE-KERHVSIQEAESYAESVGAKHYH  147 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccc-cccccCHHHHHHHHHHcCCeEEE
Confidence            999999999999999999999887665689999999999997 44567788899999988865543

>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=99.97  E-value=2e-31  Score=182.39  Aligned_cols=149  Identities=49%  Similarity=0.890  Sum_probs=132.7

Q ss_pred             CCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccC
Q 031411            8 ARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG   87 (160)
Q Consensus         8 ~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~   87 (160)
                      ....++..+||+|+|++++|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+..++..++++
T Consensus        16 ~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   95 (191)
T 3dz8_A           16 FQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRG   95 (191)
T ss_dssp             ETTEEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTT
T ss_pred             cccccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHcc
Confidence            45667788999999999999999999999988887777888777887888888777899999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        96 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  164 (191)
T 3dz8_A           96 AMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDME-EERVVPTEKGQLLAEQLGFDFFE  164 (191)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-cccccCHHHHHHHHHHcCCeEEE
Confidence            9999999999999999999999999988776789999999999996 55677888899999998876654

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.97  E-value=1.9e-30  Score=177.82  Aligned_cols=149  Identities=43%  Similarity=0.817  Sum_probs=122.0

Q ss_pred             CCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhcc
Q 031411            7 RARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYR   86 (160)
Q Consensus         7 ~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~   86 (160)
                      ...++.+..+||+++|++|+|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+..++..++.
T Consensus        18 ~~p~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~   97 (192)
T 2il1_A           18 GSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYR   97 (192)
T ss_dssp             ----CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHH
T ss_pred             CCCcccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhc
Confidence            34566788899999999999999999999998887777788887888888888998899999999999999999999999


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc-ceEEE
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTV-QVHLV  156 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~-~~~~~  156 (160)
                      ++|++++|||++++.+++.+..|+..+......+.|+++++||+|+. ..+++..+++++++... ++.++
T Consensus        98 ~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  167 (192)
T 2il1_A           98 SAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCE-TDREITRQQGEKFAQQITGMRFC  167 (192)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHTSTTCEEE
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-cccccCHHHHHHHHHhcCCCeEE
Confidence            99999999999999999999999999988777789999999999996 44567778888998874 55443

>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=99.97  E-value=4.6e-30  Score=175.24  Aligned_cols=147  Identities=42%  Similarity=0.807  Sum_probs=126.1

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccc-ccchhhccC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR-TITTAYYRG   87 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~-~~~~~~~~~   87 (160)
                      .......+||+++|++++|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++++. .++..++++
T Consensus        14 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   93 (189)
T 1z06_A           14 RGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRN   93 (189)
T ss_dssp             -----CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTT
T ss_pred             CCCCCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcC
Confidence            3455667999999999999999999999988887778888878888888889988999999999999887 788899999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +|++++|||++++.+++.+..|+..+.... ..+.|+++++||+|+. ..+++..+++++++..+++.++
T Consensus        94 ~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  162 (189)
T 1z06_A           94 VHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR-SAIQVPTDLAQKFADTHSMPLF  162 (189)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCCEE
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccceeCHHHHHHHHHHcCCEEE
Confidence            999999999999999999999999998775 4579999999999996 4456778889999988876544

>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=99.97  E-value=1.4e-29  Score=174.59  Aligned_cols=147  Identities=49%  Similarity=0.863  Sum_probs=130.1

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ...+..+||+|+|++++|||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+...+..++.++|
T Consensus         3 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   82 (203)
T 1zbd_A            3 HMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAM   82 (203)
T ss_dssp             CSCSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCS
T ss_pred             cccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCC
Confidence            34567899999999999999999999999887777788887787788888888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        83 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  149 (203)
T 1zbd_A           83 GFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDME-DERVVSSERGRQLADHLGFEFFE  149 (203)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCT-TSCCSCHHHHHHHHHHHTCEEEE
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccC-cccccCHHHHHHHHHHCCCeEEE
Confidence            99999999999999999999999988776689999999999997 44567788899999988776543

>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=99.97  E-value=4.2e-30  Score=177.18  Aligned_cols=148  Identities=43%  Similarity=0.778  Sum_probs=119.8

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ....+..+||+|+|++++|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++.+
T Consensus        19 ~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~   98 (200)
T 2o52_A           19 SIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGA   98 (200)
T ss_dssp             ---CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTC
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccC
Confidence            45567889999999999999999999999888777778888778778888898889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        99 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  166 (200)
T 2o52_A           99 AGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLD-PEREVTFLEASRFAQENELMFLE  166 (200)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcc-cccccCHHHHHHHHHHcCCEEEE
Confidence            999999999999999999999999988776789999999999996 44567778899999888866543

>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=99.97  E-value=2.1e-29  Score=168.59  Aligned_cols=145  Identities=35%  Similarity=0.648  Sum_probs=128.7

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      ....+||+++|++|+|||||++++.++.+...+.++.+.++....+..++....+.+||+||++.+...+..++.++|++
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~   82 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAA   82 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEE
Confidence            45679999999999999999999999988777788888777778888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++|||++++.+++.+..|+..+......+.|+++++||+|+. ...++..+++++++..+++.++.
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  147 (170)
T 1z0j_A           83 IIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLT-DVREVMERDAKDYADSIHAIFVE  147 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccc-cccccCHHHHHHHHHHcCCEEEE
Confidence            999999999999999999999988766789999999999997 44567778899999888876553

>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=99.97  E-value=1.1e-29  Score=169.88  Aligned_cols=144  Identities=40%  Similarity=0.697  Sum_probs=127.7

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..++.++|+++
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i   83 (170)
T 1r2q_A            4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAI   83 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEE
Confidence            46799999999999999999999998887777778777777778888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|||++++.+++.+..|+..+......++|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  147 (170)
T 1r2q_A           84 VVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLA-NKRAVDFQEAQSYADDNSLLFME  147 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCc-cccccCHHHHHHHHHHcCCeEEE
Confidence            99999999999999999999988766689999999999996 44567778899999888876653

>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=99.97  E-value=1.4e-29  Score=169.38  Aligned_cols=144  Identities=36%  Similarity=0.613  Sum_probs=127.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..+||+++|++|+|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++++|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEE
Confidence            35899999999999999999999988877777888877877888889888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc--cCCChhHHHHHhhhcceEEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK--REAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |||++++.+++.+..|+..+......+.|+++++||+|+.+..  ..+..+++++++..+++.++.
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~  147 (170)
T 1ek0_A           82 VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFE  147 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEE
T ss_pred             EEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEE
Confidence            9999999999999999999988776789999999999996432  567778889999888776543

>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=99.97  E-value=8e-30  Score=174.08  Aligned_cols=146  Identities=22%  Similarity=0.342  Sum_probs=118.9

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .......+||+++|++|+|||||++++.++.+...+.++.+..+ ......++..+.+.+||++|++.+..+ ..+++.+
T Consensus        15 ~~~~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~   92 (187)
T 3c5c_A           15 YFQGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWA   92 (187)
T ss_dssp             -----CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHHTTC
T ss_pred             HhCCCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhC
Confidence            34456679999999999999999999999888877777777554 455677888899999999999988775 6788999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhc---CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHA---SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~---~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |++++|||++++++++.+..|+..+....   ..+.|+++++||+|+. ..+.+..+++++++.++++.++.
T Consensus        93 ~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~e  163 (187)
T 3c5c_A           93 HAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMA-QYRQVTKAEGVALAGRFGCLFFE  163 (187)
T ss_dssp             SEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGG-GGCSSCHHHHHHHHHHHTCEEEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchh-hcCccCHHHHHHHHHHcCCcEEE
Confidence            99999999999999999999999997764   2488999999999996 45667888999999998876653

>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=99.97  E-value=7.1e-30  Score=176.85  Aligned_cols=148  Identities=21%  Similarity=0.508  Sum_probs=119.5

Q ss_pred             CCCCCCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccch
Q 031411            3 APPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITT   82 (160)
Q Consensus         3 ~~~~~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~   82 (160)
                      +++..|...++..+||+++|++|+|||||+++|.++.+...+.++.+..+ ...+..++..+.+.+||++|++.+..++.
T Consensus        16 ~~~~~m~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~   94 (205)
T 1gwn_A           16 PRGSHMDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRP   94 (205)
T ss_dssp             -----------CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGG
T ss_pred             CCCCCCCcccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHH
Confidence            34455666678889999999999999999999999988777777776554 45566777789999999999999999999


Q ss_pred             hhccCCcEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhh
Q 031411           83 AYYRGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLT  150 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~  150 (160)
                      .++.++|++++|||++++.+++.+ ..|+..+....+ +.|+++++||+|+.+.           .+.+..+++++++++
T Consensus        95 ~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~  173 (205)
T 1gwn_A           95 LSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQ  173 (205)
T ss_dssp             GGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHH
T ss_pred             hhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHH
Confidence            999999999999999999999998 789998877665 7899999999999642           356788889999988


Q ss_pred             cc
Q 031411          151 VQ  152 (160)
Q Consensus       151 ~~  152 (160)
                      ++
T Consensus       174 ~~  175 (205)
T 1gwn_A          174 IG  175 (205)
T ss_dssp             HT
T ss_pred             cC
Confidence            76

>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=99.97  E-value=7.1e-30  Score=177.88  Aligned_cols=149  Identities=19%  Similarity=0.439  Sum_probs=122.4

Q ss_pred             CCCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhc
Q 031411            6 ARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYY   85 (160)
Q Consensus         6 ~~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~   85 (160)
                      .+........+||+|+|++++|||||+++|.++.+...+.++.+..+ ...+..++..+.+.+||++|++++..++..++
T Consensus        18 ~~~~~~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~   96 (214)
T 3q3j_B           18 GRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCY   96 (214)
T ss_dssp             ---------CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGGC
T ss_pred             ccCCCCccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHHc
Confidence            34445666789999999999999999999999988887778877655 45566777788999999999999999999999


Q ss_pred             cCCcEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcce
Q 031411           86 RGAMGILLVYDVTDESSFNN-IRNWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQV  153 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~~  153 (160)
                      +++|++++|||++++.+++. +..|+..+....+ +.|+++++||+|+.+.           .+.+..+++++++.++++
T Consensus        97 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  175 (214)
T 3q3j_B           97 SDSDAVLLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGA  175 (214)
T ss_dssp             TTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCT-TSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTC
T ss_pred             CCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCC
Confidence            99999999999999999998 7899999988765 8999999999999743           367888999999999988


Q ss_pred             -EEE
Q 031411          154 -HLV  156 (160)
Q Consensus       154 -~~~  156 (160)
                       .++
T Consensus       176 ~~~~  179 (214)
T 3q3j_B          176 EIYL  179 (214)
T ss_dssp             SEEE
T ss_pred             CEEE
Confidence             554

>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=99.97  E-value=1.9e-29  Score=171.12  Aligned_cols=147  Identities=29%  Similarity=0.462  Sum_probs=127.2

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .......+||+++|++|+|||||++++.++.+...+.++.+..+ ......++..+.+.+||+||++.+..++..+++++
T Consensus        12 ~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~   90 (183)
T 3kkq_A           12 PSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTG   90 (183)
T ss_dssp             --CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHC
T ss_pred             CccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcC
Confidence            44566789999999999999999999999888877777777655 66778888888999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |++++|||++++.+++.+..|+..+... ...+.|+++++||+|+. ..+.+..+++++++..+++.++.
T Consensus        91 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  159 (183)
T 3kkq_A           91 DGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLM-HLRKVTRDQGKEMATKYNIPYIE  159 (183)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCS-TTCCSCHHHHHHHHHHHTCCEEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCch-hccCcCHHHHHHHHHHhCCeEEE
Confidence            9999999999999999999999998764 34688999999999997 56678888999999988876553

>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=99.97  E-value=1.1e-29  Score=170.04  Aligned_cols=141  Identities=59%  Similarity=1.050  Sum_probs=119.5

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..+||+++|++|+|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEE
Confidence            46899999999999999999999988877777888777777788888888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |||++++.+++.+..|+..+......+.|+++++||+|+.  ...+..+++++++.++++.++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~  142 (170)
T 1g16_A           82 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKELGIPFI  142 (170)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT--TCCSCHHHHHHHHHHHTCCEE
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCC--cCccCHHHHHHHHHHcCCeEE
Confidence            9999999999999999999988876689999999999993  345677888999988876554

>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=99.97  E-value=4.1e-29  Score=169.18  Aligned_cols=143  Identities=28%  Similarity=0.433  Sum_probs=125.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++|+|||||++++.++.+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..+++++|+++
T Consensus         4 ~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i   82 (181)
T 3t5g_A            4 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYI   82 (181)
T ss_dssp             EEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEE
Confidence            4679999999999999999999998888877778777665 667788898899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|||++++++++.+..|+..+..... .+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  147 (181)
T 3t5g_A           83 LVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLH-MERVISYEEGKALAESWNAAFLE  147 (181)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCT-TTCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccch-hcceecHHHHHHHHHHhCCcEEE
Confidence            99999999999999999999876543 578999999999996 56778889999999999887654

>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=99.97  E-value=1.5e-29  Score=170.60  Aligned_cols=145  Identities=36%  Similarity=0.644  Sum_probs=128.2

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      ....+||+++|++|+|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..++.++|++
T Consensus        11 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   90 (179)
T 2y8e_A           11 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVA   90 (179)
T ss_dssp             -CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEE
Confidence            34669999999999999999999999888877788888888888888899889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        91 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  155 (179)
T 2y8e_A           91 VVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLS-DKRQVSTEEGERKAKELNVMFIE  155 (179)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCccc-ccCcCCHHHHHHHHHHcCCeEEE
Confidence            999999999999999999999987766689999999999997 44567778888898888765543

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.97  E-value=1.3e-29  Score=177.41  Aligned_cols=146  Identities=50%  Similarity=0.853  Sum_probs=122.2

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ...+..+||+|+|++++|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++.+|
T Consensus         8 ~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   87 (223)
T 3cpj_B            8 YDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAV   87 (223)
T ss_dssp             --CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCC
T ss_pred             CCCCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCC
Confidence            34578899999999999999999999999888777788887888888888998899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ++++|||++++.+++.+..|+..+......+.|+++++||+|+. ..+.+..+++++++..+++.++
T Consensus        88 ~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  153 (223)
T 3cpj_B           88 GALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLA-HLRAVPTEESKTFAQENQLLFT  153 (223)
T ss_dssp             EEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGG-GGCCSCHHHHHHHHHHTTCEEE
T ss_pred             EEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccccCHHHHHHHHHHcCCEEE
Confidence            99999999999999999999999988766689999999999997 4456777889999988887664

>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=99.97  E-value=2.8e-29  Score=169.64  Aligned_cols=147  Identities=46%  Similarity=0.846  Sum_probs=120.5

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ...+..+||+++|++++|||||++++.++.+. ..+.++.+.++....+..++..+.+.+||+||++.+...+..++.++
T Consensus         5 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~   84 (180)
T 2g6b_A            5 DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDA   84 (180)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGC
T ss_pred             ccCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCC
Confidence            44577899999999999999999999988874 45667777777777778899889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        85 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  152 (180)
T 2g6b_A           85 HALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSA-HERVVKREDGEKLAKEYGLPFME  152 (180)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTT-SCCCSCHHHHHHHHHHHTCCEEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccC-cccccCHHHHHHHHHHcCCeEEE
Confidence            999999999999999999999999988776789999999999997 44567778889999887765543

>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=99.97  E-value=1.7e-29  Score=168.73  Aligned_cols=143  Identities=34%  Similarity=0.630  Sum_probs=126.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +..+||+++|++|+|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   82 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACV   82 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEE
Confidence            46799999999999999999999998888777888887888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|||++++.+++.+..|+..+.... .+.|+++++||+|+. ..+.+..+++++++.++++.++.
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  145 (168)
T 1z2a_A           83 LVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLL-DDSCIKNEEAEGLAKRLKLRFYR  145 (168)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGG-GGCSSCHHHHHHHHHHHTCEEEE
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccC-cccccCHHHHHHHHHHcCCeEEE
Confidence            9999999999999999999997766 478999999999997 44556778889999888876554

>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=99.97  E-value=4.2e-30  Score=176.91  Aligned_cols=149  Identities=42%  Similarity=0.730  Sum_probs=117.0

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ....+..+||+|+|++++|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.+
T Consensus        22 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  101 (199)
T 2p5s_A           22 SFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKA  101 (199)
T ss_dssp             ------CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHC
T ss_pred             CcCcCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhC
Confidence            34455679999999999999999999999888777777777777778888899889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-----CccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE-----SKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |++++|||++++.+++.+..|+..+......+.|+++++||+|+.+     ....+..+++++++..+++.++.
T Consensus       102 d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  175 (199)
T 2p5s_A          102 DGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCE  175 (199)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEE
T ss_pred             CEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEE
Confidence            9999999999999999999999999887666899999999999953     34567788899999988876653

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.97  E-value=1.7e-29  Score=173.69  Aligned_cols=148  Identities=24%  Similarity=0.323  Sum_probs=118.7

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc-cchhhccC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT-ITTAYYRG   87 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~-~~~~~~~~   87 (160)
                      ....+..+||+|+|++|||||||+++|.+........++.+.+.....+..++..+.+.+||++|+..+.. ++..++..
T Consensus        17 ~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~   96 (195)
T 3cbq_A           17 QGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQT   96 (195)
T ss_dssp             -----CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHH
T ss_pred             CCCCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhcc
Confidence            44556789999999999999999999975443333344555566667778899889999999999987664 67778899


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|++++|||++++.+|+.+..|+..+..... .+.|+++++||+|+. ..+.+..+++++++..+++.++.
T Consensus        97 ~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~a~~~~~~~~e  166 (195)
T 3cbq_A           97 GDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA-RSREVSLEEGRHLAGTLSCKHIE  166 (195)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCT-TTCCSCHHHHHHHHHHTTCEEEE
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhcc-ccCCcCHHHHHHHHHHhCCEEEE
Confidence            9999999999999999999999999877654 478999999999997 45567888899999888765543

>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=99.97  E-value=7.7e-30  Score=177.62  Aligned_cols=147  Identities=46%  Similarity=0.856  Sum_probs=125.2

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCE----------EEEEEEecCCCccccc
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGK----------RIKLQIWDTAGQERFR   78 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~D~~g~~~~~   78 (160)
                      ...+++.+||+|+|++++|||||+++|.++.+...+.++.+.++....+.+++.          .+.+.+||+||++.+.
T Consensus        19 ~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~   98 (217)
T 2f7s_A           19 SGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFR   98 (217)
T ss_dssp             --CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHH
T ss_pred             CCCcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHH
Confidence            456688899999999999999999999998888777788887777777777665          6899999999999999


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           79 TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        79 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ..+..++..+|++++|||++++.+++.+..|+..+..... .+.|+++++||+|+. ..+.+..+++++++..+++.++
T Consensus        99 ~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  176 (217)
T 2f7s_A           99 SLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLP-DQREVNERQARELADKYGIPYF  176 (217)
T ss_dssp             HHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCCEE
T ss_pred             hHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccc-cccccCHHHHHHHHHHCCCcEE
Confidence            9999999999999999999999999999999988866543 578999999999996 4456778889999988876544

>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=99.97  E-value=6e-29  Score=172.38  Aligned_cols=146  Identities=58%  Similarity=1.039  Sum_probs=125.1

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ....+..++|+|+|++++|||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+...+..++..+
T Consensus        14 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   93 (213)
T 3cph_A           14 GKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGA   93 (213)
T ss_dssp             ------CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTC
T ss_pred             CCCCCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccC
Confidence            34556679999999999999999999999888777788888788888888899889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |++++|||++++.+++.+..|+..+......+.|+++++||+|+.  ...+..+++++++..+++.++
T Consensus        94 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~  159 (213)
T 3cph_A           94 MGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKELGIPFI  159 (213)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCS--SCCSCHHHHHHHHHHHTCCEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc--ccccCHHHHHHHHHHcCCEEE
Confidence            999999999999999999999999988776689999999999993  445667888889888776544

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.97  E-value=6.6e-29  Score=169.21  Aligned_cols=141  Identities=19%  Similarity=0.283  Sum_probs=118.7

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .......+||+++|++|+|||||++++.++.+...+.++.+  .+...+.+++..+.+.+||++|++.+.     +++++
T Consensus        14 ~~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~   86 (184)
T 3ihw_A           14 LYFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEGG--RFKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWV   86 (184)
T ss_dssp             --CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTCE--EEEEEEEETTEEEEEEEEECSSSCCHH-----HHHHC
T ss_pred             CCCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCcc--eEEEEEEECCEEEEEEEEECCCChhhh-----eecCC
Confidence            45667789999999999999999999999988776666643  344778889989999999999998766     67889


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCC-CCccCCChhHHHHHhhhcc-eEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMD-ESKREAPFCLHETILLTVQ-VHLV  156 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~-~~~~~~~~~~~~~~~~~~~-~~~~  156 (160)
                      |++++|||++++.+|+.+..|+..+..... .+.|+++++||+|+. ...+.+..+++++++.+++ +.++
T Consensus        87 ~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~  157 (184)
T 3ihw_A           87 DAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYY  157 (184)
T ss_dssp             SEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEE
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEE
Confidence            999999999999999999999999987653 578999999999995 3456788899999999886 5544

>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=99.97  E-value=5.9e-29  Score=170.07  Aligned_cols=150  Identities=45%  Similarity=0.791  Sum_probs=129.0

Q ss_pred             CCCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhc
Q 031411            6 ARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYY   85 (160)
Q Consensus         6 ~~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~   85 (160)
                      +.+.......+||+|+|++++|||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++
T Consensus         6 ~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~   85 (195)
T 1x3s_A            6 SGMDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYY   85 (195)
T ss_dssp             ---CTTEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHH
T ss_pred             CCcccCCCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHh
Confidence            33455556789999999999999999999999988877788888888888888899889999999999999999999999


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           86 RGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +.+|++++|||++++.+++.+..|+..+..... .+.|+++++||+|+.  ...+..+++++++..+++.++.
T Consensus        86 ~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~~  156 (195)
T 1x3s_A           86 RGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE--NREVDRNEGLKFARKHSMLFIE  156 (195)
T ss_dssp             TTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS--SCCSCHHHHHHHHHHTTCEEEE
T ss_pred             ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCc--ccccCHHHHHHHHHHcCCEEEE
Confidence            999999999999999999999999999977542 578999999999994  3456778899999988876653

>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=99.97  E-value=9.7e-29  Score=166.59  Aligned_cols=143  Identities=36%  Similarity=0.660  Sum_probs=121.5

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      ..+..+||+++|++|+|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.+|+
T Consensus         3 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   82 (177)
T 1wms_A            3 GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDC   82 (177)
T ss_dssp             CCEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSE
T ss_pred             CccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCE
Confidence            45677999999999999999999999988887788888888878888889988999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCCCccCCChhHHHHHhh-hcceEE
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKILVGNKADMDESKREAPFCLHETILL-TVQVHL  155 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~----~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~-~~~~~~  155 (160)
                      +++|||++++.+++.+..|+..+.....    .+.|+++++||+|+.  ...+..+++++++. ..++.+
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~  150 (177)
T 1wms_A           83 CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS--ERQVSTEEAQAWCRDNGDYPY  150 (177)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS--SCSSCHHHHHHHHHHTTCCCE
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc--ccccCHHHHHHHHHhcCCceE
Confidence            9999999999999999999999977653    578999999999996  45667788888887 344433

>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=99.97  E-value=2.3e-29  Score=170.17  Aligned_cols=139  Identities=38%  Similarity=0.707  Sum_probs=108.4

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC-CEEEEEEEecCCCcccccccchhhccCCc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD-GKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ..+..+||+++|++|+|||||++++.++.+...+.++.+.++....+..+ +..+.+.+||+||++.+...+..+++.+|
T Consensus         4 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   83 (182)
T 1ky3_A            4 RKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGAD   83 (182)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCC
T ss_pred             ccCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCC
Confidence            34567999999999999999999999988887777887777777777776 55678999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCCCccCCChhHHHHHhh
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKILVGNKADMDESKREAPFCLHETILL  149 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~----~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~  149 (160)
                      ++++|||++++.+++.+..|+..+.....    .+.|+++++||+|+.+..+.+..+++++++.
T Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~  147 (182)
T 1ky3_A           84 CCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAK  147 (182)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHH
T ss_pred             EEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHH
Confidence            99999999999999999999999877653    5789999999999975666778888999887

>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=99.97  E-value=8.3e-29  Score=167.25  Aligned_cols=145  Identities=32%  Similarity=0.525  Sum_probs=124.2

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      +....+||+++|++|+|||||++++.++.+...+.++.+..+. ..+..++..+.+.+||+||++.+..++..++..+|+
T Consensus         5 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   83 (181)
T 2fn4_A            5 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHG   83 (181)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCE
Confidence            3456799999999999999999999998887777777765554 667788888899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +++|||++++.+++.+..|+..+... ...+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  150 (181)
T 2fn4_A           84 FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLE-SQRQVPRSEASAFGASHHVAYFE  150 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-cccccCHHHHHHHHHHcCCeEEE
Confidence            99999999999999999999998554 44688999999999996 44567788899999888776543

>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=99.97  E-value=8.5e-29  Score=169.59  Aligned_cols=144  Identities=27%  Similarity=0.540  Sum_probs=122.9

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .......+||+++|++|+|||||++++.++.+...+.++.+..+. ..+..++..+.+.+||+||++.+..++..+++++
T Consensus        17 ~~~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   95 (194)
T 3reg_A           17 IENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADS   95 (194)
T ss_dssp             ----CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTC
T ss_pred             ccccceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEECCCcHHHHHHhHhhccCC
Confidence            445667899999999999999999999999887777777775544 4677888889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCC-ccCCChhHHHHHhhhcceE
Q 031411           89 MGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDES-KREAPFCLHETILLTVQVH  154 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-~~~~~~~~~~~~~~~~~~~  154 (160)
                      |++++|||++++.+++.+ ..|+..+..... +.|+++++||+|+.+. ...+..+++++++..+++.
T Consensus        96 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  162 (194)
T 3reg_A           96 DVVLLCFAVNNRTSFDNISTKWEPEIKHYID-TAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCV  162 (194)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-TSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCS
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCC
Confidence            999999999999999997 678888876654 7999999999999743 4678889999999998865

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.97  E-value=2.7e-29  Score=169.48  Aligned_cols=144  Identities=32%  Similarity=0.535  Sum_probs=122.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECC-EEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG-KRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      ...+||+++|++++|||||++++.++.+...+.++.+.++....+..++ ..+.+.+||+||++.+...+..+++++|++
T Consensus         4 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   83 (178)
T 2hxs_A            4 MRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGV   83 (178)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEE
Confidence            4569999999999999999999999888777777877777778888876 678999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcC--CCCc-EEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHAS--DNVN-KILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~p-i~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++|||++++.+++.+..|+..+.....  .+.| +++++||+|+. ..+.+..+++++++..+++.++.
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  151 (178)
T 2hxs_A           84 LLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLE-HMRTIKPEKHLRFCQENGFSSHF  151 (178)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGG-GGCSSCHHHHHHHHHHHTCEEEE
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccc-cccccCHHHHHHHHHHcCCcEEE
Confidence            999999999999999999998876432  1344 89999999996 44567778899999888765543

>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=99.97  E-value=6.9e-29  Score=168.83  Aligned_cols=144  Identities=22%  Similarity=0.531  Sum_probs=120.6

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      ..+..+||+++|++++|||||++++.++.+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++.++|+
T Consensus         3 ~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   81 (184)
T 1m7b_A            3 NQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDA   81 (184)
T ss_dssp             ---CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSE
T ss_pred             CCceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcE
Confidence            345679999999999999999999999888777677776544 4556778888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcc-eEEE
Q 031411           91 ILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQ-VHLV  156 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~-~~~~  156 (160)
                      +++|||++++.+++.+ ..|+..+....+ +.|+++++||+|+.+.           .+.+..+++++++.+++ +.++
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  159 (184)
T 1m7b_A           82 VLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYI  159 (184)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCT-TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEE
Confidence            9999999999999998 689988877655 7899999999999743           25678889999998876 3443

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.97  E-value=5.5e-29  Score=171.57  Aligned_cols=146  Identities=25%  Similarity=0.427  Sum_probs=119.2

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      .+....+||+|+|.+|+|||||+++|.++.+...+.++.+..+ ......++..+.+.+||+||++.+..++..+++++|
T Consensus        19 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   97 (201)
T 3oes_A           19 MPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVH   97 (201)
T ss_dssp             ----CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCC
T ss_pred             CCCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCC
Confidence            3445689999999999999999999999988877777776555 555566666789999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++++|||++++.+++.+..|+..+.... ..++|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        98 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  165 (201)
T 3oes_A           98 GYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLS-PEREVQAVEGKKLAESWGATFME  165 (201)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             EEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCc-cccccCHHHHHHHHHHhCCeEEE
Confidence            9999999999999999999999997653 3478999999999997 55677888899999998886654

>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=99.97  E-value=9.9e-29  Score=168.60  Aligned_cols=146  Identities=47%  Similarity=0.855  Sum_probs=125.4

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEE-EEEEEECCE---------EEEEEEecCCCccccccc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFK-IRTIELDGK---------RIKLQIWDTAGQERFRTI   80 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~---------~~~~~~~D~~g~~~~~~~   80 (160)
                      ..+..+||+|+|++|+|||||+++|.++.+...+.++.+.++. ...+..++.         .+.+.+||+||++.+...
T Consensus         7 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   86 (195)
T 3bc1_A            7 DYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSL   86 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHH
T ss_pred             ccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHH
Confidence            4677899999999999999999999998887777777777766 556666655         689999999999999999


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           81 TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        81 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +..++.++|++++|||++++.+++.+..|+..+..... .+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        87 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  163 (195)
T 3bc1_A           87 TTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLE-DQRAVKEEEARELAEKYGIPYFE  163 (195)
T ss_dssp             HHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCCEEE
T ss_pred             HHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-cccccCHHHHHHHHHHcCCCEEE
Confidence            99999999999999999999999999999999987664 588999999999996 44567778899999887765543

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.97  E-value=8e-30  Score=176.01  Aligned_cols=145  Identities=21%  Similarity=0.452  Sum_probs=94.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC--CCCCccccceeeeEEEEEEEECCE--EEEEEEecCCCcccccccchhhccCC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG--SFTTSFITTIGIDFKIRTIELDGK--RIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ...++|+|+|++|+|||||+++|.++  .+...+.++.+.++....+..++.  .+.+.+||+||++.+..++..++.++
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   97 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGV   97 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhC
Confidence            56799999999999999999999988  777677777776777778888876  78999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHAS---DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~---~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |++++|||++++.+++.+..|+..+.....   .+.|+++++||+|+.+..+.+..+++++++.++++.++.
T Consensus        98 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~  169 (208)
T 2yc2_C           98 YYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFD  169 (208)
T ss_dssp             CEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEE
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEE
Confidence            999999999999999999999999988766   689999999999997425667788999999988876543

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.97  E-value=1.2e-28  Score=164.99  Aligned_cols=142  Identities=25%  Similarity=0.329  Sum_probs=110.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc-cchhhccCCcEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT-ITTAYYRGAMGILL   93 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~-~~~~~~~~~~~~i~   93 (160)
                      .+||+++|++|+|||||++++.+..+......+.+.+.....+..++..+.+.+||++|+..+.. ++..+++.+|++++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~   81 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLI   81 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEE
Confidence            58999999999999999999998776655555566677777888899899999999999988876 67777889999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |||++++++++.+..|+..+..... .+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  145 (169)
T 3q85_A           82 VFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA-RSREVSLEEGRHLAGTLSCKHIE  145 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchh-hcccCCHHHHHHHHHHcCCcEEE
Confidence            9999999999999999999987654 478999999999997 55678889999999999886654

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.97  E-value=1.3e-30  Score=179.40  Aligned_cols=146  Identities=63%  Similarity=1.097  Sum_probs=122.5

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ....+..+||+|+|++++|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++++
T Consensus        27 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~  106 (199)
T 3l0i_B           27 NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGA  106 (199)
T ss_dssp             -CCCSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCC
T ss_pred             CcccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcC
Confidence            44567789999999999999999999999988888888888888888888999889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHL  155 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~  155 (160)
                      |++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++..+++.+
T Consensus       107 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~  172 (199)
T 3l0i_B          107 HGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT-TKKVVDYTTAKEFADSLGIPF  172 (199)
T ss_dssp             SEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC---CCCCSCC-CHHHHTTTCCB
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCC-ccccCCHHHHHHHHHHcCCeE
Confidence            999999999999999999999999987776789999999999996 445566677788888777544

>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=99.96  E-value=1.5e-28  Score=168.22  Aligned_cols=141  Identities=23%  Similarity=0.524  Sum_probs=121.2

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      +.+..+||+++|++++|||||++++.++.+...+.++.+..+ ...+..++..+.+.+||+||++++..++..++.++|+
T Consensus        14 ~~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   92 (194)
T 2atx_A           14 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDV   92 (194)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCE
Confidence            445789999999999999999999999888777677765443 4566777878899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCc-----------cCCChhHHHHHhhhcce
Q 031411           91 ILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESK-----------REAPFCLHETILLTVQV  153 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-----------~~~~~~~~~~~~~~~~~  153 (160)
                      +++|||++++.+++.+. .|+..+....+ +.|+++++||+|+.+..           +.+..+++++++..+++
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  166 (194)
T 2atx_A           93 FLICFSVVNPASFQNVKEEWVPELKEYAP-NVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGA  166 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTC
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCC
Confidence            99999999999999997 79999887765 78999999999997532           46778889999988775

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.96  E-value=2.9e-28  Score=168.01  Aligned_cols=146  Identities=29%  Similarity=0.553  Sum_probs=120.9

Q ss_pred             CCCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhc
Q 031411            6 ARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYY   85 (160)
Q Consensus         6 ~~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~   85 (160)
                      ++........+||+++|.+++|||||++++.++.+...+.++.+..+. ..+..++..+.+.+||+||++.+..++..++
T Consensus        16 ~~~~~m~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~   94 (201)
T 2gco_A           16 PRGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLSY   94 (201)
T ss_dssp             C-----CCEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGGGGC
T ss_pred             cCCCCCcccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHHHhc
Confidence            334555678899999999999999999999998887777777765554 4467788888999999999999999999999


Q ss_pred             cCCcEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCCc-----------cCCChhHHHHHhhhcce
Q 031411           86 RGAMGILLVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDESK-----------REAPFCLHETILLTVQV  153 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-----------~~~~~~~~~~~~~~~~~  153 (160)
                      +++|++++|||++++.+++.+ ..|+..+....+ +.|+++++||+|+.+..           +.+..+++++++..+++
T Consensus        95 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  173 (201)
T 2gco_A           95 PDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISA  173 (201)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTC
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCC
Confidence            999999999999999999999 678888877654 78999999999997432           45777888999988776

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.96  E-value=2.1e-28  Score=168.46  Aligned_cols=146  Identities=27%  Similarity=0.499  Sum_probs=114.6

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .......+||+++|++|+|||||++++.++.+...+.++.+.. ....+..++..+.+.+||+||++++..++..++.++
T Consensus        14 ~~~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   92 (201)
T 2q3h_A           14 GGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDN-FSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNT   92 (201)
T ss_dssp             ------CEEEEEECSTTSSHHHHHHHHHC--------CCSSEE-EEEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTC
T ss_pred             CCCCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccce-eEEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCC
Confidence            4456778999999999999999999999988776666766543 345677788888999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcce-EE
Q 031411           89 MGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQV-HL  155 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~~-~~  155 (160)
                      |++++|||++++.+++.+. .|+..+....+ +.|+++++||+|+.+.           ...+..+++++++..+++ .+
T Consensus        93 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  171 (201)
T 2q3h_A           93 DIFLLCFSVVSPSSFQNVSEKWVPEIRCHCP-KAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASY  171 (201)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHCS-SSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEE
Confidence            9999999999999999997 79999887765 8999999999999743           356778889999988776 44


Q ss_pred             E
Q 031411          156 V  156 (160)
Q Consensus       156 ~  156 (160)
                      +
T Consensus       172 ~  172 (201)
T 2q3h_A          172 I  172 (201)
T ss_dssp             E
T ss_pred             E
Confidence            3

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.96  E-value=3e-28  Score=167.96  Aligned_cols=147  Identities=31%  Similarity=0.503  Sum_probs=123.7

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .......++|+|+|++|+|||||++++.++.+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++..+
T Consensus         8 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   86 (206)
T 2bov_A            8 GQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSG   86 (206)
T ss_dssp             ---CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHC
T ss_pred             CCCCCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhC
Confidence            34455679999999999999999999999887776666666443 45677788888999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |++++|||++++.+++.+..|+..+..... .+.|+++++||+|+. ...++..+++++++..+++.++.
T Consensus        87 ~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  155 (206)
T 2bov_A           87 EGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-DKRQVSVEEAKNRAEQWNVNYVE  155 (206)
T ss_dssp             SEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCcc-ccccccHHHHHHHHHHhCCeEEE
Confidence            999999999999999999999999987653 578999999999997 44567788899999888765543

>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=99.96  E-value=2e-28  Score=169.05  Aligned_cols=143  Identities=34%  Similarity=0.654  Sum_probs=121.9

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      ..+..+||+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++.++|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (207)
T 1vg8_A            4 RKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADC   83 (207)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSE
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcE
Confidence            34567999999999999999999999998887788888888888888888888899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCCCccCCChhHHHHHhh-hcceEE
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKILVGNKADMDESKREAPFCLHETILL-TVQVHL  155 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~----~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~-~~~~~~  155 (160)
                      +++|||++++.+++.+..|+..+.....    .+.|+++++||+|+.  ...+..+++++++. ..++.+
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~  151 (207)
T 1vg8_A           84 CVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE--NRQVATKRAQAWCYSKNNIPY  151 (207)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS--CCCSCHHHHHHHHHHTTSCCE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc--ccccCHHHHHHHHHhcCCceE
Confidence            9999999999999999999999876543    478999999999996  34566778888887 444443

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.96  E-value=5.9e-28  Score=164.73  Aligned_cols=149  Identities=27%  Similarity=0.425  Sum_probs=110.6

Q ss_pred             CCCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhc
Q 031411            6 ARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYY   85 (160)
Q Consensus         6 ~~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~   85 (160)
                      +.........+||+++|.+|+|||||+++|.++.+...+.++.+.. ....+..++..+.+.+||+||++.+...+..++
T Consensus        12 ~~~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   90 (190)
T 3con_A           12 ENLYFQGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDS-YRKQVVIDGETCLLDILDTAGQEEYSAMRDQYM   90 (190)
T ss_dssp             -------CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCC-----------C
T ss_pred             ccccccccceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceE-EEEEEEECCEEEEEEEEECCChHHHHHHHHHhh
Confidence            3334455567999999999999999999999888776666665533 345677788888999999999999999999999


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           86 RGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ..+|++++|||++++.+++.+..|+..+..... .+.|+++++||+|+.+  ..+..+++++++.++++.++.
T Consensus        91 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~  161 (190)
T 3con_A           91 RTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT--RTVDTKQAHELAKSYGIPFIE  161 (190)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC--CCSCHHHHHHHHHHHTCCEEE
T ss_pred             CcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc--ccCCHHHHHHHHHHcCCeEEE
Confidence            999999999999999999999999999877653 5789999999999964  556778899999888765543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.96  E-value=6.2e-28  Score=165.75  Aligned_cols=141  Identities=31%  Similarity=0.566  Sum_probs=121.5

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEE----------------------------
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKR----------------------------   63 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------   63 (160)
                      .+..+||+|+|++++|||||+++|.+..+...+.++.+.++....+..++..                            
T Consensus         4 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (208)
T 3clv_A            4 KKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQH   83 (208)
T ss_dssp             CCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC------------------------------
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCcccccccccccccccccccccccccccccc
Confidence            3457999999999999999999999998887778888777777777776655                            


Q ss_pred             ---------EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           64 ---------IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        64 ---------~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                               ..+.+||+||++.+...+..++..+|++++|||++++.+++.+..|+..+.....  .|+++++||+|+  
T Consensus        84 ~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~--~piilv~NK~D~--  159 (208)
T 3clv_A           84 NNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN--YIIILVANKIDK--  159 (208)
T ss_dssp             -CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--CEEEEEEECTTC--
T ss_pred             ccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC--CcEEEEEECCCc--
Confidence                     7899999999999999999999999999999999999999999999999977644  899999999993  


Q ss_pred             CccCCChhHHHHHhhhcceEEE
Q 031411          135 SKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ....+..+++++++.++++.++
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~  181 (208)
T 3clv_A          160 NKFQVDILEVQKYAQDNNLLFI  181 (208)
T ss_dssp             C-CCSCHHHHHHHHHHTTCEEE
T ss_pred             ccccCCHHHHHHHHHHcCCcEE
Confidence            5567788999999998887655

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.96  E-value=3.8e-28  Score=164.81  Aligned_cols=145  Identities=31%  Similarity=0.512  Sum_probs=122.3

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      .....+||+++|++++|||||+++|.+..+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++..+|+
T Consensus        14 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   92 (187)
T 2a9k_A           14 NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEG   92 (187)
T ss_dssp             ---CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCE
Confidence            344579999999999999999999999887766666665443 4556778888899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +++|||++++.+++.+..|+..+..... .+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  159 (187)
T 2a9k_A           93 FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-DKRQVSVEEAKNRAEQWNVNYVE  159 (187)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccCccCHHHHHHHHHHcCCeEEE
Confidence            9999999999999999999999977654 578999999999996 44567788899999988876553

>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=99.96  E-value=4.6e-28  Score=161.65  Aligned_cols=140  Identities=31%  Similarity=0.536  Sum_probs=119.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|+|||||++++.++.+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++.++|++++|
T Consensus         3 ~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v   81 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALV   81 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceE-EEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEE
Confidence            58999999999999999999999888777777766443 35566777788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc-ceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTV-QVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~-~~~~~  156 (160)
                      ||++++.+++.+..|+..+.... ..+.|+++++||+|+. ..+.+..+++++++..+ ++.++
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  144 (167)
T 1c1y_A           82 YSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE-DERVVGKEQGQNLARQWCNCAFL  144 (167)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHHTTSCEEE
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECcccc-ccccCCHHHHHHHHHHccCCcEE
Confidence            99999999999999999987753 3588999999999997 44567788889998876 55444

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.96  E-value=8.6e-28  Score=161.55  Aligned_cols=142  Identities=27%  Similarity=0.395  Sum_probs=108.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc--ccccchhhccCCcEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER--FRTITTAYYRGAMGI   91 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~--~~~~~~~~~~~~~~~   91 (160)
                      ..+||+++|++|+|||||+++|.+..+...+ ++.+.+.....+..++..+.+.+||+||+..  +..+...++..+|++
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~   81 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAY   81 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-----C-CCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEE
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCcccc-CccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEE
Confidence            4689999999999999999999988765443 3344556667778888888999999999887  556667788999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++|||++++.+++.+..|+..+.... ..+.|+++++||+|+. ..+.+..+++++++..+++.++.
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  147 (175)
T 2nzj_A           82 VIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLA-RCREVSVEEGRACAVVFDCKFIE  147 (175)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCT-TTCCSCHHHHHHHHHHHTSEEEE
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhc-cccccCHHHHHHHHHHcCCeEEE
Confidence            99999999999999999999887653 3478999999999997 44567778888898888765543

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.96  E-value=7e-28  Score=160.52  Aligned_cols=140  Identities=32%  Similarity=0.531  Sum_probs=119.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|+|||||++++.++.+...+.++.+. .....+..++..+.+.+||+||++.+..++..++..+|++++|
T Consensus         3 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (167)
T 1kao_A            3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILV   81 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCE-EEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcce-eEEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEE
Confidence            589999999999999999999998877666666653 3456677888888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ||++++.+++.+..|+..+..... .+.|+++++||+|+. ...++..+++++++.++++.++
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  143 (167)
T 1kao_A           82 YSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLE-SEREVSSSEGRALAEEWGCPFM  143 (167)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGG-GGCCSCHHHHHHHHHHHTSCEE
T ss_pred             EeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCccc-ccccCCHHHHHHHHHHhCCCEE
Confidence            999999999999999999877543 578999999999996 4456777888899988775544

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.96  E-value=7.3e-28  Score=160.55  Aligned_cols=141  Identities=32%  Similarity=0.538  Sum_probs=118.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|+|||||++++.++.+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++..+|++++|
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v   82 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCV   82 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEE
Confidence            58999999999999999999999887766666665443 45567788888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||++++.+++.+..|+..+..... .+.|+++++||+|+. ...++..+++++++..+++.++.
T Consensus        83 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  145 (168)
T 1u8z_A           83 FSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-DKRQVSVEEAKNRADQWNVNYVE  145 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECcccc-ccCccCHHHHHHHHHHcCCeEEE
Confidence            999999999999999999977654 578999999999997 44557788899999888775543

>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=99.96  E-value=1.7e-27  Score=160.80  Aligned_cols=137  Identities=20%  Similarity=0.297  Sum_probs=111.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++++|||||++++.++.+.. +.++.+. .+...+..++..+.+.+||++|+++     ..+++++|+++
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~i   77 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESE-QYKKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVI   77 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSS-EEEEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcce-eEEEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEE
Confidence            456999999999999999999999988775 5566553 3456777888889999999999876     45778899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh---cCCCCcEEEEEeCCCCCC-CccCCChhHHHHHhhhc-ceEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQH---ASDNVNKILVGNKADMDE-SKREAPFCLHETILLTV-QVHLV  156 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~---~~~~~pi~vv~~K~Dl~~-~~~~~~~~~~~~~~~~~-~~~~~  156 (160)
                      +|||++++++++.+..|+..+...   ...+.|+++++||+|+.+ ..+.+..+++++++..+ ++.++
T Consensus        78 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~  146 (178)
T 2iwr_A           78 FVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYY  146 (178)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEE
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEE
Confidence            999999999999999987666543   235789999999999952 45677888999998876 45444

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.96  E-value=6.7e-28  Score=167.78  Aligned_cols=142  Identities=32%  Similarity=0.602  Sum_probs=101.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++|+|||||+++|.++.+...+.++... .....+..++..+.+.+||+||++.+..++..++.++|+++
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i  110 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFE-RYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLL  110 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCE-EEEEEEEETTEEEEEEEEEC---------------CEEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccce-eEEEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEE
Confidence            45799999999999999999999998877666666643 33456778888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCc-----------cCCChhHHHHHhhhcce-EEE
Q 031411           93 LVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESK-----------REAPFCLHETILLTVQV-HLV  156 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-----------~~~~~~~~~~~~~~~~~-~~~  156 (160)
                      +|||++++.+++.+. .|+..+..... +.|+++++||+|+.+..           +.+..+++++++..+++ .++
T Consensus       111 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  186 (214)
T 2j1l_A          111 LCFDVTSPNSFDNIFNRWYPEVNHFCK-KVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYL  186 (214)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCS-SCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEE
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEE
Confidence            999999999999997 69988877664 78999999999997442           36777889999988876 443

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=6.8e-28  Score=166.84  Aligned_cols=139  Identities=31%  Similarity=0.583  Sum_probs=113.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++|+|||||++++.++.+...+.++.+..+. ..+..++..+.+.+||+||++.+..++..++.++|+++
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEE
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEE
Confidence            56789999999999999999999998887766666665443 44677888889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCCc-----------cCCChhHHHHHhhhcce
Q 031411           93 LVYDVTDESSFNNI-RNWIRNIEQHASDNVNKILVGNKADMDESK-----------REAPFCLHETILLTVQV  153 (160)
Q Consensus        93 ~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-----------~~~~~~~~~~~~~~~~~  153 (160)
                      +|||++++.+++.+ ..|+..+....+ +.|+++++||+|+.+..           +.+..+++++++...++
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  173 (207)
T 2fv8_A          102 MCFSVDSPDSLENIPEKWVPEVKHFCP-NVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQA  173 (207)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCC
Confidence            99999999999998 678888877654 78999999999996432           45677888899988776

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.96  E-value=1.8e-27  Score=161.47  Aligned_cols=139  Identities=28%  Similarity=0.553  Sum_probs=119.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++|+|||||++++.++.+...+.++.+.. ....+..++..+.+.+||+||++.+..++..++.++|+++
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   81 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDN-YSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCE-EEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCcccce-eEEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEE
Confidence            357999999999999999999999888776666666533 3456677888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcce
Q 031411           93 LVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQV  153 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~~  153 (160)
                      +|||++++.+++.+. .|+..+....+ +.|+++++||+|+.+.           .+.+..+++++++..+++
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  153 (186)
T 1mh1_A           82 ICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGA  153 (186)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHST-TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTC
T ss_pred             EEEECCChhhHHHHHHHHHHHHHHhCC-CCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCC
Confidence            999999999999997 69988887766 8899999999999643           256778889999988875

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.96  E-value=1.9e-27  Score=158.70  Aligned_cols=140  Identities=27%  Similarity=0.360  Sum_probs=98.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|+|||||++++.+...... .++.+.. ....+..++..+.+.+||++|++.+..++..++..+|++++|
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPE-AEAAGHT-YDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   79 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CE-EEEEEEETTEEEEEEEEECC---------------CCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCC-CCccccc-eEEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEE
Confidence            47999999999999999999987665422 2333322 245667888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||++++.+++.+..|+..+.... ..+.|+++++||+|+. ....+..+++++++..+++.++.
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  142 (166)
T 3q72_A           80 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV-RSREVSVDEGRACAVVFDCKFIE  142 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCC-SSCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccc-cccccCHHHHHHHHHHhCCcEEE
Confidence            99999999999999999987653 3578999999999997 45678888899999988876553

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.96  E-value=3.8e-27  Score=160.22  Aligned_cols=142  Identities=29%  Similarity=0.501  Sum_probs=118.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +..+||+++|++|+|||||+++|.++.+...+.++.. +.....+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i   80 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   80 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCC-EEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCch-heEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEE
Confidence            3579999999999999999999999887766666664 445566778888889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|||++++.+++.+..|+..+.... ..+.|+++++||+|+.  ...+..+++++++..+++.++.
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~~  144 (189)
T 4dsu_A           81 CVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP--SRTVDTKQAQDLARSYGIPFIE  144 (189)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSS--SCSSCHHHHHHHHHHHTCCEEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCc--ccccCHHHHHHHHHHcCCeEEE
Confidence            9999999999999999999997754 3578999999999996  3456778889999888766543

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.96  E-value=3.6e-28  Score=169.71  Aligned_cols=145  Identities=28%  Similarity=0.551  Sum_probs=122.8

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .......+||+++|.+|+|||||+++++.+.+...+.++.+.+........++..+.+.+||+||++.+..++..++.++
T Consensus         9 ~~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   88 (221)
T 3gj0_A            9 QGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQA   88 (221)
T ss_dssp             TTCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTC
T ss_pred             CCCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcC
Confidence            44566779999999999999999999887776667777777778878888888889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |++++|||++++.+++.+..|+..+..... +.|+++++||+|+.+...   .++..+++..+++.++.
T Consensus        89 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~---~~~~~~~~~~~~~~~~~  153 (221)
T 3gj0_A           89 QCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRKV---KAKSIVFHRKKNLQYYD  153 (221)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHHHST-TCCEEEEEECTTSSSCSS---CGGGCCHHHHHTCEEEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECCccccccc---cHHHHHHHHHcCCEEEE
Confidence            999999999999999999999999988765 889999999999964322   23556666676665543

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.96  E-value=6.8e-28  Score=167.86  Aligned_cols=146  Identities=29%  Similarity=0.513  Sum_probs=120.6

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEEC-CEEEEEEEecCCCcccccccchhhccCCc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD-GKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      .....+||+++|.+|+|||||+++|.++.+...+.++.+........... +..+.+.+||+||++.+..++..++.++|
T Consensus         7 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (218)
T 4djt_A            7 RRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGAS   86 (218)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCS
T ss_pred             cccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCC
Confidence            34567999999999999999999999888877777777766555555444 44488999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++++|||++++.+++.+..|+..+......+.|+++++||+|+. ....+..+++++++...++.++.
T Consensus        87 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  153 (218)
T 4djt_A           87 GAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIK-NRQKISKKLVMEVLKGKNYEYFE  153 (218)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC-----CCHHHHHHHTTTCCCEEEE
T ss_pred             EEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-cccccCHHHHHHHHHHcCCcEEE
Confidence            99999999999999999999999988877779999999999997 45567778888999888765543

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=2.3e-27  Score=164.94  Aligned_cols=145  Identities=23%  Similarity=0.350  Sum_probs=113.7

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCC--CCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc-ccccchhhcc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGS--FTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER-FRTITTAYYR   86 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~-~~~~~~~~~~   86 (160)
                      ......+||+|+|++|+|||||++++.+..  +... .++.+.++....+.+++..+.+.+||++|+.. +..+...+++
T Consensus        32 ~~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~-~~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~  110 (211)
T 2g3y_A           32 ESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSD-CEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQ  110 (211)
T ss_dssp             ---CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCC
T ss_pred             ccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCc-CCccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHh
Confidence            345667999999999999999999999643  2333 23355566667778899889999999999876 4455667788


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      .++++++|||++++.+|+.+..|+..+... ...++|+++|+||+|+. ..+.+..++++.++..+++.++
T Consensus       111 ~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~-~~r~v~~~e~~~~a~~~~~~~~  180 (211)
T 2g3y_A          111 VGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLV-RCREVSVSEGRACAVVFDCKFI  180 (211)
T ss_dssp             CCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEE
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHh-cCceEeHHHHHHHHHHcCCEEE
Confidence            999999999999999999999999888654 23478999999999997 4456777888888888887655

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=1.6e-27  Score=163.61  Aligned_cols=142  Identities=31%  Similarity=0.459  Sum_probs=120.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++++|||||++++.++.+...+.++.+..+ ...+..++..+.+.+||+||++. ...+..++..+|+++
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~ii  103 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGFV  103 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEEE
Confidence            4569999999999999999999999888777777776444 45567788889999999999987 667888899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|||++++++++.+..|+..+.... ..+.|+++++||+|+. ..+.+..+++++++.++++.++.
T Consensus       104 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~  168 (196)
T 2atv_A          104 LVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLD-HSRQVSTEEGEKLATELACAFYE  168 (196)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGG-GGCCSCHHHHHHHHHHHTSEEEE
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccc-cccccCHHHHHHHHHHhCCeEEE
Confidence            9999999999999999999987754 3588999999999997 44667788899999888866543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.96  E-value=1.5e-27  Score=165.47  Aligned_cols=142  Identities=30%  Similarity=0.597  Sum_probs=118.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++++|||||++++.++.+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++.++|+++
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   85 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFV   85 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEE
Confidence            4679999999999999999999999888777777766443 455677888889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCcc-------CCChhHHHHHhhhcce-EEE
Q 031411           93 LVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESKR-------EAPFCLHETILLTVQV-HLV  156 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~-------~~~~~~~~~~~~~~~~-~~~  156 (160)
                      +|||++++.+++.+. .|+..+....+ +.|+++++||+|+.+...       .+..+++++++..+++ .++
T Consensus        86 lv~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  157 (212)
T 2j0v_A           86 LAFSLISKASYENVLKKWMPELRRFAP-NVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYI  157 (212)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCT-TCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEE
Confidence            999999999999997 79999987765 899999999999863322       3477888999988875 443

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=2.9e-27  Score=158.30  Aligned_cols=141  Identities=28%  Similarity=0.447  Sum_probs=117.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..+||+++|++|+|||||++++.++.+...+.++.+..+ ......++..+.+.+||+||+..+..++..++..+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   80 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEE
Confidence            358999999999999999999999887766666665433 3455667878899999999999999989999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHAS--DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |||++++.+++.+..|+..+.....  .+.|+++++||+|+. ...++..+++++++...++.++
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  144 (172)
T 2erx_A           81 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES-PSREVQSSEAEALARTWKCAFM  144 (172)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGG-GGCCSCHHHHHHHHHHHTCEEE
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccc-cccccCHHHHHHHHHHhCCeEE
Confidence            9999999999999999988876542  478999999999996 4455677788888888876554

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.95  E-value=9.2e-27  Score=154.79  Aligned_cols=140  Identities=29%  Similarity=0.474  Sum_probs=118.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|+|||||++++.++.+...+.++.+. .....+..++..+.+.+||+||+..+...+..++..+|++++|
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIED-SYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCE-EEEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccce-EEEEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEE
Confidence            479999999999999999999988877666666553 3345667788888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||++++.+++.+..|+..+..... .+.|+++++||+|+.+  .....+++++++.++++.++.
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~  143 (166)
T 2ce2_X           82 FAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA--RTVESRQAQDLARSYGIPYIE  143 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC--CCSCHHHHHHHHHHHTCCEEE
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh--cccCHHHHHHHHHHcCCeEEE
Confidence            999999999999999999877654 4789999999999974  456778889999888765543

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.95  E-value=3.8e-27  Score=160.87  Aligned_cols=133  Identities=19%  Similarity=0.390  Sum_probs=105.4

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCC-CCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGS-FTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG   87 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~   87 (160)
                      .......+||+++|++|+|||||+++|.+.. +...+.++.+  .....+..++  ..+.+||+||++.+...+..++.+
T Consensus        15 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~   90 (190)
T 2h57_A           15 VPRGSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYKE   90 (190)
T ss_dssp             ------CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSS--CEEEEEEECCSTTTGGGGGGGGGG
T ss_pred             ccCCCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECC--EEEEEEECCCCHHHHHHHHHHHhc
Confidence            4455567999999999999999999999877 4555566655  4455566665  689999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCCCccCCChhHHHHHh
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHAS---DNVNKILVGNKADMDESKREAPFCLHETIL  148 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~---~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~  148 (160)
                      +|++++|||++++.+++.+..|+..+.....   .+.|+++++||+|+.+   ....+++.++.
T Consensus        91 ~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~---~~~~~~~~~~~  151 (190)
T 2h57_A           91 GQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRD---AVTSVKVSQLL  151 (190)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTT---CCCHHHHHHHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCccc---CCCHHHHHHHh
Confidence            9999999999999999999999998876543   4789999999999973   33455555555

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=9.7e-27  Score=159.57  Aligned_cols=141  Identities=28%  Similarity=0.438  Sum_probs=117.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...++|+++|++++|||||+++|.++.+...+.++.+..+ ......++..+.+.+||+||++.+..++..++..+|+++
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   84 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFI   84 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEE-EEEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEE
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccce-eEEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEE
Confidence            4568999999999999999999999887766666665433 345567888889999999999999988999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHAS--DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +|||++++.+++.+..|+..+.....  .+.|+++++||+|+.+  ..+..+++++++..+++.++
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~  148 (199)
T 2gf0_A           85 LVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ--REVDTREAQAVAQEWKCAFM  148 (199)
T ss_dssp             EEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS--CSSCHHHHHHHHHHHTCEEE
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc--cccCHHHHHHHHHHhCCeEE
Confidence            99999999999999988888766543  3789999999999963  45667888888888876554

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.95  E-value=4.2e-27  Score=161.40  Aligned_cols=127  Identities=17%  Similarity=0.363  Sum_probs=98.7

Q ss_pred             CCCCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchh
Q 031411            5 PARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTA   83 (160)
Q Consensus         5 ~~~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~   83 (160)
                      ++....+.....||+|+|++++|||||+++|.++.+.. .+.++.+..  ...+...+  +.+.+||+||++.+..++..
T Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~   82 (199)
T 4bas_A            7 HHHHMGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYN--VETFEKGR--VAFTVFDMGGAKKFRGLWET   82 (199)
T ss_dssp             ---------CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEE--EEEEEETT--EEEEEEEECCSGGGGGGGGG
T ss_pred             ccccccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCccccccccccee--EEEEEeCC--EEEEEEECCCCHhHHHHHHH
Confidence            33445777788999999999999999999999998877 667777633  33444444  78999999999999999999


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcC--------CCCcEEEEEeCCCCCCC
Q 031411           84 YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS--------DNVNKILVGNKADMDES  135 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~--------~~~pi~vv~~K~Dl~~~  135 (160)
                      +++++|++++|||++++++|+.+..|+..+.....        .+.|+++++||+|+.+.
T Consensus        83 ~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  142 (199)
T 4bas_A           83 YYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGA  142 (199)
T ss_dssp             GCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTC
T ss_pred             HHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCC
Confidence            99999999999999999999999999988865421        27899999999999744

>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=99.95  E-value=3e-26  Score=157.64  Aligned_cols=144  Identities=47%  Similarity=0.842  Sum_probs=123.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +..++|+++|++|+|||||++++.+..+...+.++.+.++....+.+++..+.+.+||++|++.+..++..++..+++++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i   82 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   82 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEE
Confidence            56799999999999999999999998887777777777777788889998899999999999999988999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|||..+..+++.+..|+..+......+.|+++++||+|+. ....+..+++++++.+.++.++.
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~-~~~~~~~~~a~~l~~~~~~~~~d  146 (199)
T 2f9l_A           83 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR-HLRAVPTDEARAFAEKNNLSFIE  146 (199)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccc-cccCcCHHHHHHHHHHcCCeEEE
Confidence            99999999999999999988876655578999999999997 44566778899999888876653

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.95  E-value=1.1e-27  Score=163.92  Aligned_cols=142  Identities=20%  Similarity=0.289  Sum_probs=111.6

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCcc-----------ccceeeeEEEEEE-EECCEEEEEEEecCCCcccc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSF-----------ITTIGIDFKIRTI-ELDGKRIKLQIWDTAGQERF   77 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~-----------~~~~~~~~~~~~~-~~~~~~~~~~~~D~~g~~~~   77 (160)
                      ...+..+||+++|++|+|||||++.+.+. +...+           .++.+.++....+ ..++..+.+.+||+||++.+
T Consensus         9 ~~~~~~~ki~vvG~~~~GKssL~~~l~~~-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~   87 (198)
T 3t1o_A            9 ANREINFKIVYYGPGLSGKTTNLKWIYSK-VPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFY   87 (198)
T ss_dssp             TTTEEEEEEEEECSTTSSHHHHHHHHHHT-SCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSC
T ss_pred             hccccccEEEEECCCCCCHHHHHHHHHhh-ccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHH
Confidence            45567899999999999999999766653 33332           2344444433333 45667789999999999999


Q ss_pred             cccchhhccCCcEEEEEEECC------ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc
Q 031411           78 RTITTAYYRGAMGILLVYDVT------DESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTV  151 (160)
Q Consensus        78 ~~~~~~~~~~~~~~i~v~d~~------~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~  151 (160)
                      ..++..+++++|++++|||++      +.++++.+..|+..+.. ...+.|+++++||+|+.+   .+..+++++++.++
T Consensus        88 ~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~-~~~~~piilv~NK~Dl~~---~~~~~~~~~~~~~~  163 (198)
T 3t1o_A           88 NASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGL-TLDDVPIVIQVNKRDLPD---ALPVEMVRAVVDPE  163 (198)
T ss_dssp             SHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTC-CTTSSCEEEEEECTTSTT---CCCHHHHHHHHCTT
T ss_pred             HHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhcc-ccCCCCEEEEEEchhccc---ccCHHHHHHHHHhc
Confidence            999999999999999999999      56778888888888743 335889999999999973   37888999999988


Q ss_pred             ce-EEE
Q 031411          152 QV-HLV  156 (160)
Q Consensus       152 ~~-~~~  156 (160)
                      ++ .++
T Consensus       164 ~~~~~~  169 (198)
T 3t1o_A          164 GKFPVL  169 (198)
T ss_dssp             CCSCEE
T ss_pred             CCceEE
Confidence            87 444

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.95  E-value=4.7e-28  Score=163.88  Aligned_cols=142  Identities=29%  Similarity=0.609  Sum_probs=104.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++|+|||||++++.++.+...+.++.+..+ ...+..++..+.+.+||+||++++...+..+++++|+++
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   84 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFI   84 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------C-BCCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeE-EEEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEE
Confidence            4468999999999999999999999887766666655332 223445666678889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCcc---------CCChhHHHHHhhhcce-EEE
Q 031411           93 LVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESKR---------EAPFCLHETILLTVQV-HLV  156 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~---------~~~~~~~~~~~~~~~~-~~~  156 (160)
                      +|||++++.+++.+. .|+..+....+ +.|+++++||+|+.+...         .+..+++++++..+++ .++
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  158 (182)
T 3bwd_D           85 LAFSLISKASYENVSKKWIPELKHYAP-GVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYI  158 (182)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCT-TCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEE
Confidence            999999999999997 69998887765 889999999999864322         2577888999988875 443

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.95  E-value=2.7e-27  Score=163.59  Aligned_cols=140  Identities=29%  Similarity=0.561  Sum_probs=116.5

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      ....+||+++|.+|+|||||++++.++.+...+.++.+ +.....+..++..+.+.+||+||++.+..++..+++++|++
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  105 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVF  105 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSE-EEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeec-ceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEE
Confidence            34569999999999999999999999888766666664 44456667788888999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCc-----------cCCChhHHHHHhhhcce
Q 031411           92 LLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESK-----------REAPFCLHETILLTVQV  153 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-----------~~~~~~~~~~~~~~~~~  153 (160)
                      ++|||++++.+++.+. .|+..+.... .+.|+++++||+|+.+..           ..+..+++.+++..+++
T Consensus       106 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  178 (204)
T 4gzl_A          106 LICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGA  178 (204)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCC
Confidence            9999999999999997 7998888776 488999999999986432           23778889999998875

>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=99.95  E-value=4e-26  Score=156.24  Aligned_cols=148  Identities=46%  Similarity=0.830  Sum_probs=128.5

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      ....+..++++++|++|||||||++++.+..+...+.++.+.++....+.+++..+.+.+||++|++++..++..++..+
T Consensus        23 ~~~~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~  102 (191)
T 1oix_A           23 DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGA  102 (191)
T ss_dssp             -CCCSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTC
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcC
Confidence            34567789999999999999999999999988877888888888888889999888899999999999988899999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +++++|+|..+..+++.+..|+..+......+.|+++++||+|+. ....+..+++++++.+.++.++.
T Consensus       103 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~-~~~~~~~~~a~~l~~~~~~~~ld  170 (191)
T 1oix_A          103 VGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR-HLRAVPTDEARAFAEKNGLSFIE  170 (191)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-cccccCHHHHHHHHHHcCCEEEE
Confidence            999999999999999999999988876655578999999999996 44566778899999988876653

>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=99.95  E-value=3e-26  Score=156.32  Aligned_cols=122  Identities=25%  Similarity=0.504  Sum_probs=101.8

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCC
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGA   88 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~   88 (160)
                      .......+||+|+|++++|||||+++|.++.+...+.++.+.++.  .+...+  +.+.+||+||++++..++..++.++
T Consensus        16 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~   91 (188)
T 1zd9_A           16 PRGSKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKGN--VTIKLWDIGGQPRFRSMWERYCRGV   91 (188)
T ss_dssp             ---CCEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEETT--EEEEEEEECCSHHHHTTHHHHHTTC
T ss_pred             ccCCCCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEE--EEEeCC--EEEEEEECCCCHhHHHHHHHHHccC
Confidence            344556799999999999999999999998887667777765543  344444  7899999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCC
Q 031411           89 MGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE  134 (160)
Q Consensus        89 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~  134 (160)
                      |++++|||++++++++.+..|+..+.... ..+.|+++++||+|+.+
T Consensus        92 d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  138 (188)
T 1zd9_A           92 SAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG  138 (188)
T ss_dssp             SEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCcc
Confidence            99999999999999999999998886542 25789999999999974

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.94  E-value=2.4e-26  Score=155.85  Aligned_cols=123  Identities=24%  Similarity=0.394  Sum_probs=98.2

Q ss_pred             CCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhcc
Q 031411            7 RARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYR   86 (160)
Q Consensus         7 ~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~   86 (160)
                      .........+||+++|.+++|||||+++|.++.+ ..+.++.+...  ..+..++  ..+.+||+||++++..++..+++
T Consensus        13 ~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~   87 (181)
T 2h17_A           13 GLVPRGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINN--TRFLMWDIGGQESLRSSWNTYYT   87 (181)
T ss_dssp             --------CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETT--EEEEEEEESSSGGGTCGGGGGGT
T ss_pred             CccCCCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECC--EEEEEEECCCCHhHHHHHHHHhc
Confidence            3345566779999999999999999999999887 44455555333  4455566  78999999999999999999999


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCC
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE  134 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~  134 (160)
                      ++|++++|||++++.+++.+..|+..+.... ..+.|+++++||+|+.+
T Consensus        88 ~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  136 (181)
T 2h17_A           88 NTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE  136 (181)
T ss_dssp             TCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCccc
Confidence            9999999999999999999999998886643 35789999999999964

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.94  E-value=5e-27  Score=161.19  Aligned_cols=149  Identities=17%  Similarity=0.191  Sum_probs=104.3

Q ss_pred             CCCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEE-CCEEEEEEEecCCCcccccccc---h
Q 031411            7 RARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQERFRTIT---T   82 (160)
Q Consensus         7 ~~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~~~~~---~   82 (160)
                      ....+.+..+||+++|+++||||||++++.+... .................. ++..+.+.+||++|++++....   .
T Consensus        12 ~~~~~~~~~~ki~~vG~~~vGKTsLi~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~   90 (196)
T 3llu_A           12 ENLYFQGSKPRILLMGLRRSGKSSIQKVVFHKMS-PNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYE   90 (196)
T ss_dssp             --------CCEEEEEESTTSSHHHHHHHHHSCCC-GGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHH
T ss_pred             CCCcccCcceEEEEECCCCCCHHHHHHHHHhcCC-CcceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcc
Confidence            3456667789999999999999999998887433 222222222222222233 2455789999999999987766   7


Q ss_pred             hhccCCcEEEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC------ccCCChhHHHHHhh----h
Q 031411           83 AYYRGAMGILLVYDVTDE--SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES------KREAPFCLHETILL----T  150 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~--~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~------~~~~~~~~~~~~~~----~  150 (160)
                      .+++++|++++|||++++  ++++.+..|+..+..... +.|+++++||+|+.+.      .+.+..+++++++.    .
T Consensus        91 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~  169 (196)
T 3llu_A           91 MIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNP-DMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEK  169 (196)
T ss_dssp             HHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCT-TCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTT
T ss_pred             cccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCC-CCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhc
Confidence            899999999999999997  777888888888755444 8999999999998632      34556666788887    6


Q ss_pred             cceEEEE
Q 031411          151 VQVHLVI  157 (160)
Q Consensus       151 ~~~~~~~  157 (160)
                      +++.++.
T Consensus       170 ~~~~~~e  176 (196)
T 3llu_A          170 LHLSFYL  176 (196)
T ss_dssp             SCEEEEE
T ss_pred             CCcceEE
Confidence            6666543

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.94  E-value=1.5e-25  Score=153.51  Aligned_cols=142  Identities=24%  Similarity=0.367  Sum_probs=110.7

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC--CCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc-ccccchhhccCCc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG--SFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER-FRTITTAYYRGAM   89 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~-~~~~~~~~~~~~~   89 (160)
                      ...+||+++|++|+|||||++++.+.  .+...+ ++.+.++....+..++..+.+.+||++|... +..++..+++.+|
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~   82 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGD   82 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCC
Confidence            34689999999999999999999853  233332 3345556667778899888999999999765 4556777888899


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ++++|||++++++|+.+..|+..+.... ..+.|+++++||+|+. ..+.+..++++.++..+++.++
T Consensus        83 ~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~-~~r~v~~~~~~~~a~~~~~~~~  149 (192)
T 2cjw_A           83 AYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLV-RXREVSVSEGRAXAVVFDXKFI  149 (192)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCEEE
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhh-ccccccHHHHHHHHHHhCCceE
Confidence            9999999999999999999998887653 3578999999999996 3456777888888888876554

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.94  E-value=1e-25  Score=154.01  Aligned_cols=129  Identities=22%  Similarity=0.320  Sum_probs=105.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++|+|||||++++.++.+. .+.++.+.  ....+..++  +.+.+||+||++.+..++..+++++|+++
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~--~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   95 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHP--TSEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIV   95 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSC--EEEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCC--CeEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEE
Confidence            34579999999999999999999988765 34455443  445667777  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhh
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILL  149 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~  149 (160)
                      +|||++++++++.+..|+..+.+.. ..+.|+++++||+|+.+   .+..++++++..
T Consensus        96 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~---~~~~~~~~~~~~  150 (190)
T 1m2o_B           96 FLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN---AVSEAELRSALG  150 (190)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT---CCCHHHHHHHTT
T ss_pred             EEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC---CCCHHHHHHHhC
Confidence            9999999999999999999886642 35789999999999974   456667776654

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.94  E-value=4e-26  Score=157.06  Aligned_cols=128  Identities=20%  Similarity=0.305  Sum_probs=99.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..++|+++|++|+|||||++++.++.+. .+.++.+..  ...+..++  +.+.+|||||++.+..++..+++++|++++
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~   98 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVF   98 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS--CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCce--eEEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEEE
Confidence            4579999999999999999999987764 344454433  34566677  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHHHhh
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHETILL  149 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~  149 (160)
                      |||++++++++.+..|+..+.+. ...+.|+++++||+|+.+   .+..+++++++.
T Consensus        99 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~---~~~~~~~~~~~~  152 (198)
T 1f6b_A           99 LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE---AISEERLREMFG  152 (198)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT---CCCHHHHHHHHT
T ss_pred             EEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc---cCCHHHHHHHhC
Confidence            99999999999999999988764 235789999999999973   456777777765

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.94  E-value=1.1e-25  Score=153.32  Aligned_cols=117  Identities=25%  Similarity=0.446  Sum_probs=95.5

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...++|+++|++++|||||++++.++.+. .+.++.+..  ...+..++  +.+.+||+||++++...+..++.++|+++
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   88 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN--VEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVI   88 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS--CEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            34689999999999999999999988776 455555533  34455565  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE  134 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~  134 (160)
                      +|||++++++++.+..|+..+.... ..+.|+++++||+|+.+
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  131 (187)
T 1zj6_A           89 VVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE  131 (187)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTT
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcC
Confidence            9999999999999999999887653 24789999999999973

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.94  E-value=3.8e-25  Score=148.08  Aligned_cols=118  Identities=25%  Similarity=0.494  Sum_probs=98.5

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +..+||+++|++|+|||||++++.++.+.. +.++.+  .....+..++  ..+.+||+||++.+...+..+++++|+++
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   79 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVVT-TIPTIG--FNVETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVI   79 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSS--EEEEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCc--cceEEEEECC--EEEEEEECCCChhhhHHHHHHhccCCEEE
Confidence            345899999999999999999999887653 445554  3445556665  68999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDES  135 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~  135 (160)
                      +|||++++.+++.+..|+..+.... ..+.|+++++||+|+.+.
T Consensus        80 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  123 (171)
T 1upt_A           80 YVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQA  123 (171)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCC
Confidence            9999999999999999988876543 257899999999999743

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.93  E-value=6.9e-25  Score=149.02  Aligned_cols=117  Identities=26%  Similarity=0.536  Sum_probs=99.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +..+||+++|++|+|||||++++.++. ...+.++.+  .....+..++  ..+.+||+||++++...+..+++++|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~--~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   90 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLI   90 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSS--EEEEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCc--cceEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            456999999999999999999999887 555666665  3344556665  68999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE  134 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~  134 (160)
                      +|||++++.+++.+..|+..+... ...+.|+++++||+|+.+
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  133 (186)
T 1ksh_A           91 WVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG  133 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCC
Confidence            999999999999999999888664 235789999999999974

>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=99.93  E-value=1.5e-26  Score=157.41  Aligned_cols=138  Identities=27%  Similarity=0.472  Sum_probs=100.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC--CCCCccccceeeeEEEEEEEE---CCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDG--SFTTSFITTIGIDFKIRTIEL---DGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~--~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      .+||+++|++|||||||++++.+.  .+...+.++.+.++....+..   ++..+.+.+||++|++++..++..++.+++
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRA   81 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCc
Confidence            479999999999999999999984  444555667766665544433   234578999999999999888899999999


Q ss_pred             EEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCC---hhHHHHHhhhcceE
Q 031411           90 GILLVYDVTDE-SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAP---FCLHETILLTVQVH  154 (160)
Q Consensus        90 ~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~---~~~~~~~~~~~~~~  154 (160)
                      ++++|||++++ .+++.+..|+..+....+ +.|+++++||+|+.+. ..+.   .+.+++++.++++.
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~  148 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKARAS-SSPVILVGTHLDVSDE-KQRKACMSKITKELLNKRGFP  148 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHHCT-TCEEEEEEECGGGCCH-HHHHHHHHHHHHHTTTCTTSC
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhhCC-CCcEEEEEECCCcccc-hhhHHHHHHHHHHHHHhcCCc
Confidence            99999999987 589999999999877654 7899999999999632 2221   34456777766653

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.93  E-value=6.2e-26  Score=151.04  Aligned_cols=114  Identities=26%  Similarity=0.574  Sum_probs=95.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|+|||||++++.++.+.. +.++.+  .....+..++  +.+.+||+||++.+..++..++.++|++++||
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   75 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSS--CCEEEEECSS--CEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCc--eeEEEEEECC--EEEEEEEcCCChhhHHHHHHHhccCCEEEEEE
Confidence            589999999999999999999877654 345555  3333444444  68999999999999988999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCC
Q 031411           96 DVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE  134 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~  134 (160)
                      |++++++++.+..|+..+... ...+.|+++++||+|+.+
T Consensus        76 d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  115 (164)
T 1r8s_A           76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN  115 (164)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             ECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcC
Confidence            999999999999999888653 234789999999999964

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.93  E-value=1.5e-25  Score=153.52  Aligned_cols=117  Identities=26%  Similarity=0.541  Sum_probs=93.4

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++|+|||||++++.++.+.. +.++.+  +....+..++  +.+.+||+||++.+...+..+++++|+++
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii  101 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEYKN--ICFTVWDVGGQDKIRPLWRHYFQNTQGLI  101 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSSCCEE-EEEETT--EEEEEEEETT--EEEEEEECC-----CTTHHHHHHTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhCCccc-cCCcCc--eeEEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            456999999999999999999999887653 344444  3444555555  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE  134 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~  134 (160)
                      +|||++++++++.+..|+..+.... ..+.|+++++||+|+.+
T Consensus       102 lv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~  144 (192)
T 2b6h_A          102 FVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPN  144 (192)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             EEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCC
Confidence            9999999999999999998886532 34789999999999964

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.93  E-value=7.9e-25  Score=160.91  Aligned_cols=141  Identities=27%  Similarity=0.541  Sum_probs=120.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..++|+++|.+|+|||||++++..+.+...+.++.+. .....+..++..+.+.+||+||++.+...+..++.++|++++
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~  232 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLI  232 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEE-EEEEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEE
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCCCCcccCCcccc-eeEEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEE
Confidence            4589999999999999999999988887676666653 345566778888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcce-EEE
Q 031411           94 VYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQV-HLV  156 (160)
Q Consensus        94 v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~~-~~~  156 (160)
                      |||++++.+++.+. .|+..+..... +.|+++++||+|+.+.           ...+..+++++++..+++ .++
T Consensus       233 v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  307 (332)
T 2wkq_A          233 CFSLVSPASFHHVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYL  307 (332)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCT-TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEE
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhhCC-CCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEE
Confidence            99999999999987 68888877665 8999999999999643           256788899999998876 443

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.93  E-value=2e-25  Score=151.43  Aligned_cols=117  Identities=25%  Similarity=0.495  Sum_probs=97.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +..++|+++|++|+|||||++++.+..+. .+.++.+  .....+..++  +.+.+||+||++.+...+..++.++|+++
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~~-~~~~t~g--~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   88 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDIS-HITPTQG--FNIKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCE-EEEEETT--EEEEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCC-cccCcCC--eEEEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            45699999999999999999999987643 3445555  3344566665  68999999999999888999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE  134 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~  134 (160)
                      +|||++++++++.+..|+..+... ...+.|+++++||+|+.+
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  131 (181)
T 1fzq_A           89 YVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLT  131 (181)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTT
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCccc
Confidence            999999999999999999887553 235789999999999974

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.93  E-value=2.5e-25  Score=150.65  Aligned_cols=117  Identities=25%  Similarity=0.486  Sum_probs=94.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +..++|+++|++|+|||||++++.++.+ ..+.++.+.  ....+..++  ..+.+||+||++.+...+..++.++|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~--~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   90 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGF--NVETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVI   90 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTC--CEEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCcc--ceEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            4569999999999999999999998776 344555553  334555665  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE  134 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~  134 (160)
                      +|||++++.+++.+..|+..+.... ..+.|+++++||+|+.+
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  133 (183)
T 1moz_A           91 FVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG  133 (183)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCC
Confidence            9999999999999999998887653 35789999999999974

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.88  E-value=1.3e-27  Score=164.95  Aligned_cols=139  Identities=29%  Similarity=0.575  Sum_probs=114.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+++|++|+|||||++++.++.+...+.++.+.. ....+..++..+.+.+||+||++++...+..+++++|+++
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii  106 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDN-YSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFL  106 (204)
Confidence            456999999999999999999999888766666655433 3445566777788999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCc-----------cCCChhHHHHHhhhcce
Q 031411           93 LVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDESK-----------REAPFCLHETILLTVQV  153 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-----------~~~~~~~~~~~~~~~~~  153 (160)
                      +|||++++.+++.+. .|+..+....+ +.|+++++||+|+.+..           ..+..+++++++...++
T Consensus       107 lv~D~~~~~s~~~~~~~~~~~l~~~~~-~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  178 (204)
T 3th5_A          107 ICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGA  178 (204)
Confidence            999999999999987 78888876555 78999999999996432           25566778888887765

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.93  E-value=7.6e-25  Score=160.11  Aligned_cols=135  Identities=21%  Similarity=0.317  Sum_probs=105.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC---CccccceeeeEEEEEEEECCEEEEEEEecCCCcccc-----cccchhhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT---TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF-----RTITTAYY   85 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~-----~~~~~~~~   85 (160)
                      ..+||+++|++|+|||||++++.++...   ..+.+|.+..+  ..+.+++ .+.+.+||+||++.+     ..++..++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~--~~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~   78 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEH--SHLRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIF   78 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEE--EEEEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEE--EEEEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHh
Confidence            4689999999999999999999886322   23444444433  3455544 478999999999888     77888899


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHH---HHhcCCCCcEEEEEeCCCCCCC-ccC----CChhHHHHHhhhcc
Q 031411           86 RGAMGILLVYDVTDESSFNNIRNWIRNI---EQHASDNVNKILVGNKADMDES-KRE----APFCLHETILLTVQ  152 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~---~~~~~~~~pi~vv~~K~Dl~~~-~~~----~~~~~~~~~~~~~~  152 (160)
                      +++|++++|||++++.+++.+..|...+   .... .+.|+++++||+|+.+. .+.    +..+++++++..++
T Consensus        79 ~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~-~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g  152 (307)
T 3r7w_A           79 QMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYS-PDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFG  152 (307)
T ss_dssp             TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHC-TTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhC-CCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcC
Confidence            9999999999999999999987775554   3333 47999999999999742 233    56688899999886

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.92  E-value=6.4e-25  Score=149.61  Aligned_cols=118  Identities=23%  Similarity=0.462  Sum_probs=98.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +..+||+++|++++|||||++++..+.+.. +.++.+  .....+..++  ..+.+||+||++++...+..+++++|+++
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   94 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVG--VNLETLQYKN--ISFEVWDLGGQTGVRPYWRCYFSDTDAVI   94 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTT--CCEEEEEETT--EEEEEEEECCSSSSCCCCSSSSTTCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCc--eEEEEEEECC--EEEEEEECCCCHhHHHHHHHHhhcCCEEE
Confidence            457999999999999999999999877653 344544  3334555555  68999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDES  135 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~  135 (160)
                      +|||++++++++.+..|+..+.... ..+.|+++++||+|+.+.
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  138 (189)
T 2x77_A           95 YVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDA  138 (189)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTC
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCC
Confidence            9999999999999999988886543 357899999999999643

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.91  E-value=4.7e-25  Score=161.06  Aligned_cols=135  Identities=19%  Similarity=0.203  Sum_probs=101.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCC---ccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc---cchhhccCCcE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTT---SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT---ITTAYYRGAMG   90 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~---~~~~~~~~~~~   90 (160)
                      ||+++|+.|+|||||++++.++..+.   ...+|.+.++..  +  + ..+++++|||+||++|..   .+..+++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~--v--~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH--F--S-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE--E--C-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE--E--c-cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            68999999999999999887654432   245566655432  2  2 237899999999999964   35789999999


Q ss_pred             EEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc------cCCChhHHHHHhhh----cceEEEE
Q 031411           91 ILLVYDVTDE--SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK------REAPFCLHETILLT----VQVHLVI  157 (160)
Q Consensus        91 ~i~v~d~~~~--~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~------~~~~~~~~~~~~~~----~~~~~~~  157 (160)
                      +++|||++++  ++++.+.+|+..+....+ ++|+++++||+|+.+..      +++..+++++++.+    +++.|+.
T Consensus        76 ~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~-~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~e  153 (331)
T 3r7w_B           76 LVYVIDSQDEYINAITNLAMIIEYAYKVNP-SINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYL  153 (331)
T ss_dssp             EEEECCCSSCTTHHHHHHHHHHHHHHHHCT-TCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEEC
T ss_pred             EEEEEECCchHHHHHHHHHHHHHHHhhcCC-CCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEE
Confidence            9999999987  444445555665555544 89999999999997442      46777888899986    6777664

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.91  E-value=1.8e-24  Score=150.17  Aligned_cols=120  Identities=15%  Similarity=0.277  Sum_probs=90.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCE-EEEEEEecCCCcccccc-cchhhccCCcE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGK-RIKLQIWDTAGQERFRT-ITTAYYRGAMG   90 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~D~~g~~~~~~-~~~~~~~~~~~   90 (160)
                      ...+||+++|++|+|||||++++.++.+...+.++ +.+..  .+..++. .+.+.+|||||+..+.. ++..+++++|+
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   81 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSI-TDSSA--IYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARA   81 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCC-SCEEE--EEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccCCc-ceeeE--EEEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCE
Confidence            45689999999999999999999998877665433 33333  3555543 47899999999998887 78888999999


Q ss_pred             EEEEEECCChh-hHHHHHHHHHHHHHh---cCCCCcEEEEEeCCCCCCC
Q 031411           91 ILLVYDVTDES-SFNNIRNWIRNIEQH---ASDNVNKILVGNKADMDES  135 (160)
Q Consensus        91 ~i~v~d~~~~~-~~~~~~~~~~~~~~~---~~~~~pi~vv~~K~Dl~~~  135 (160)
                      +++|||+++.. ++....+|+..+...   ...+.|+++++||+|+.+.
T Consensus        82 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  130 (214)
T 2fh5_B           82 VVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA  130 (214)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             EEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCc
Confidence            99999999853 465665554444322   2347899999999999743

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.91  E-value=1e-23  Score=155.51  Aligned_cols=117  Identities=25%  Similarity=0.544  Sum_probs=92.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+|+|.+++|||||+++|.++.+... .++.+..  ...+...+  +.+.+|||||++.+..++..+++.+|+++
T Consensus       163 ~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~--~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~ad~vi  237 (329)
T 3o47_A          163 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFN--VETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLI  237 (329)
T ss_dssp             CCSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEE--EEEEEETT--EEEEEEECC-----CCSHHHHHTTEEEEE
T ss_pred             cCcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceE--EEEEecCc--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            3558999999999999999999998886543 3444433  34455555  68999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE  134 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~  134 (160)
                      +|||++++.+++.+..|+..+.... ..++|+++++||+|+.+
T Consensus       238 lV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~  280 (329)
T 3o47_A          238 FVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN  280 (329)
T ss_dssp             EEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             EEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCc
Confidence            9999999999999998888775533 35889999999999974

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.91  E-value=1.9e-25  Score=159.36  Aligned_cols=149  Identities=23%  Similarity=0.318  Sum_probs=102.2

Q ss_pred             CCCCCCCCCeeEEEEEEcCC---------CCCHHHHHHHHhc---CCCCCccccce-eeeEEEE--------------EE
Q 031411            5 PARARADYDYLIKLLLIGDS---------GVGKSCLLLRFSD---GSFTTSFITTI-GIDFKIR--------------TI   57 (160)
Q Consensus         5 ~~~~~~~~~~~~~i~v~G~~---------~~GKstli~~l~~---~~~~~~~~~~~-~~~~~~~--------------~~   57 (160)
                      .++.....+..+||+|+|.+         |||||||+++|.+   +.+...+.++. +.++...              ..
T Consensus         9 ~~~~~~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~   88 (255)
T 3c5h_A            9 SGRENLYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRS   88 (255)
T ss_dssp             --CTTSSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC--
T ss_pred             CccCCCCCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeeccccccccccccc
Confidence            33445566778999999999         9999999999998   55555544443 2221111              11


Q ss_pred             EECCEEEEEEEec-----------------------CCCcccccccchhhcc---------------------CCcEEEE
Q 031411           58 ELDGKRIKLQIWD-----------------------TAGQERFRTITTAYYR---------------------GAMGILL   93 (160)
Q Consensus        58 ~~~~~~~~~~~~D-----------------------~~g~~~~~~~~~~~~~---------------------~~~~~i~   93 (160)
                      ..++..+.+.+||                       ++|++++..++..++.                     ++|++++
T Consensus        89 ~~~~~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vil  168 (255)
T 3c5h_A           89 LEDCVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLL  168 (255)
T ss_dssp             -------CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEE
T ss_pred             ccCCcEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEE
Confidence            2456678999999                       6667777777777766                     7999999


Q ss_pred             EEECCCh--hhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc-ceEEE
Q 031411           94 VYDVTDE--SSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHETILLTV-QVHLV  156 (160)
Q Consensus        94 v~d~~~~--~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~-~~~~~  156 (160)
                      |||++++  .+++.+..|+..+... ...+.|+++++||+|+.+. +.  .+++++++.+. ++.++
T Consensus       169 V~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~-~~--v~~~~~~~~~~~~~~~~  232 (255)
T 3c5h_A          169 GIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVE-RY--IRDAHTFALSKKNLQVV  232 (255)
T ss_dssp             EEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCH-HH--HHHHHHHHHTSSSCCEE
T ss_pred             EEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEccccccc-HH--HHHHHHHHHhcCCCeEE
Confidence            9999998  9999999999998765 3357899999999999632 22  26778888763 54443

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.91  E-value=9.2e-24  Score=142.23  Aligned_cols=117  Identities=21%  Similarity=0.223  Sum_probs=89.9

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      .+..++|+++|++|+|||||++++.++.+...+.++.+.+.....+..++  ..+.+||+||++.+..++...+..+|++
T Consensus         5 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   82 (178)
T 2lkc_A            5 VERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVND--KKITFLDTPGHEAFTTMRARGAQVTDIV   82 (178)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETT--EEEEESCCCSSSSSSCSCCSSCCCCCEE
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCC--ceEEEEECCCCHHHHHHHHHHHhhCCEE
Confidence            34568999999999999999999999887766555555555555667777  4578999999999999998999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ++|||++++...+..    ..+......+.|+++++||+|+.+
T Consensus        83 i~v~d~~~~~~~~~~----~~l~~~~~~~~p~ilv~nK~Dl~~  121 (178)
T 2lkc_A           83 ILVVAADDGVMPQTV----EAINHAKAANVPIIVAINKMDKPE  121 (178)
T ss_dssp             EEEEETTCCCCHHHH----HHHHHHGGGSCCEEEEEETTTSSC
T ss_pred             EEEEECCCCCcHHHH----HHHHHHHhCCCCEEEEEECccCCc
Confidence            999999884222211    112222234789999999999974

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.90  E-value=4.8e-23  Score=137.68  Aligned_cols=132  Identities=19%  Similarity=0.208  Sum_probs=92.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc------cchhhcc--
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT------ITTAYYR--   86 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~------~~~~~~~--   86 (160)
                      .++|+++|++|+|||||++++.+..+.....++.+.+.....+..++  ..+.+|||||+..+..      +...++.  
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   80 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINE   80 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcC
Confidence            47999999999999999999998776555445555555555566666  5789999999887652      3345554  


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ++|++++++|+++.+   ....|+..+..   .+.|+++++||+|+.+. ..+.. ++++++.++++.++
T Consensus        81 ~~~~~i~v~D~~~~~---~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~-~~~~~-~~~~~~~~~~~~~~  142 (165)
T 2wji_A           81 KPDLVVNIVDATALE---RNLYLTLQLME---MGANLLLALNKMDLAKS-LGIEI-DVDKLEKILGVKVV  142 (165)
T ss_dssp             CCSEEEEEEETTCHH---HHHHHHHHHHH---TTCCEEEEEECHHHHHH-TTCCC-CHHHHHHHHTSCEE
T ss_pred             CCCEEEEEecCCchh---HhHHHHHHHHh---cCCCEEEEEEchHhccc-cChhh-HHHHHHHHhCCCEE
Confidence            899999999998754   44557766654   37899999999998532 22222 46777777665443

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.90  E-value=2e-24  Score=150.30  Aligned_cols=131  Identities=15%  Similarity=0.288  Sum_probs=99.1

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCc---cccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccC-
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTS---FITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG-   87 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~-   87 (160)
                      ....++|+++|++|+|||||+++|.+..+...   +.++.+.++         ....+.+||+||++.+...+..++.. 
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~~   79 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKTR   79 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEEEECCCCGGGTHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEEEECCCcHHHHHHHHHHHHhc
Confidence            44568999999999999999999998876542   333332221         23578999999999998888888877 


Q ss_pred             ---CcEEEEEEECC-ChhhHHHHHHHHHHHHHh----cCCCCcEEEEEeCCCCCCCccCCC------hhHHHHHhhhcc
Q 031411           88 ---AMGILLVYDVT-DESSFNNIRNWIRNIEQH----ASDNVNKILVGNKADMDESKREAP------FCLHETILLTVQ  152 (160)
Q Consensus        88 ---~~~~i~v~d~~-~~~~~~~~~~~~~~~~~~----~~~~~pi~vv~~K~Dl~~~~~~~~------~~~~~~~~~~~~  152 (160)
                         +|++++|||++ ++++++.+..|+..+...    ...++|+++++||+|+.+.. .+.      .+++++++..++
T Consensus        80 ~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~-~~~~~~~~l~~~~~~~~~~~~  157 (218)
T 1nrj_B           80 AKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR-PPSKIKDALESEIQKVIERRK  157 (218)
T ss_dssp             GGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccC-CHHHHHHHHHHHHHHHHHHHh
Confidence               89999999999 889999999999888654    34589999999999997432 222      344556655543

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.89  E-value=2.4e-22  Score=140.87  Aligned_cols=137  Identities=21%  Similarity=0.166  Sum_probs=91.0

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc---------cccch
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF---------RTITT   82 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~---------~~~~~   82 (160)
                      .+..++|+|+|++|+|||||+++|.+..+.....+..+.+........++  ..+.+|||||+...         ...+.
T Consensus        26 ~~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~  103 (228)
T 2qu8_A           26 NPHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL--NKYQIIDTPGLLDRAFENRNTIEMTTIT  103 (228)
T ss_dssp             CTTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT--EEEEEEECTTTTTSCGGGCCHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC--CeEEEEECCCCcCcccchhhhHHHHHHH
Confidence            35679999999999999999999998876533333333334444444555  67999999998321         01123


Q ss_pred             hhccCCcEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCCh---hHHHHHhhhcc
Q 031411           83 AYYRGAMGILLVYDVTDESSFN--NIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPF---CLHETILLTVQ  152 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~~~~~--~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~---~~~~~~~~~~~  152 (160)
                      .++..+|++++|||++++.+++  ....|+..+.... .+.|+++++||+|+.+. ..+..   +..++++...+
T Consensus       104 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~  176 (228)
T 2qu8_A          104 ALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVF-SNKSIVIGFNKIDKCNM-DSLSIDNKLLIKQILDNVK  176 (228)
T ss_dssp             HHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC--CCCEEEEEECGGGCC---CCCHHHHHHHHHHHHHCC
T ss_pred             HhhccccEEEEEEecccccCcchHHHHHHHHHHHHhh-cCCcEEEEEeCcccCCc-hhhHHHHHHHHHHHHHhcC
Confidence            4467889999999999987764  3345666655432 27899999999999733 33333   24666776654

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.89  E-value=2.2e-23  Score=162.58  Aligned_cols=142  Identities=23%  Similarity=0.309  Sum_probs=105.5

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEE------E--EECCEEEEEEEecCCCcccccccchh
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRT------I--ELDGKRIKLQIWDTAGQERFRTITTA   83 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~------~--~~~~~~~~~~~~D~~g~~~~~~~~~~   83 (160)
                      ....+||+++|.+|||||||++++.++.+...+.++.+.++....      +  ..++..+.+.+||+||++.+......
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~  117 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQF  117 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHH
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHH
Confidence            456799999999999999999999999887777777776665432      1  11233478999999999999999999


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce--EEEEe
Q 031411           84 YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV--HLVIL  158 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~--~~~~~  158 (160)
                      +++++|++++|||+++.   +.+..|+..+....+ +.|+++++||+|+. ....+..+++++++...++  ..+||
T Consensus       118 ~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~~-~~pvilV~NK~Dl~-~~~~v~~~~~~~~~~~~~~~~~~vSA  189 (535)
T 3dpu_A          118 FMTRSSVYMLLLDSRTD---SNKHYWLRHIEKYGG-KSPVIVVMNKIDEN-PSYNIEQKKINERFPAIENRFHRISC  189 (535)
T ss_dssp             HHHSSEEEEEEECGGGG---GGHHHHHHHHHHHSS-SCCEEEEECCTTTC-TTCCCCHHHHHHHCGGGTTCEEECCC
T ss_pred             HccCCcEEEEEEeCCCc---hhHHHHHHHHHHhCC-CCCEEEEEECCCcc-cccccCHHHHHHHHHhcCCceEEEec
Confidence            99999999999999765   566778888887765 78999999999997 4456677888888888774  44444

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.89  E-value=6.6e-23  Score=139.94  Aligned_cols=115  Identities=17%  Similarity=0.301  Sum_probs=88.2

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCc---cccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccC-
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTS---FITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG-   87 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~-   87 (160)
                      ....++|+++|++|+|||||++++.+..+...   ..++.+.         +.....+.+||+||+..+...+..++.. 
T Consensus        45 ~~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~---------~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~  115 (193)
T 2ged_A           45 GSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAA---------DYDGSGVTLVDFPGHVKLRYKLSDYLKTR  115 (193)
T ss_dssp             -CCCCEEEEECCTTSSHHHHHHHHHHSSCC---------------------CCCCTTCSEEEETTCCBSSCCHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceee---------eecCCeEEEEECCCCchHHHHHHHHHHhh
Confidence            35668999999999999999999998775431   1222211         1123578999999999888878777766 


Q ss_pred             ---CcEEEEEEECC-ChhhHHHHHHHHHHHHHh----cCCCCcEEEEEeCCCCCCC
Q 031411           88 ---AMGILLVYDVT-DESSFNNIRNWIRNIEQH----ASDNVNKILVGNKADMDES  135 (160)
Q Consensus        88 ---~~~~i~v~d~~-~~~~~~~~~~~~~~~~~~----~~~~~pi~vv~~K~Dl~~~  135 (160)
                         +|++++|||++ ++.+++.+..|+..+...    ...+.|+++++||+|+.+.
T Consensus       116 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  171 (193)
T 2ged_A          116 AKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA  171 (193)
T ss_dssp             GGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             cccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCC
Confidence               89999999999 899999999998888654    3358999999999999743

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.89  E-value=1.7e-22  Score=137.34  Aligned_cols=133  Identities=19%  Similarity=0.206  Sum_probs=98.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccc------ccchhhcc-
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR------TITTAYYR-   86 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~------~~~~~~~~-   86 (160)
                      ..++|+++|++|+|||||+++|.+..+.....++.+.+.....+..++  ..+.+|||||+..+.      .++..++. 
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   83 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIIN   83 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHhc
Confidence            468999999999999999999998766555555556666666677776  678999999988764      23455554 


Q ss_pred             -CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           87 -GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        87 -~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                       .++++++++|.++   ++....|+..+..   .+.|+++++||+|+.+. ..+. ++.++++..+++.++
T Consensus        84 ~~~~~~i~v~d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~-~~~~-~~~~~~~~~~~~~~~  146 (188)
T 2wjg_A           84 EKPDLVVNIVDATA---LERNLYLTLQLME---MGANLLLALNKMDLAKS-LGIE-IDVDKLEKILGVKVV  146 (188)
T ss_dssp             HCCSEEEEEEEGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHH-TTCC-CCHHHHHHHHTSCEE
T ss_pred             cCCCEEEEEecchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhcccc-ccch-HHHHHHHHHhCCCeE
Confidence             5999999999864   5666777777654   47899999999998532 2222 456777777665443

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.87  E-value=4.2e-22  Score=131.91  Aligned_cols=114  Identities=21%  Similarity=0.207  Sum_probs=77.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccc-------cccchhhccC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF-------RTITTAYYRG   87 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~-------~~~~~~~~~~   87 (160)
                      .||+++|++|+|||||++++.+..+. ....++.+.+.....+..++.  .+.+||+||+..+       ...+..++..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSGDKWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSSSSCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCccchHHHHHHHHHHHHHh
Confidence            68999999999999999999987643 233334444555566667773  7889999998763       3345567889


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           88 AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        88 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      +|++++|+|.+++.+..  ..|+..+...  .+.|+++++||+|+.+.
T Consensus        80 ~~~~i~v~d~~~~~~~~--~~~~~~~~~~--~~~p~ilv~nK~Dl~~~  123 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQA--DYEVAEYLRR--KGKPVILVATKVDDPKH  123 (161)
T ss_dssp             CSEEEEEEESSSCCCHH--HHHHHHHHHH--HTCCEEEEEECCCSGGG
T ss_pred             CCEEEEEEECCCcccHh--HHHHHHHHHh--cCCCEEEEEECcccccc
Confidence            99999999998753322  1222222222  36899999999999743

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.87  E-value=3.7e-23  Score=140.60  Aligned_cols=128  Identities=21%  Similarity=0.268  Sum_probs=91.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCC-----------cccccccchhh
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG-----------QERFRTITTAY   84 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g-----------~~~~~~~~~~~   84 (160)
                      +||+++|++|+|||||++++.+..+...+.++.+....  .+...    .+.+||+||           ++.+...+..+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~~--~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~   75 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKII--EIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   75 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSCE--EEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCccceeE--EEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHH
Confidence            68999999999999999999998877666665553332  33333    588999999           56666666667


Q ss_pred             ccC-CcEEEEEEECCChhhHHHH-HHHHHH--------H-HHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce
Q 031411           85 YRG-AMGILLVYDVTDESSFNNI-RNWIRN--------I-EQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV  153 (160)
Q Consensus        85 ~~~-~~~~i~v~d~~~~~~~~~~-~~~~~~--------~-~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~  153 (160)
                      ++. +++++++|+..+..+++.+ ..|...        + ......+.|+++++||+|+.+..    .+++++++.++++
T Consensus        76 ~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~~~~~~~~~~~~  151 (190)
T 2cxx_A           76 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV----QEVINFLAEKFEV  151 (190)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH----HHHHHHHHHHHTC
T ss_pred             HHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH----HHHHHHHHHHhhh
Confidence            766 7766666666666777776 556542        2 22223478999999999997433    5567778877765

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.87  E-value=8.8e-22  Score=140.62  Aligned_cols=135  Identities=16%  Similarity=0.151  Sum_probs=98.7

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc------hhhc-
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT------TAYY-   85 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~------~~~~-   85 (160)
                      ...++|+++|++|+|||||+++|.+..+.....++.+.+.....+..++  ..+.+||+||+..+...+      ..++ 
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~e~v~~~~~~   80 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG--YTINLIDLPGTYSLGYSSIDEKIARDYLL   80 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSSCCSSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC--eEEEEEECCCcCccCCCCHHHHHHHHHHh
Confidence            4568999999999999999999998776555555566555555666655  689999999988776532      4444 


Q ss_pred             -cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           86 -RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        86 -~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                       ..+|++++|+|+++.++.   ..|..++..   .+.|+++++||+|+.+. ..+. .+.++++..+++.++.
T Consensus        81 ~~~~d~ii~V~D~t~~~~~---~~~~~~l~~---~~~pvilv~NK~Dl~~~-~~i~-~~~~~l~~~lg~~vi~  145 (258)
T 3a1s_A           81 KGDADLVILVADSVNPEQS---LYLLLEILE---MEKKVILAMTAIDEAKK-TGMK-IDRYELQKHLGIPVVF  145 (258)
T ss_dssp             HSCCSEEEEEEETTSCHHH---HHHHHHHHT---TTCCEEEEEECHHHHHH-TTCC-BCHHHHHHHHCSCEEE
T ss_pred             hcCCCEEEEEeCCCchhhH---HHHHHHHHh---cCCCEEEEEECcCCCCc-cchH-HHHHHHHHHcCCCEEE
Confidence             589999999999886543   335555543   37899999999998532 2222 2477788887766543

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.87  E-value=2.1e-21  Score=141.98  Aligned_cols=137  Identities=19%  Similarity=0.089  Sum_probs=99.1

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEEC-CEEEEEEEecCCCccccc---------
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELD-GKRIKLQIWDTAGQERFR---------   78 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~---------   78 (160)
                      .+.+..-.|+++|.+|+|||||+|+|.+..+.. ...+..+..........+ +  .++.+|||||+....         
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~--~~i~lvDTPG~~~~~~~~~l~~~~   82 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNE--AQIIFLDTPGIYEPKKSDVLGHSM   82 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTT--EEEEEEECCCCCCCCTTCHHHHHH
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCC--CeEEEEECcCCCccccchhHHHHH
Confidence            344566899999999999999999999877642 223333333333444555 4  689999999986544         


Q ss_pred             -ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc
Q 031411           79 -TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQ  152 (160)
Q Consensus        79 -~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~  152 (160)
                       .....++.++|++++|+|++++.+.+....|+..+..   .+.|+++++||+|+.+ ......+..+++...++
T Consensus        83 ~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~---~~~pvilV~NK~Dl~~-~~~~~~~~~~~l~~~~~  153 (308)
T 3iev_A           83 VEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKP---LNKPVIVVINKIDKIG-PAKNVLPLIDEIHKKHP  153 (308)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGG---GCCCEEEEEECGGGSS-SGGGGHHHHHHHHHHCT
T ss_pred             HHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHh---cCCCEEEEEECccCCC-CHHHHHHHHHHHHHhcc
Confidence             4456678899999999999998888887777777765   3689999999999962 33344555666666553

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.87  E-value=7.4e-22  Score=132.88  Aligned_cols=116  Identities=23%  Similarity=0.237  Sum_probs=88.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc--------hhhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT--------TAYY   85 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~--------~~~~   85 (160)
                      ..+|+++|++|+|||||+++|.+.... ....++.+.++....+..++.  .+.+|||||+..+....        ..++
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   81 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM--PLHIIDTAGLREASDEVERIGIERAWQEI   81 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTE--EEEEEECCCCSCCSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCe--EEEEEECCCcccchhHHHHHHHHHHHHHH
Confidence            479999999999999999999986542 222334445566667777773  58899999986532211        1357


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           86 RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +++|++++|||++++.+++ ...|+..+......++|+++++||+|+.
T Consensus        82 ~~ad~~i~v~D~~~~~s~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  128 (172)
T 2gj8_A           82 EQADRVLFMVDGTTTDAVD-PAEIWPEFIARLPAKLPITVVRNKADIT  128 (172)
T ss_dssp             HTCSEEEEEEETTTCCCCS-HHHHCHHHHHHSCTTCCEEEEEECHHHH
T ss_pred             HhCCEEEEEEECCCCCCHH-HHHHHHHHHHhcccCCCEEEEEECccCC
Confidence            8999999999999988776 3578877777665679999999999985

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.86  E-value=3.6e-22  Score=136.38  Aligned_cols=116  Identities=17%  Similarity=0.246  Sum_probs=77.9

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCC----------cccccccc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG----------QERFRTIT   81 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g----------~~~~~~~~   81 (160)
                      ....++|+++|++|+|||||+++|.+..+.....++.+..........++   .+.+||+||          ++.+..++
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~   96 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMI   96 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHH
Confidence            44679999999999999999999998875444444443333333334444   589999999          66677667


Q ss_pred             hhhccCC---cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           82 TAYYRGA---MGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        82 ~~~~~~~---~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ..++..+   |++++|+|++++.++.... ++..+..   .+.|+++++||+|+.+
T Consensus        97 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~~  148 (195)
T 1svi_A           97 ETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKIP  148 (195)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSC
T ss_pred             HHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCC
Confidence            7777666   9999999999876665532 1222222   4789999999999963

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.86  E-value=4.5e-22  Score=142.00  Aligned_cols=131  Identities=15%  Similarity=0.136  Sum_probs=96.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc----------cchhhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT----------ITTAYY   85 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~----------~~~~~~   85 (160)
                      .+|+++|++|+|||||+|+|.+........++.+.+.....+..++.  .+.+|||||...+..          +...++
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~   79 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH--LIEITDLPGVYSLVANAEGISQDEQIAAQSV   79 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE--EEEEEECCCCSSCC------CHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe--EEEEEeCCCcccccccccCCCHHHHHHHHHH
Confidence            48999999999999999999998766666667777777777787774  789999999876653          445566


Q ss_pred             --cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           86 --RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        86 --~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                        .++|++++|+|+++.++...+..|+.      ..+.|+++++||+|+.+.. ... ....+++...++.++
T Consensus        80 ~~~~~d~vi~VvDas~~~~~~~l~~~l~------~~~~pvilv~NK~Dl~~~~-~~~-~~~~~l~~~lg~~vi  144 (256)
T 3iby_A           80 IDLEYDCIINVIDACHLERHLYLTSQLF------ELGKPVVVALNMMDIAEHR-GIS-IDTEKLESLLGCSVI  144 (256)
T ss_dssp             HHSCCSEEEEEEEGGGHHHHHHHHHHHT------TSCSCEEEEEECHHHHHHT-TCE-ECHHHHHHHHCSCEE
T ss_pred             hhCCCCEEEEEeeCCCchhHHHHHHHHH------HcCCCEEEEEEChhcCCcC-CcH-HHHHHHHHHcCCCEE
Confidence              88999999999988665554443332      2378999999999985322 111 234556666666544

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.86  E-value=9.6e-22  Score=141.57  Aligned_cols=132  Identities=14%  Similarity=0.166  Sum_probs=94.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc----------chhh
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI----------TTAY   84 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~----------~~~~   84 (160)
                      +++|+++|.+|+|||||+|+|.+..+.....++.+.+.....+..++  ..+.+|||||+..+...          +..+
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~   80 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD--HQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS--CEEEEEECCCCSCSCC----CCHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC--CceEEEECcCCCccccccccCCHHHHHHHHH
Confidence            58999999999999999999999876655666666666666677666  46789999998776521          2223


Q ss_pred             c--cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           85 Y--RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        85 ~--~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +  ..+|++++|+|+++.++...+..++...      ++|+++++||+|+.+... . .....+++..+++.++
T Consensus        81 ~~~~~~d~ii~VvD~~~~~~~~~~~~~l~~~------~~p~ivv~NK~Dl~~~~~-~-~~~~~~l~~~lg~~~i  146 (274)
T 3i8s_A           81 ILSGDADLLINVVDASNLERNLYLTLQLLEL------GIPCIVALNMLDIAEKQN-I-RIEIDALSARLGCPVI  146 (274)
T ss_dssp             HHHTCCSEEEEEEEGGGHHHHHHHHHHHHHH------TCCEEEEEECHHHHHHTT-E-EECHHHHHHHHTSCEE
T ss_pred             HhhcCCCEEEEEecCCChHHHHHHHHHHHhc------CCCEEEEEECccchhhhh-H-HHHHHHHHHhcCCCEE
Confidence            2  6899999999998865554444444332      789999999999853221 1 2235666666665544

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.86  E-value=4.4e-22  Score=135.69  Aligned_cols=139  Identities=17%  Similarity=0.205  Sum_probs=92.5

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCC----------cccccc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG----------QERFRT   79 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g----------~~~~~~   79 (160)
                      .+.+..+||+++|++|+|||||+++|.+.... ...++.+..........+.   .+.+||+||          +..+..
T Consensus        18 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~~~~   93 (195)
T 3pqc_A           18 YPPPLKGEVAFVGRSNVGKSSLLNALFNRKIA-FVSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERMLWKR   93 (195)
T ss_dssp             CCCCTTCEEEEEEBTTSSHHHHHHHHHTSCCS-CCCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHHHHH
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHcCccc-cccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHHHHH
Confidence            34456789999999999999999999987633 2233333222223333343   578999999          556666


Q ss_pred             cchhhccCC---cEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-ccCCChhHHHHHhhhc--
Q 031411           80 ITTAYYRGA---MGILLVYDVTDESS--FNNIRNWIRNIEQHASDNVNKILVGNKADMDES-KREAPFCLHETILLTV--  151 (160)
Q Consensus        80 ~~~~~~~~~---~~~i~v~d~~~~~~--~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-~~~~~~~~~~~~~~~~--  151 (160)
                      ++..++..+   |++++|+|+++..+  ...+..|+...      +.|+++++||+|+.+. ......+++++++...  
T Consensus        94 ~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~------~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  167 (195)
T 3pqc_A           94 LVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL------NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGE  167 (195)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT------TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCC
T ss_pred             HHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc------CCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCC
Confidence            666666655   99999999887533  33444454433      6899999999999633 3345556677777663  


Q ss_pred             -ceEEEEe
Q 031411          152 -QVHLVIL  158 (160)
Q Consensus       152 -~~~~~~~  158 (160)
                       .+..+||
T Consensus       168 ~~~~~~Sa  175 (195)
T 3pqc_A          168 YTIIPTSS  175 (195)
T ss_dssp             SCEEECCT
T ss_pred             CceEEEec
Confidence             3444444

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.84  E-value=1.8e-21  Score=139.87  Aligned_cols=132  Identities=17%  Similarity=0.175  Sum_probs=91.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccc------ccchhhcc-
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR------TITTAYYR-   86 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~------~~~~~~~~-   86 (160)
                      ..++|+++|++|+|||||+++|.+........++.+.+..  ...++. ...+.+|||||+..+.      .+...++. 
T Consensus         2 ~~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~~--~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~   78 (272)
T 3b1v_A            2 SMTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVERK--SGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLS   78 (272)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSCE--EEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEEE--EEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhc
Confidence            3579999999999999999999987644444444444333  223343 4579999999998775      34455554 


Q ss_pred             -CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           87 -GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        87 -~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                       ++|++++|+|+++.++   ...|..++..   .+.|+++++||+|+.+. ..+. .+.++++..+++.++
T Consensus        79 ~~~d~vi~V~D~t~~e~---~~~~~~~l~~---~~~p~ilv~NK~Dl~~~-~~~~-~~~~~l~~~lg~~vi  141 (272)
T 3b1v_A           79 QRADSILNVVDATNLER---NLYLTTQLIE---TGIPVTIALNMIDVLDG-QGKK-INVDKLSYHLGVPVV  141 (272)
T ss_dssp             TCCSEEEEEEEGGGHHH---HHHHHHHHHH---TCSCEEEEEECHHHHHH-TTCC-CCHHHHHHHHTSCEE
T ss_pred             CCCCEEEEEecCCchHh---HHHHHHHHHh---cCCCEEEEEEChhhCCc-CCcH-HHHHHHHHHcCCCEE
Confidence             6999999999987544   3445555544   37899999999998532 2222 456778777776554

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.84  E-value=1.1e-20  Score=135.71  Aligned_cols=133  Identities=20%  Similarity=0.167  Sum_probs=96.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc------cchhhc--c
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT------ITTAYY--R   86 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~------~~~~~~--~   86 (160)
                      .++|+++|++|+|||||+++|.+..+.....++.+.+.....+..++.  .+.+||+||+..+..      +...++  .
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~   80 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREK--EFLVVDLPGIYSLTAHSIDELIARNFILDG   80 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTE--EEEEEECCCCSCCCSSCHHHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCc--eEEEEeCCCccccccCCHHHHHHHHhhhcc
Confidence            479999999999999999999988776556666777777777777774  589999999887665      445555  6


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ++|++++|+|+++.+   ....|...+...  ...|+++++||+|+.+.. .... +..+++..+++.++
T Consensus        81 ~~d~vi~v~D~~~~~---~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~~-~~~~-~~~~l~~~lg~~~~  143 (271)
T 3k53_A           81 NADVIVDIVDSTCLM---RNLFLTLELFEM--EVKNIILVLNKFDLLKKK-GAKI-DIKKMRKELGVPVI  143 (271)
T ss_dssp             CCSEEEEEEEGGGHH---HHHHHHHHHHHT--TCCSEEEEEECHHHHHHH-TCCC-CHHHHHHHHSSCEE
T ss_pred             CCcEEEEEecCCcch---hhHHHHHHHHhc--CCCCEEEEEEChhcCccc-ccHH-HHHHHHHHcCCcEE
Confidence            899999999998753   333444444432  138999999999985322 2222 26667777766554

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.84  E-value=1.7e-20  Score=132.47  Aligned_cols=141  Identities=15%  Similarity=0.065  Sum_probs=88.3

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCcccc--ceeeeEEEEEEEECCEEEEEEEecCCCcc-----------ccc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFIT--TIGIDFKIRTIELDGKRIKLQIWDTAGQE-----------RFR   78 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~D~~g~~-----------~~~   78 (160)
                      .+..++|+|+|.+|+|||||+++|++..+.....+  +.+.......+..++  ..+.+|||||..           .+.
T Consensus        26 ~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~liDTpG~~~~~~~~~~~~~~~~  103 (239)
T 3lxx_A           26 RNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE--TELVVVDTPGIFDTEVPNAETSKEII  103 (239)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT--EEEEEEECCSCC-----CHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC--ceEEEEECCCccCCCCCHHHHHHHHH
Confidence            34569999999999999999999999877654443  444455555666777  478999999932           333


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCccC-----CChhHHHHHhhhc
Q 031411           79 TITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS--DNVNKILVGNKADMDESKRE-----APFCLHETILLTV  151 (160)
Q Consensus        79 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~-----~~~~~~~~~~~~~  151 (160)
                      .......+++|++++|+|+++....  ...|+..+.....  ...|+++++||+|+.+....     ...+..+++..++
T Consensus       104 ~~~~~~~~~~~~~l~v~d~~~~~~~--~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~~~  181 (239)
T 3lxx_A          104 RCILLTSPGPHALLLVVPLGRYTEE--EHKATEKILKMFGERARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMDIF  181 (239)
T ss_dssp             HHHHHTTTCCSEEEEEEETTCCSSH--HHHHHHHHHHHHHHHHGGGEEEEEECGGGC------------CHHHHHHHHHH
T ss_pred             HHHHhcCCCCcEEEEEeeCCCCCHH--HHHHHHHHHHHhhhhccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHHHc
Confidence            3344456788999999998764331  1233333322111  13599999999998533211     1124577777777


Q ss_pred             ceEEE
Q 031411          152 QVHLV  156 (160)
Q Consensus       152 ~~~~~  156 (160)
                      +..++
T Consensus       182 ~~~~~  186 (239)
T 3lxx_A          182 GDRYC  186 (239)
T ss_dssp             SSSEE
T ss_pred             CCEEE
Confidence            65544

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.84  E-value=3.1e-20  Score=135.25  Aligned_cols=116  Identities=19%  Similarity=0.200  Sum_probs=81.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEECCEEEEEEEecCCCccc--------ccccchhh
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER--------FRTITTAY   84 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~--------~~~~~~~~   84 (160)
                      +..+|+++|.+|+|||||+|+|.+..+.. +..+.++.+.....+..++  .++.+|||||...        +......+
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~--~~l~l~DTpG~~~~~~~l~~~~~~~~~~~   83 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEA   83 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeCC--cEEEEecCccccchhhHHHHHHHHHHHHH
Confidence            45689999999999999999999877642 2222222222222333444  6899999999765        33445567


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHH-HHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           85 YRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~~~~~~-~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ++++|++++|+|++++.+..  ..|+ ..+.... .+.|+++++||+|+.+
T Consensus        84 l~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~~-~~~p~ilV~NK~Dl~~  131 (301)
T 1wf3_A           84 LADVNAVVWVVDLRHPPTPE--DELVARALKPLV-GKVPILLVGNKLDAAK  131 (301)
T ss_dssp             TSSCSEEEEEEETTSCCCHH--HHHHHHHHGGGT-TTSCEEEEEECGGGCS
T ss_pred             HhcCCEEEEEEECCCCCChH--HHHHHHHHHhhc-CCCCEEEEEECcccCC
Confidence            89999999999998764433  3454 3444433 3789999999999963

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.83  E-value=3.1e-20  Score=141.59  Aligned_cols=123  Identities=16%  Similarity=0.074  Sum_probs=85.4

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhcCC-------------------------------CCCccccceeeeEEEEEE
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSDGS-------------------------------FTTSFITTIGIDFKIRTI   57 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~~~-------------------------------~~~~~~~~~~~~~~~~~~   57 (160)
                      ..+....++|+++|.+++|||||+++|+...                               ...+..+..+++.....+
T Consensus        11 ~~~~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~   90 (439)
T 3j2k_7           11 GAPKKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYF   90 (439)
T ss_pred             CCCCCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEE
Confidence            3455677999999999999999999995421                               111222344555554455


Q ss_pred             EECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhh---HHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCC
Q 031411           58 ELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESS---FNNIRNWIRNIEQHASDNVN-KILVGNKADMD  133 (160)
Q Consensus        58 ~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~---~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~  133 (160)
                      ..++  ..+.+||||||++|...+...+..+|++++|+|+++...   |+...++...+......++| +++++||+|+.
T Consensus        91 ~~~~--~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~  168 (439)
T 3j2k_7           91 ETEK--KHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDP  168 (439)
T ss_pred             ecCC--eEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCc
Confidence            5555  589999999999998888888999999999999987532   22111222222222223566 99999999995

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.83  E-value=1.5e-19  Score=129.30  Aligned_cols=117  Identities=18%  Similarity=0.218  Sum_probs=84.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhcc------
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYR------   86 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~------   86 (160)
                      ..++|+++|.+|+|||||+++|.+.... ....+..+.......+..++  ..+.+|||||+..+......+++      
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~liDTpG~~~~~~~~~~~~~~i~~~l  112 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG--FTINIIDTPGLVEAGYVNHQALELIKGFL  112 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECC--eeEEEEECCCCCCcccchHHHHHHHHHHH
Confidence            5699999999999999999999987642 22223333344445566666  47999999999877665544443      


Q ss_pred             ---CCcEEEEEEECCChhhHHH-HHHHHHHHHHhcCCC--CcEEEEEeCCCCC
Q 031411           87 ---GAMGILLVYDVTDESSFNN-IRNWIRNIEQHASDN--VNKILVGNKADMD  133 (160)
Q Consensus        87 ---~~~~~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~--~pi~vv~~K~Dl~  133 (160)
                         ++|++++|++++... +.. -..|+..+......+  .|+++++||+|+.
T Consensus       113 ~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~  164 (262)
T 3def_A          113 VNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFS  164 (262)
T ss_dssp             TTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCC
T ss_pred             hcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccC
Confidence               789999999987644 333 346777776654433  3999999999995

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.82  E-value=5.5e-20  Score=141.19  Aligned_cols=117  Identities=19%  Similarity=0.133  Sum_probs=69.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc--------hhhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT--------TAYY   85 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~--------~~~~   85 (160)
                      .++|+++|.+|+|||||+|+|.+... .....++++.+.....+..++  ..+.+|||||+..+...+        ..++
T Consensus       233 ~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~~~  310 (476)
T 3gee_A          233 GVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMKM  310 (476)
T ss_dssp             CEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC--------------------CCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHhhc
Confidence            47899999999999999999998753 234445555566666677777  579999999987655433        3367


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           86 RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ..+|++++|+|++++.+++.+..+...+. ... +.|+++|+||+|+.+.
T Consensus       311 ~~aD~vl~VvD~s~~~s~~~~~~~~~~l~-~l~-~~piIvV~NK~Dl~~~  358 (476)
T 3gee_A          311 AEADLILYLLDLGTERLDDELTEIRELKA-AHP-AAKFLTVANKLDRAAN  358 (476)
T ss_dssp             SSCSEEEEEEETTTCSSGGGHHHHHHHHH-HCT-TSEEEEEEECTTSCTT
T ss_pred             ccCCEEEEEEECCCCcchhhhHHHHHHHH-hcC-CCCEEEEEECcCCCCc
Confidence            89999999999999877754333322222 222 7899999999999733

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.81  E-value=3.2e-20  Score=141.48  Aligned_cols=116  Identities=19%  Similarity=0.192  Sum_probs=83.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcc----------cccccc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE----------RFRTIT   81 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~----------~~~~~~   81 (160)
                      +..+||+++|.+|+|||||+|+|.+..+. ....++.+.+.....+..++.  .+.+|||||+.          .+..+.
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  250 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  250 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTE--EEEETTHHHHTCBTTBCCCCSHHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCe--EEEEEECCCcCcCccccchHHHHHHHH
Confidence            45699999999999999999999987653 333444455555556677774  58999999973          333322


Q ss_pred             h-hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           82 T-AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        82 ~-~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      . .+++.+|++++|+|++++.+++.. +|+..+..   .+.|+++++||+|+.+
T Consensus       251 ~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~  300 (436)
T 2hjg_A          251 ALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVD  300 (436)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSC
T ss_pred             HHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCC
Confidence            2 467889999999999998777665 46666543   3789999999999973

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.81  E-value=1.2e-20  Score=131.55  Aligned_cols=117  Identities=14%  Similarity=0.113  Sum_probs=77.0

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCC--CCccccceeeeEEEEEEEEC-CEEEEEEEecCCCc----------cccc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSF--TTSFITTIGIDFKIRTIELD-GKRIKLQIWDTAGQ----------ERFR   78 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~----------~~~~   78 (160)
                      ....++|+|+|.+|+|||||+++|.+...  .....+..+....  ..... .....+.+|||||.          +.+.
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~  103 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHIN--YFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWE  103 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEE--EEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHH
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceE--EEEecCCCCCcEEEEcCCCCCcccCChhhHHHHH
Confidence            34568999999999999999999998763  2222222222222  22232 22357899999994          3334


Q ss_pred             ccchhhccC---CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           79 TITTAYYRG---AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        79 ~~~~~~~~~---~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+...++..   +|++++|+|+++..+ +....|+..+..   .+.|+++|+||+|+.+
T Consensus       104 ~~~~~~~~~~~~~d~vi~v~d~~~~~~-~~~~~~~~~l~~---~~~p~i~v~nK~Dl~~  158 (223)
T 4dhe_A          104 QLLSSYLQTRPQLCGMILMMDARRPLT-ELDRRMIEWFAP---TGKPIHSLLTKCDKLT  158 (223)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCC-HHHHHHHHHHGG---GCCCEEEEEECGGGSC
T ss_pred             HHHHHHHhcCcCcCEEEEEEeCCCCCC-HHHHHHHHHHHh---cCCCEEEEEeccccCC
Confidence            445555554   788999999987533 222334444443   4689999999999963

>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=99.80  E-value=1.8e-19  Score=138.82  Aligned_cols=135  Identities=17%  Similarity=0.158  Sum_probs=89.0

Q ss_pred             CCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCC-------CCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc
Q 031411            8 ARADYDYLIKLLLIGDSGVGKSCLLLRFSDGS-------FTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI   80 (160)
Q Consensus         8 ~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~   80 (160)
                      +.......++|+++|..++|||||+++|.+..       +..+..+..+.+.....+..++  ..+.+||+||++.+...
T Consensus        12 ~~~~~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~~~~~   89 (482)
T 1wb1_A           12 RPHMDFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRA   89 (482)
T ss_dssp             -CCCCCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHH
T ss_pred             chhhcCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHHHHHH
Confidence            34444567999999999999999999999766       2333333344433334455566  67999999999998888


Q ss_pred             chhhccCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc-cCCChhHHHHHhhhc
Q 031411           81 TTAYYRGAMGILLVYDVTD---ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK-REAPFCLHETILLTV  151 (160)
Q Consensus        81 ~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-~~~~~~~~~~~~~~~  151 (160)
                      ....+..+|++++|+|+++   +.+.+.+.    .+..   .++|+++++||+|+.+.. .+...++++++....
T Consensus        90 ~~~~~~~aD~~ilVvda~~g~~~qt~e~l~----~~~~---~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~  157 (482)
T 1wb1_A           90 VVSAADIIDLALIVVDAKEGPKTQTGEHML----ILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQST  157 (482)
T ss_dssp             HHHHTTSCCEEEEEEETTTCSCHHHHHHHH----HHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHhhCCEEEEEEecCCCccHHHHHHHH----HHHH---cCCCEEEEEECCCcccchhHHHHHHHHHHHHhhh
Confidence            8888999999999999987   44444432    2222   267889999999997422 122334455555443

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.80  E-value=1.1e-19  Score=139.32  Aligned_cols=133  Identities=20%  Similarity=0.184  Sum_probs=90.7

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCC----------ccccccc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG----------QERFRTI   80 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g----------~~~~~~~   80 (160)
                      .+..++|+++|.+++|||||++++.+... .....++.+.+.....+..++.  .+.+|||||          ++++...
T Consensus       192 ~~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~  269 (456)
T 4dcu_A          192 NEEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVL  269 (456)
T ss_dssp             CTTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHH
T ss_pred             ccccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHH
Confidence            45578999999999999999999997642 2333444444444456666774  789999999          5555554


Q ss_pred             ch-hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc
Q 031411           81 TT-AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTV  151 (160)
Q Consensus        81 ~~-~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~  151 (160)
                      .. .+++.+|++++|+|+++... +....|+..+..   .+.|+++++||+|+. .......++.++.+.+.
T Consensus       270 ~~~~~~~~ad~~llviD~~~~~~-~~~~~~~~~~~~---~~~~~ilv~NK~Dl~-~~~~~~~~~~~~~~~~~  336 (456)
T 4dcu_A          270 RALKAIDRSEVVAVVLDGEEGII-EQDKRIAGYAHE---AGKAVVIVVNKWDAV-DKDESTMKEFEENIRDH  336 (456)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGS-CCCSSHHHHHHHHHHHH
T ss_pred             HHHHHHhhCCEEEEEEeCCCCcC-HHHHHHHHHHHH---cCCCEEEEEEChhcC-CCchHHHHHHHHHHHHh
Confidence            44 36789999999999987433 233345544443   478999999999997 33455566666666543

>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=99.80  E-value=2.3e-20  Score=137.98  Aligned_cols=130  Identities=19%  Similarity=0.181  Sum_probs=92.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcc----cccccchhhcc---CC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE----RFRTITTAYYR---GA   88 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~----~~~~~~~~~~~---~~   88 (160)
                      .+|+|+|.+++|||||+++|++........+..+.......+..++. ..+.+||+||..    .+..+...+++   .+
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~~-~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~  237 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERT  237 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHC
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCCC-ceEEEecCCCCcccccccchhHHHHHHHHHhc
Confidence            36889999999999999999986543222222333344444555542 378999999953    33344445544   59


Q ss_pred             cEEEEEEECCC---hhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc
Q 031411           89 MGILLVYDVTD---ESSFNNIRNWIRNIEQHAS--DNVNKILVGNKADMDESKREAPFCLHETILLTV  151 (160)
Q Consensus        89 ~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~  151 (160)
                      +++++|+|+++   +++++.+..|+.++..+.+  .+.|+++++||+|+.+..     ++.++++..+
T Consensus       238 d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~-----e~~~~l~~~l  300 (342)
T 1lnz_A          238 RVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA-----ENLEAFKEKL  300 (342)
T ss_dssp             CEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH-----HHHHHHHHHC
T ss_pred             cEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH-----HHHHHHHHHh
Confidence            99999999998   7889999999999987653  478999999999996321     3345555544

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.80  E-value=7.4e-20  Score=138.51  Aligned_cols=134  Identities=18%  Similarity=0.171  Sum_probs=90.3

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc-------ch
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI-------TT   82 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~-------~~   82 (160)
                      +....++|+++|..++|||||+++|.+..+. ....+..+.+.....+...+. ..+.+|||||+..+...       ..
T Consensus        30 ~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~-~~l~liDTpG~~d~~~l~~~~~~~~~  108 (423)
T 3qq5_A           30 DAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI-GPVTLVDTPGLDDVGELGRLRVEKAR  108 (423)
T ss_dssp             --CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT-EEEEEEECSSTTCCCTTCCCCHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC-CeEEEEECcCCCcccchhHHHHHHHH
Confidence            3456799999999999999999999987753 333444445556666666653 27899999999876554       24


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceE
Q 031411           83 AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVH  154 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~  154 (160)
                      .++..+|++++|+|+....   ....|+..+...   ++|+++|+||+|+.+....   +..++++..+++.
T Consensus       109 ~~l~~aD~vllVvD~~~~~---~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~---~~~~~l~~~~g~~  171 (423)
T 3qq5_A          109 RVFYRADCGILVTDSAPTP---YEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE---ELKGLYESRYEAK  171 (423)
T ss_dssp             HHHTSCSEEEEECSSSCCH---HHHHHHHHHHHT---TCCEEEECCCCTTTTCCCT---HHHHHSSCCTTCC
T ss_pred             HHHhcCCEEEEEEeCCChH---HHHHHHHHHHhc---CCCEEEEEeCcCCCCccHH---HHHHHHHHHcCCC
Confidence            4788999999999994333   335566666554   7899999999999743332   5667777666553

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.80  E-value=1.8e-19  Score=138.51  Aligned_cols=133  Identities=24%  Similarity=0.223  Sum_probs=95.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEEEEEEEecCCCcc-cccc--------cchhhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE-RFRT--------ITTAYY   85 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~-~~~~--------~~~~~~   85 (160)
                      ++|+++|.+|+|||||+|+|.+... .....++++.+.....+..++  ..+.+|||||.. .+..        ....++
T Consensus       244 ~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~  321 (482)
T 1xzp_A          244 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEI  321 (482)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC--eEEEEEECCCccccchhhHHHHHHHHHHHHh
Confidence            8999999999999999999998653 233344555566666777777  578999999987 5432        124567


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhh-cceEEEEee
Q 031411           86 RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLT-VQVHLVILK  159 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~k  159 (160)
                      +.+|++++|+|++++.+++... ++..+     .+.|+++++||+|+.+.   +..+++++++.. ..+..+|||
T Consensus       322 ~~aD~vl~VvD~s~~~s~~~~~-il~~l-----~~~piivV~NK~DL~~~---~~~~~~~~~~~~~~~~i~iSAk  387 (482)
T 1xzp_A          322 EKADIVLFVLDASSPLDEEDRK-ILERI-----KNKRYLVVINKVDVVEK---INEEEIKNKLGTDRHMVKISAL  387 (482)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSCCC---CCHHHHHHHHTCSTTEEEEEGG
T ss_pred             hcccEEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccccc---cCHHHHHHHhcCCCcEEEEECC
Confidence            8999999999999887766532 22222     27899999999999632   344555555432 356677765

>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=99.79  E-value=4e-20  Score=140.93  Aligned_cols=137  Identities=17%  Similarity=0.157  Sum_probs=90.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC--CCCCc-----------------------------cccceeeeEEEEEEEECC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG--SFTTS-----------------------------FITTIGIDFKIRTIELDG   61 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~--~~~~~-----------------------------~~~~~~~~~~~~~~~~~~   61 (160)
                      ...++|+++|..++|||||+++|+..  .+...                             ..+..+++.....+...+
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~~~   83 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKK   83 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSS
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEecCC
Confidence            35689999999999999999999864  22211                             012223333323333333


Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhc----CCCC-cEEEEEeCCCCCCCc
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA----SDNV-NKILVGNKADMDESK  136 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~----~~~~-pi~vv~~K~Dl~~~~  136 (160)
                        ..+.+|||||+.+|...+...+..+|++++|+|+++ .+|+.+..|..+...+.    ..++ |+++++||+|+.+..
T Consensus        84 --~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~  160 (435)
T 1jny_A           84 --YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPP  160 (435)
T ss_dssp             --CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSST
T ss_pred             --eEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCcc
Confidence              579999999999998888889999999999999998 77876655444433221    1243 689999999997421


Q ss_pred             c-----CCChhHHHHHhhhcc
Q 031411          137 R-----EAPFCLHETILLTVQ  152 (160)
Q Consensus       137 ~-----~~~~~~~~~~~~~~~  152 (160)
                      .     +...+++++++..++
T Consensus       161 ~~~~~~~~~~~~i~~~~~~~~  181 (435)
T 1jny_A          161 YDEKRYKEIVDQVSKFMRSYG  181 (435)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHHHHHcC
Confidence            1     223456777776654

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.79  E-value=2.2e-18  Score=128.26  Aligned_cols=140  Identities=15%  Similarity=0.126  Sum_probs=97.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc---------cchh
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT---------ITTA   83 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~---------~~~~   83 (160)
                      ...++++++|.+|+|||||+++|.+........+..+.......+...+  ..+.+|||||......         ....
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  242 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDGY--FRYQIIDTPGLLDRPISERNEIEKQAILA  242 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEETT--EEEEEEECTTTSSSCSTTSCHHHHHHHHG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEecC--ceEEEEeCCCccccchhhhhHHHHHHHHH
Confidence            4567999999999999999999998764332223333334444444454  5789999999754221         1122


Q ss_pred             hccCCcEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc--eEEEEe
Q 031411           84 YYRGAMGILLVYDVTDES--SFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQ--VHLVIL  158 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~--~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~  158 (160)
                      ....+|++++|+|++++.  +++....|+..+..... +.|+++++||+|+.+..   ..+++.+++...+  +.++||
T Consensus       243 ~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~-~~piilV~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA  317 (357)
T 2e87_A          243 LRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-DLPFLVVINKIDVADEE---NIKRLEKFVKEKGLNPIKISA  317 (357)
T ss_dssp             GGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT-TSCEEEEECCTTTCCHH---HHHHHHHHHHHTTCCCEECBT
T ss_pred             HHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC-CCCEEEEEECcccCChH---HHHHHHHHHHhcCCCeEEEeC
Confidence            345699999999998876  67888889988877655 78999999999996322   2345666665544  344444

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.79  E-value=2e-18  Score=123.11  Aligned_cols=119  Identities=16%  Similarity=0.166  Sum_probs=77.0

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCC-CCCccccc-eeeeEEEEEEEECCEEEEEEEecCCCcccccccc--------
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGS-FTTSFITT-IGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT--------   81 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~--------   81 (160)
                      ....++|+|+|.+|+|||||+++|.+.. +.....++ .+.......+..++  ..+.+|||||+..+....        
T Consensus        19 ~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~~~~~~~~~~i~   96 (260)
T 2xtp_A           19 SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWKDHCEALYKEVQ   96 (260)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSSCCCHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCCCCHHHHHHHHH
Confidence            4456899999999999999999999876 33333333 34444545556666  578999999976553322        


Q ss_pred             ---hhhccCCcEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEe-CCCCC
Q 031411           82 ---TAYYRGAMGILLVYDVTDESS-FNNIRNWIRNIEQHASDNVNKILVGN-KADMD  133 (160)
Q Consensus        82 ---~~~~~~~~~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~pi~vv~~-K~Dl~  133 (160)
                         ...++.+|++++|+|+++... ...+..|+..+..... ..|.++++| |+|+.
T Consensus        97 ~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~~-~~~~i~vv~nK~Dl~  152 (260)
T 2xtp_A           97 RCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDA-MGHTIVLFTHKEDLN  152 (260)
T ss_dssp             HHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGGG-GGGEEEEEECGGGGT
T ss_pred             HHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCchh-hccEEEEEEcccccC
Confidence               225688999999999986222 2223334433321111 345666655 99996

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.79  E-value=2.3e-19  Score=140.87  Aligned_cols=118  Identities=23%  Similarity=0.263  Sum_probs=81.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCC--CCC-------------ccccceeeeEEEEEEEE---CCEEEEEEEecCCCcc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGS--FTT-------------SFITTIGIDFKIRTIEL---DGKRIKLQIWDTAGQE   75 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~--~~~-------------~~~~~~~~~~~~~~~~~---~~~~~~~~~~D~~g~~   75 (160)
                      +..||+++|..++|||||+++|+...  ...             +.....++......+.+   ++..+.+++|||||+.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            46799999999999999999998621  110             01111222212222222   5556899999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           76 RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        76 ~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      .+...+...+..+|++++|+|+++..+.+....|.....    .++|+++++||+|+.+.
T Consensus        83 dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a  138 (599)
T 3cb4_D           83 DFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAA  138 (599)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCcccc
Confidence            999888899999999999999998777777777766553    37899999999999743

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.79  E-value=2.9e-18  Score=123.13  Aligned_cols=118  Identities=19%  Similarity=0.171  Sum_probs=80.4

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchh-------h
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTA-------Y   84 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~-------~   84 (160)
                      ...++|+++|.+|+|||||+|+|.+..+. ....+..+.......+..++  ..+.+|||||...+......       +
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~iiDTpG~~~~~~~~~~~~~~i~~~  114 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSF  114 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEeeCC--eEEEEEECCCCCCCccchHHHHHHHHHH
Confidence            34699999999999999999999987652 12222222223333444455  67999999998766533221       1


Q ss_pred             --ccCCcEEEEEEECCChhhHHH-HHHHHHHHHHhcCCC--CcEEEEEeCCCCC
Q 031411           85 --YRGAMGILLVYDVTDESSFNN-IRNWIRNIEQHASDN--VNKILVGNKADMD  133 (160)
Q Consensus        85 --~~~~~~~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~--~pi~vv~~K~Dl~  133 (160)
                        ...+|++++|+|++.. ++.. -..|+..+......+  .|+++++||+|+.
T Consensus       115 ~~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~  167 (270)
T 1h65_A          115 LLDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFS  167 (270)
T ss_dssp             TTTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCC
T ss_pred             hhcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccC
Confidence              2469999999998653 3332 346777776654433  6999999999996

>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=99.79  E-value=1.3e-18  Score=131.49  Aligned_cols=132  Identities=14%  Similarity=0.091  Sum_probs=91.2

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEE-------------------EE---CCEEEEEEEe
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTI-------------------EL---DGKRIKLQIW   69 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~-------------------~~---~~~~~~~~~~   69 (160)
                      ....++|+++|.+++|||||+++|.+.......    +........                   ..   ......+.+|
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii   80 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKL----GYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFI   80 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHSCCCCSSS----EEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEE
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCccccccc----CccccceeeccccccccceecccccccccccccccccceEEEE
Confidence            345689999999999999999999985433211    000000000                   00   1123689999


Q ss_pred             cCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcc-CCChhHHHHHh
Q 031411           70 DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR-EAPFCLHETIL  148 (160)
Q Consensus        70 D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~-~~~~~~~~~~~  148 (160)
                      ||||++.+.......+..+|++++|+|+++..++....+|+..+....  ..|+++++||+|+.+... ....++.+++.
T Consensus        81 DtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~~~l  158 (403)
T 3sjy_A           81 DAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYRQIKQFT  158 (403)
T ss_dssp             ECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHH
T ss_pred             ECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECccccchHHHHHHHHHHHHHH
Confidence            999999999988899999999999999998776777777776665442  248999999999964321 22333444444


Q ss_pred             h
Q 031411          149 L  149 (160)
Q Consensus       149 ~  149 (160)
                      .
T Consensus       159 ~  159 (403)
T 3sjy_A          159 K  159 (403)
T ss_dssp             T
T ss_pred             H
Confidence            3

>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=99.78  E-value=1e-18  Score=130.24  Aligned_cols=116  Identities=16%  Similarity=0.144  Sum_probs=80.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc---------ccccchhhcc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER---------FRTITTAYYR   86 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~---------~~~~~~~~~~   86 (160)
                      ..|+++|.+|+|||||+|+|.+........+..+.+.....+.+++  ..+.+|||+|.-.         +... ...+.
T Consensus       180 ~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~t-l~~~~  256 (364)
T 2qtf_A          180 PSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVT-LSEAK  256 (364)
T ss_dssp             CEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHH-HHGGG
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHH-HHHHH
Confidence            3499999999999999999998776444344445556666777887  4689999999622         2221 22467


Q ss_pred             CCcEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           87 GAMGILLVYDVTDES--SFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~--~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+|++++|+|++++.  ..+.+..|...+......+.|+++|+||+|+.+
T Consensus       257 ~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~  306 (364)
T 2qtf_A          257 YSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKIN  306 (364)
T ss_dssp             GSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCC
T ss_pred             hCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCC
Confidence            899999999998876  566666666666555445789999999999863

>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=99.78  E-value=5.1e-19  Score=138.76  Aligned_cols=119  Identities=22%  Similarity=0.293  Sum_probs=84.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC--CCCC-------------ccccceeeeEEEEEEEE---CCEEEEEEEecCCCc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG--SFTT-------------SFITTIGIDFKIRTIEL---DGKRIKLQIWDTAGQ   74 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~--~~~~-------------~~~~~~~~~~~~~~~~~---~~~~~~~~~~D~~g~   74 (160)
                      +...+|+++|..++|||||+++|+..  ....             +.....++......+.+   ++..+.+++|||||+
T Consensus         4 ~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh   83 (600)
T 2ywe_A            4 KNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGH   83 (600)
T ss_dssp             GGEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCS
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCc
Confidence            45689999999999999999999752  1110             00111111111112222   455689999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ..+...+...+..+|++++|+|+++..+.+....|.....    .++|+++++||+|+.+.
T Consensus        84 ~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a  140 (600)
T 2ywe_A           84 VDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSA  140 (600)
T ss_dssp             GGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTC
T ss_pred             HhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCcccc
Confidence            9998888888999999999999999877777777766553    37899999999999743

>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=99.78  E-value=6.3e-18  Score=127.86  Aligned_cols=141  Identities=14%  Similarity=0.156  Sum_probs=89.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC---CCCCcccc--ceeeeEEEEEEEE-------------C--C----EEEEEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG---SFTTSFIT--TIGIDFKIRTIEL-------------D--G----KRIKLQI   68 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~---~~~~~~~~--~~~~~~~~~~~~~-------------~--~----~~~~~~~   68 (160)
                      ...++|+++|..++|||||+++|.+.   .+..+..+  |....+....+..             +  +    ....+.+
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~i   85 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSF   85 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEE
Confidence            35689999999999999999999853   23333334  3333333322221             1  1    1368999


Q ss_pred             ecCCCcccccccchhhccCCcEEEEEEECCC----hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcc-CCChhH
Q 031411           69 WDTAGQERFRTITTAYYRGAMGILLVYDVTD----ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR-EAPFCL  143 (160)
Q Consensus        69 ~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~----~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~-~~~~~~  143 (160)
                      ||+|||+.|.......+..+|++++|+|+++    +.+++.+..    +...  ...|+++++||+|+.+... ....++
T Consensus        86 iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~----~~~l--~~~~iivv~NK~Dl~~~~~~~~~~~~  159 (408)
T 1s0u_A           86 VDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMA----LEIL--GIDKIIIVQNKIDLVDEKQAEENYEQ  159 (408)
T ss_dssp             EECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHH----HHHT--TCCCEEEEEECTTSSCTTTTTTHHHH
T ss_pred             EECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHH----HHHc--CCCeEEEEEEccCCCCHHHHHHHHHH
Confidence            9999999888777777888999999999985    344444432    2211  1348999999999974433 344567


Q ss_pred             HHHHhhh-----cceEEEEee
Q 031411          144 HETILLT-----VQVHLVILK  159 (160)
Q Consensus       144 ~~~~~~~-----~~~~~~~~k  159 (160)
                      ++++..+     ..+.++||+
T Consensus       160 i~~~l~~~~~~~~~~i~vSA~  180 (408)
T 1s0u_A          160 IKEFVKGTIAENAPIIPISAH  180 (408)
T ss_dssp             HHHHHTTSTTTTCCEEEC---
T ss_pred             HHHHHhhcCCCCCeEEEeeCC
Confidence            7777664     345555654

>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=99.78  E-value=2.2e-19  Score=137.88  Aligned_cols=137  Identities=16%  Similarity=0.096  Sum_probs=77.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc--CCCCC-----------------------------ccccceeeeEEEEEEEECC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD--GSFTT-----------------------------SFITTIGIDFKIRTIELDG   61 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~--~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~   61 (160)
                      ...++|+++|..++|||||+++|+.  +.+..                             +.....+++.....+..++
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~~  120 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH  120 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecCC
Confidence            4578999999999999999999974  22110                             0011222222222334444


Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCcc
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDE---SSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDESKR  137 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~~~~  137 (160)
                        ..+.+||||||++|.......+..+|++|+|+|+++.   .+|+...+|...+......++| +++++||+|+.+...
T Consensus       121 --~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~  198 (467)
T 1r5b_A          121 --RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQW  198 (467)
T ss_dssp             --EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSS
T ss_pred             --eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCccc
Confidence              5789999999999988888889999999999999875   3343333344333332224677 999999999963221


Q ss_pred             -----CCChhHHHHHhhhc
Q 031411          138 -----EAPFCLHETILLTV  151 (160)
Q Consensus       138 -----~~~~~~~~~~~~~~  151 (160)
                           +...+++.+++.+.
T Consensus       199 ~~~~~~~i~~e~~~~l~~~  217 (467)
T 1r5b_A          199 SEERYKECVDKLSMFLRRV  217 (467)
T ss_dssp             CHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHh
Confidence                 12234566666554

>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=99.78  E-value=8e-19  Score=135.31  Aligned_cols=119  Identities=15%  Similarity=0.089  Sum_probs=77.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCC-------------------------------CCccccceeeeEEEEEEEECC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSF-------------------------------TTSFITTIGIDFKIRTIELDG   61 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~   61 (160)
                      ...+||+++|.+++|||||+++|+....                               ..+..+..+++.....+...+
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~  110 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  110 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCC
Confidence            4579999999999999999999975411                               111112222333333333333


Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHH-----HHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNI-----RNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-----~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                        ..+.+|||||++++...+...+..+|++++|+|+++...+..+     ..+...+... ....|+++++||+|+.+
T Consensus       111 --~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~-~~~~~iIvviNK~Dl~~  185 (483)
T 3p26_A          111 --ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS-LGIHNLIIAMNKMDNVD  185 (483)
T ss_dssp             --CEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHH-TTCCCEEEEEECGGGGT
T ss_pred             --ceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHH-cCCCcEEEEEECcCccc
Confidence              6899999999999999899999999999999999986543221     1111111111 11346999999999973

>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=99.78  E-value=1.8e-18  Score=131.76  Aligned_cols=135  Identities=17%  Similarity=0.122  Sum_probs=88.4

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCC---CCc---------cc---------------------cceeeeEEEEEEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSF---TTS---------FI---------------------TTIGIDFKIRTIE   58 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~---~~~---------~~---------------------~~~~~~~~~~~~~   58 (160)
                      .+..++|+++|..++|||||+++|+....   ...         ..                     ...+++.....+.
T Consensus        21 ~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~  100 (434)
T 1zun_B           21 RKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS  100 (434)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEee
Confidence            35669999999999999999999985431   000         00                     1112222222333


Q ss_pred             ECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC-cEEEEEeCCCCCCCcc
Q 031411           59 LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNV-NKILVGNKADMDESKR  137 (160)
Q Consensus        59 ~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~-pi~vv~~K~Dl~~~~~  137 (160)
                      .++  ..+.+|||||+++|...+...+..+|++++|+|+++... ....+++..+...   +. |+++++||+|+.+...
T Consensus       101 ~~~--~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~-~qt~~~l~~~~~~---~~~~iIvviNK~Dl~~~~~  174 (434)
T 1zun_B          101 TAK--RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQ-TQTRRHSYIASLL---GIKHIVVAINKMDLNGFDE  174 (434)
T ss_dssp             CSS--EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSC-HHHHHHHHHHHHT---TCCEEEEEEECTTTTTSCH
T ss_pred             cCC--ceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCeEEEEEEcCcCCcccH
Confidence            334  579999999999998888888999999999999987542 2333444433322   34 6999999999974221


Q ss_pred             C---CChhHHHHHhhhcc
Q 031411          138 E---APFCLHETILLTVQ  152 (160)
Q Consensus       138 ~---~~~~~~~~~~~~~~  152 (160)
                      +   ...++.++++.+++
T Consensus       175 ~~~~~i~~~~~~~~~~~g  192 (434)
T 1zun_B          175 RVFESIKADYLKFAEGIA  192 (434)
T ss_dssp             HHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHhC
Confidence            1   12355667766665

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.78  E-value=1.7e-19  Score=138.05  Aligned_cols=114  Identities=25%  Similarity=0.266  Sum_probs=74.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc--------hhh
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT--------TAY   84 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~--------~~~   84 (160)
                      ..++|+++|.+|+|||||+|+|.+..+. ....++.+.+.....+..++  ..+.+|||||...+...+        ...
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~~  300 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG--IPVQVLDTAGIRETSDQVEKIGVERSRQA  300 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT--EEEEECC--------------------CC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC--EEEEEEECCccccchhHHHHHHHHHHhhh
Confidence            3479999999999999999999975432 23334444444444556677  568999999976544332        235


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           85 YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      +..+|++++|+|.+++.+.+. ..|+..+.     ..|+++|+||+|+.+.
T Consensus       301 ~~~aD~vl~VvD~s~~~~~~~-~~i~~~l~-----~~piivV~NK~Dl~~~  345 (462)
T 3geh_A          301 ANTADLVLLTIDAATGWTTGD-QEIYEQVK-----HRPLILVMNKIDLVEK  345 (462)
T ss_dssp             CCSCSEEEEEEETTTCSCHHH-HHHHHHHT-----TSCEEEEEECTTSSCG
T ss_pred             hhcCCEEEEEeccCCCCCHHH-HHHHHhcc-----CCcEEEEEECCCCCcc
Confidence            788999999999998766544 34554442     3699999999999643

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.77  E-value=3e-19  Score=128.52  Aligned_cols=117  Identities=21%  Similarity=0.281  Sum_probs=73.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-Ccc-------ccceeeeEEEEEEEECCEEEEEEEecCCCcc-------cc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSF-------ITTIGIDFKIRTIELDGKRIKLQIWDTAGQE-------RF   77 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~-------~~   77 (160)
                      ...++|+++|.+|+|||||+|+|.+.... ..+       .++.+.+.....+..++..+.+.+|||||..       .+
T Consensus         6 g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~   85 (274)
T 3t5d_A            6 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCW   85 (274)
T ss_dssp             -CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTT
T ss_pred             ccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhH
Confidence            35699999999999999999998865443 322       4555555555555556656799999999962       22


Q ss_pred             cccc-------hhhcc-------------CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           78 RTIT-------TAYYR-------------GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        78 ~~~~-------~~~~~-------------~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ..+.       ..++.             ++|+++++++.+.....+.-..++..+..    ++|+++|+||+|+.
T Consensus        86 ~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~----~~pvi~V~nK~D~~  157 (274)
T 3t5d_A           86 QPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE----KVNIIPLIAKADTL  157 (274)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT----TSCEEEEESSGGGS
T ss_pred             HHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc----cCCEEEEEeccCCC
Confidence            2222       22222             37799999977652222222334444432    78999999999985

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.77  E-value=2.6e-18  Score=131.07  Aligned_cols=110  Identities=26%  Similarity=0.320  Sum_probs=74.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccc---------cccchhhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF---------RTITTAYY   85 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~---------~~~~~~~~   85 (160)
                      .+|+++|.+|||||||+|+|.+.... ....++.+.+.....+.+++.  .+.+|||||....         ..++..++
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   79 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGK--TFKLVDTCGVFDNPQDIISQKMKEVTLNMI   79 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTE--EEEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCe--EEEEEECCCccccccchHHHHHHHHHHHHH
Confidence            48999999999999999999987643 334455555566667777774  6889999997542         23455678


Q ss_pred             cCCcEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           86 RGAMGILLVYDVTDESSFN--NIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~~~--~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +++|++++|+|+.+..+..  .+..|+..      .+.|+++++||+|+.
T Consensus        80 ~~ad~il~V~D~~~~~~~~d~~i~~~l~~------~~~p~ilv~NK~D~~  123 (439)
T 1mky_A           80 READLVLFVVDGKRGITKEDESLADFLRK------STVDTILVANKAENL  123 (439)
T ss_dssp             TTCSEEEEEEETTTCCCHHHHHHHHHHHH------HTCCEEEEEESCCSH
T ss_pred             HhCCEEEEEEECCCCCCHHHHHHHHHHHH------cCCCEEEEEeCCCCc
Confidence            9999999999998754432  33334432      267999999999985

>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=99.77  E-value=8.7e-19  Score=132.46  Aligned_cols=135  Identities=17%  Similarity=0.093  Sum_probs=90.3

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcC--------CCCC---------ccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDG--------SFTT---------SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~--------~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      ....++|+++|..++|||||+++|.+.        .+..         +.....+++.....+..++  ..+.+|||||+
T Consensus         8 ~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~~~iiDtpG~   85 (405)
T 2c78_A            8 TKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK--RHYSHVDCPGH   85 (405)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSS--CEEEEEECCCS
T ss_pred             CCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCC--eEEEEEECCCh
Confidence            446799999999999999999999862        1111         0122223333222333333  57899999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCcc--CCChhHHHHHhhhc
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDESKR--EAPFCLHETILLTV  151 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~~~~--~~~~~~~~~~~~~~  151 (160)
                      .+|.......+..+|++++|+|+++... ....+|+..+..   .++| +++++||+|+.+...  +...++++++..++
T Consensus        86 ~~f~~~~~~~~~~aD~~ilVvda~~g~~-~qt~~~l~~~~~---~~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~  161 (405)
T 2c78_A           86 ADYIKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQY  161 (405)
T ss_dssp             GGGHHHHHHHHTTCSSEEEEEETTTCCC-HHHHHHHHHHHH---TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHh
Confidence            9998888888999999999999987543 344555555543   2678 889999999973211  11223556666654


Q ss_pred             c
Q 031411          152 Q  152 (160)
Q Consensus       152 ~  152 (160)
                      +
T Consensus       162 ~  162 (405)
T 2c78_A          162 E  162 (405)
T ss_dssp             T
T ss_pred             c
Confidence            4

>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=99.76  E-value=6.1e-18  Score=123.22  Aligned_cols=132  Identities=15%  Similarity=0.112  Sum_probs=86.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEECCEEEEEEEecCCCcc---------cccccchh
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE---------RFRTITTA   83 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~---------~~~~~~~~   83 (160)
                      +..+|+++|++|+|||||+|+|.+..... ...+..+.......+..++  .++.+|||||+.         .+......
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~~--~~i~~iDTpG~~~~~~~~l~~~~~~~~~~   84 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAASS   84 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEECC--eeEEEEECcCCCccchhhHHHHHHHHHHH
Confidence            44689999999999999999999876531 1122222222222334444  578999999986         23444566


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce
Q 031411           84 YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV  153 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~  153 (160)
                      .+..+|++++|+|+++   +....+|+.....  ..+.|+++++||+|+.+ ......+..+++...++.
T Consensus        85 ~l~~~D~vl~Vvd~~~---~~~~~~~i~~~l~--~~~~P~ilvlNK~D~~~-~~~~~~~~l~~l~~~~~~  148 (301)
T 1ega_A           85 SIGDVELVIFVVEGTR---WTPDDEMVLNKLR--EGKAPVILAVNKVDNVQ-EKADLLPHLQFLASQMNF  148 (301)
T ss_dssp             CCCCEEEEEEEEETTC---CCHHHHHHHHHHH--SSSSCEEEEEESTTTCC-CHHHHHHHHHHHHTTSCC
T ss_pred             HHhcCCEEEEEEeCCC---CCHHHHHHHHHHH--hcCCCEEEEEECcccCc-cHHHHHHHHHHHHHhcCc
Confidence            7889999999999976   3333344433322  34789999999999973 122233455666665553

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.76  E-value=3.3e-18  Score=132.86  Aligned_cols=132  Identities=15%  Similarity=0.116  Sum_probs=91.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCC------------------CC----CccccceeeeEEEEEEEECCEEEEEEEec
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGS------------------FT----TSFITTIGIDFKIRTIELDGKRIKLQIWD   70 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~------------------~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~D   70 (160)
                      ....+|+++|.+++|||||+++|+...                  ..    .+..+..+.......+...+  +.+.+||
T Consensus        11 ~~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~liD   88 (528)
T 3tr5_A           11 AMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKD--YLINLLD   88 (528)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETT--EEEEEEC
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCC--EEEEEEE
Confidence            356899999999999999999996210                  00    00112223333334455555  6799999


Q ss_pred             CCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhh
Q 031411           71 TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLT  150 (160)
Q Consensus        71 ~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~  150 (160)
                      |||+..+...+...+..+|++|+|+|+++....+....|. .+.   ..++|+++++||+|+.+...   .+...++...
T Consensus        89 TPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~-~~~---~~~iPiivviNK~Dl~~~~~---~~~l~ei~~~  161 (528)
T 3tr5_A           89 TPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLME-VCR---LRHTPIMTFINKMDRDTRPS---IELLDEIESI  161 (528)
T ss_dssp             CCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHH-HHH---TTTCCEEEEEECTTSCCSCH---HHHHHHHHHH
T ss_pred             CCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHH---HcCCCEEEEEeCCCCccccH---HHHHHHHHHh
Confidence            9999999998899999999999999999876666554443 222   24789999999999963322   2334444444


Q ss_pred             cce
Q 031411          151 VQV  153 (160)
Q Consensus       151 ~~~  153 (160)
                      .+.
T Consensus       162 l~~  164 (528)
T 3tr5_A          162 LRI  164 (528)
T ss_dssp             HCC
T ss_pred             hCC
Confidence            443

>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=99.76  E-value=1.3e-19  Score=138.80  Aligned_cols=135  Identities=16%  Similarity=0.093  Sum_probs=87.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC--CCCC-----------------------------ccccceeeeEEEEEEEECC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG--SFTT-----------------------------SFITTIGIDFKIRTIELDG   61 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~~~   61 (160)
                      ...++|+++|..++|||||+++|+..  .+..                             +.....+++.....+..++
T Consensus         5 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~~   84 (458)
T 1f60_A            5 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   84 (458)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS
T ss_pred             CceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEecCC
Confidence            45699999999999999999999863  2111                             0012222222223334444


Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChh---hHH---HHHHHHHHHHHhcCCCCc-EEEEEeCCCCCC
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDES---SFN---NIRNWIRNIEQHASDNVN-KILVGNKADMDE  134 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~---~~~---~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~  134 (160)
                        ..+.+||||||.+|.......+..+|++++|+|+++..   +|+   ...+.+..+..   .++| +++++||+|+.+
T Consensus        85 --~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~---~~v~~iivviNK~Dl~~  159 (458)
T 1f60_A           85 --YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT---LGVRQLIVAVNKMDSVK  159 (458)
T ss_dssp             --EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH---TTCCEEEEEEECGGGGT
T ss_pred             --ceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH---cCCCeEEEEEEcccccc
Confidence              57999999999999888888899999999999998642   221   22222222222   2555 999999999973


Q ss_pred             Ccc---CCChhHHHHHhhhcc
Q 031411          135 SKR---EAPFCLHETILLTVQ  152 (160)
Q Consensus       135 ~~~---~~~~~~~~~~~~~~~  152 (160)
                      ...   +...++.++++..++
T Consensus       160 ~~~~~~~~i~~~~~~~l~~~g  180 (458)
T 1f60_A          160 WDESRFQEIVKETSNFIKKVG  180 (458)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHHcC
Confidence            111   123345566655543

>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=99.76  E-value=8.4e-18  Score=123.25  Aligned_cols=94  Identities=18%  Similarity=0.237  Sum_probs=74.6

Q ss_pred             EEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECC----------ChhhHHHHHHHHHHHHHhc-CCCC
Q 031411           53 KIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVT----------DESSFNNIRNWIRNIEQHA-SDNV  121 (160)
Q Consensus        53 ~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~----------~~~~~~~~~~~~~~~~~~~-~~~~  121 (160)
                      ....+..++  +.+.+||++|++++...|..++++++++++|||++          +..+++....|+..+.... ..++
T Consensus       158 ~~~~~~~~~--v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~  235 (327)
T 3ohm_A          158 IEYPFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNS  235 (327)
T ss_dssp             EEEEEEETT--EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTC
T ss_pred             EEEEEEeec--eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCc
Confidence            334455555  78999999999999999999999999999999654          5677888888888876543 2579


Q ss_pred             cEEEEEeCCCCCCCc---------------cCCChhHHHHHh
Q 031411          122 NKILVGNKADMDESK---------------REAPFCLHETIL  148 (160)
Q Consensus       122 pi~vv~~K~Dl~~~~---------------~~~~~~~~~~~~  148 (160)
                      |+++++||+|+.+..               ..+..+++.+++
T Consensus       236 ~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi  277 (327)
T 3ohm_A          236 SVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFI  277 (327)
T ss_dssp             EEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHH
T ss_pred             eEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHH
Confidence            999999999985321               146788898884

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.76  E-value=6.3e-19  Score=131.35  Aligned_cols=137  Identities=21%  Similarity=0.301  Sum_probs=75.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-Ccc--------ccceeeeEEEEEEEECCEEEEEEEecCCCc-------cc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSF--------ITTIGIDFKIRTIELDGKRIKLQIWDTAGQ-------ER   76 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~-------~~   76 (160)
                      ...++|+|+|++|+|||||+++|.+.... ..+        .++.+.......+..++....+.+|||||.       +.
T Consensus        35 ~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~  114 (361)
T 2qag_A           35 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDC  114 (361)
T ss_dssp             CCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC-------------
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHH
Confidence            44689999999999999999998764322 221        134444443344445666678999999998       66


Q ss_pred             ccccch-------hhccCC-------------cEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           77 FRTITT-------AYYRGA-------------MGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        77 ~~~~~~-------~~~~~~-------------~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      +..++.       .++..+             |+++++++.+ ..++..+. .|+..+    ..++|+++|+||+|+.. 
T Consensus       115 ~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~-~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~-  188 (361)
T 2qag_A          115 FKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPF-GHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLT-  188 (361)
T ss_dssp             -CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSS-SSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSC-
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecC-CCCcchhHHHHHHHh----ccCCCEEEEEECCCCCC-
Confidence            666654       444332             3444444431 34444443 344333    34789999999999963 


Q ss_pred             ccCCCh--hHHHHHhhhcceEE
Q 031411          136 KREAPF--CLHETILLTVQVHL  155 (160)
Q Consensus       136 ~~~~~~--~~~~~~~~~~~~~~  155 (160)
                      ..++..  +++.+++..+++.+
T Consensus       189 ~~ev~~~k~~i~~~~~~~~i~~  210 (361)
T 2qag_A          189 LKERERLKKRILDEIEEHNIKI  210 (361)
T ss_dssp             HHHHHHHHHHHHHHTTCC-CCS
T ss_pred             HHHHHHHHHHHHHHHHHCCCCE
Confidence            222322  56777777776543

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.76  E-value=9e-19  Score=138.13  Aligned_cols=121  Identities=17%  Similarity=0.116  Sum_probs=80.8

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCcc-------------------------------ccceeeeEEEEEEEEC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSF-------------------------------ITTIGIDFKIRTIELD   60 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~-------------------------------~~~~~~~~~~~~~~~~   60 (160)
                      ....+||+++|.+++|||||+++|+........                               .+..+++.....+...
T Consensus       164 ~k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~  243 (611)
T 3izq_1          164 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTH  243 (611)
T ss_dssp             CCCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECS
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecC
Confidence            345789999999999999999999865321110                               1222333333334444


Q ss_pred             CEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChh---hHHHHHHHHHHHHHhcCCC-CcEEEEEeCCCCCC
Q 031411           61 GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDES---SFNNIRNWIRNIEQHASDN-VNKILVGNKADMDE  134 (160)
Q Consensus        61 ~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~---~~~~~~~~~~~~~~~~~~~-~pi~vv~~K~Dl~~  134 (160)
                      +  ..+.+|||||+.++.......+..+|++|+|+|+++..   ++....++...+......+ .|+++++||+|+.+
T Consensus       244 ~--~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~  319 (611)
T 3izq_1          244 R--ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVD  319 (611)
T ss_dssp             S--CEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTT
T ss_pred             C--ceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccc
Confidence            4  57999999999999888888999999999999998642   1111112222222222224 35999999999974

>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=99.76  E-value=3.7e-18  Score=129.22  Aligned_cols=135  Identities=16%  Similarity=0.196  Sum_probs=88.2

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcC---CCCCcccc--ceeeeEEEEEEEE-------------C--C----EEEE
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDG---SFTTSFIT--TIGIDFKIRTIEL-------------D--G----KRIK   65 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~---~~~~~~~~--~~~~~~~~~~~~~-------------~--~----~~~~   65 (160)
                      ......++|+++|..++|||||+++|.+.   .+..+..+  |....+....+..             .  +    ....
T Consensus         5 ~~~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~   84 (410)
T 1kk1_A            5 KSRQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRR   84 (410)
T ss_dssp             -CCSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEE
T ss_pred             ccCCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccE
Confidence            34567799999999999999999999853   23333334  3322333222221             0  1    1368


Q ss_pred             EEEecCCCcccccccchhhccCCcEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcc-CCC
Q 031411           66 LQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDE----SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR-EAP  140 (160)
Q Consensus        66 ~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~----~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~-~~~  140 (160)
                      +.+||+|||+.|.......+..+|++++|+|+++.    .+.+.+..    +...  ...|+++++||+|+.+... ...
T Consensus        85 i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~----~~~~--~~~~iivviNK~Dl~~~~~~~~~  158 (410)
T 1kk1_A           85 VSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMA----LQII--GQKNIIIAQNKIELVDKEKALEN  158 (410)
T ss_dssp             EEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHH----HHHH--TCCCEEEEEECGGGSCHHHHHHH
T ss_pred             EEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHH----HHHc--CCCcEEEEEECccCCCHHHHHHH
Confidence            99999999998877777777889999999999853    44444432    2222  1348999999999974322 233


Q ss_pred             hhHHHHHhhh
Q 031411          141 FCLHETILLT  150 (160)
Q Consensus       141 ~~~~~~~~~~  150 (160)
                      .++++++...
T Consensus       159 ~~~i~~~l~~  168 (410)
T 1kk1_A          159 YRQIKEFIEG  168 (410)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHh
Confidence            4556666653

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.75  E-value=3.8e-20  Score=143.47  Aligned_cols=128  Identities=18%  Similarity=0.154  Sum_probs=90.5

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      +.++|+++|.+++|||||+++|.+..+.....++.+.++....+..++ ...+.|||||||+.|..++...+..+|++++
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~-g~~i~~iDTPGhe~f~~~~~~~~~~aD~vIL   81 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPS-GEKITFLDTPGHAAFSAMRARGTQVTDIVIL   81 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSC-SSCCBCEECSSSCCTTTSBBSSSBSBSSCEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCC-CCEEEEEECCChHHHHHHHHHHHccCCEEEE
Confidence            346899999999999999999997665444444444444333333322 1368999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHH
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHET  146 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~  146 (160)
                      |+|+++....+...    .+......++|+++++||+|+.+........+..+
T Consensus        82 VVDa~dg~~~qt~e----~l~~~~~~~vPiIVViNKiDl~~~~~~~v~~~l~~  130 (537)
T 3izy_P           82 VVAADDGVMKQTVE----SIQHAKDAHVPIVLAINKCDKAEADPEKVKKELLA  130 (537)
T ss_dssp             ECBSSSCCCHHHHH----HHHHHHTTTCCEEECCBSGGGTTTSCCSSSSHHHH
T ss_pred             EEECCCCccHHHHH----HHHHHHHcCCcEEEEEecccccccchHHHHHHHHh
Confidence            99998855443332    22222234789999999999975444433343433

>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=99.75  E-value=1e-17  Score=124.29  Aligned_cols=93  Identities=16%  Similarity=0.259  Sum_probs=76.1

Q ss_pred             EEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHHhc-CCCCcE
Q 031411           55 RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTD----------ESSFNNIRNWIRNIEQHA-SDNVNK  123 (160)
Q Consensus        55 ~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~-~~~~pi  123 (160)
                      ..+..++  +.+.+||++|++.+...|..++++++++|+|||+++          ..+++....|+..+..+. ..++|+
T Consensus       186 ~~~~~~~--~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~pi  263 (353)
T 1cip_A          186 THFTFKD--LHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSI  263 (353)
T ss_dssp             EEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEE
T ss_pred             EEEeeCC--eeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcE
Confidence            3445554  789999999999999999999999999999999998          467888888998887642 257999


Q ss_pred             EEEEeCCCCCCCc--------------cCCChhHHHHHhh
Q 031411          124 ILVGNKADMDESK--------------REAPFCLHETILL  149 (160)
Q Consensus       124 ~vv~~K~Dl~~~~--------------~~~~~~~~~~~~~  149 (160)
                      +|++||+|+.+..              ..+..+++.+++.
T Consensus       264 iLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~  303 (353)
T 1cip_A          264 ILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQ  303 (353)
T ss_dssp             EEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHH
T ss_pred             EEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHH
Confidence            9999999985221              1367888988886

>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=99.75  E-value=9.5e-18  Score=126.47  Aligned_cols=133  Identities=17%  Similarity=0.093  Sum_probs=87.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCC-------CC---------CccccceeeeEEEEEEEECCEEEEEEEecCCCcccc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGS-------FT---------TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF   77 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~-------~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~   77 (160)
                      ..+||+++|..++|||||+++|.+..       +.         .+.....+++..  ...+......+.+|||||+.+|
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~--~~~~~~~~~~~~iiDtpG~~~f   79 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAA--HVEYSTAARHYAHTDCPGHADY   79 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECE--EEEEECSSCEEEEEECSSHHHH
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEee--eEEeccCCeEEEEEECCChHHH
Confidence            35899999999999999999998631       11         011222233322  2233323357899999999998


Q ss_pred             cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCcc--CCChhHHHHHhhhcc
Q 031411           78 RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDESKR--EAPFCLHETILLTVQ  152 (160)
Q Consensus        78 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~~~~--~~~~~~~~~~~~~~~  152 (160)
                      .......+..+|++++|+|+++....+... ++..+..   .++| +++++||+|+.+...  +...++++++..+++
T Consensus        80 ~~~~~~~~~~aD~~ilVvda~~g~~~qt~e-~l~~~~~---~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~  153 (397)
T 1d2e_A           80 VKNMITGTAPLDGCILVVAANDGPMPQTRE-HLLLARQ---IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFG  153 (397)
T ss_dssp             HHHHHHTSSCCSEEEEEEETTTCSCHHHHH-HHHHHHH---TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhhHhhCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcC
Confidence            887888899999999999998854333322 2233332   2678 789999999974211  122345666766554

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.73  E-value=2.6e-18  Score=130.96  Aligned_cols=113  Identities=18%  Similarity=0.192  Sum_probs=72.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcc--------cccccchhhcc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE--------RFRTITTAYYR   86 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~--------~~~~~~~~~~~   86 (160)
                      .+|+++|.+|+|||||+|+|.+.... ....+..+.+.....+..++  ..+.+|||+|+.        .+..++..+++
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   81 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLN--YDFNLIDTGGIDIGDEPFLAQIRQQAEIAMD   81 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC-----------CEEEECTTCS--SCCEEEC---------CHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeecCCCCCccceEEEEEEECC--ceEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            58999999999999999999986543 22233333344434444444  478999999975        45556677889


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+|++++|+|+.++.+...  .|+..+.+  ..+.|+++++||+|+.+
T Consensus        82 ~ad~il~vvD~~~~~~~~d--~~~~~~l~--~~~~pvilv~NK~D~~~  125 (436)
T 2hjg_A           82 EADVIIFMVNGREGVTAAD--EEVAKILY--RTKKPVVLAVNKLDNTE  125 (436)
T ss_dssp             HCSEEEEEEETTTCSCHHH--HHHHHHHT--TCCSCEEEEEECCCC--
T ss_pred             hCCEEEEEEeCCCCCCHHH--HHHHHHHH--HcCCCEEEEEECccCcc
Confidence            9999999999987655433  33333322  24789999999999864

>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=99.72  E-value=9.7e-19  Score=134.64  Aligned_cols=112  Identities=18%  Similarity=0.221  Sum_probs=81.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      +..+|+++|+.++|||||+++|....+.....++.+.+.....+..++  ..+.|||||||+.|..++...+..+|++++
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~--~~i~~iDTPGhe~f~~~~~~~~~~aD~aIL   80 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN--GMITFLDTPGHAAFTSMRARGAQATDIVVL   80 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS--SCCCEECCCTTTCCTTSBCSSSBSCSSEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC--EEEEEEECCCcHHHHHHHHHHHhhCCEEEE
Confidence            446899999999999999999987554433333333222222333344  368999999999999999889999999999


Q ss_pred             EEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           94 VYDVTD---ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        94 v~d~~~---~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      |+|+++   +.+.+.+    ..+.   ..++|+++++||+|+.+
T Consensus        81 VVda~~g~~~qT~e~l----~~~~---~~~vPiIVviNKiDl~~  117 (501)
T 1zo1_I           81 VVAADDGVMPQTIEAI----QHAK---AAQVPVVVAVNKIDKPE  117 (501)
T ss_dssp             EEETTTBSCTTTHHHH----HHHH---HTTCCEEEEEECSSSST
T ss_pred             EeecccCccHHHHHHH----HHHH---hcCceEEEEEEeccccc
Confidence            999987   3333332    2222   23789999999999964

>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=99.72  E-value=4.5e-17  Score=130.15  Aligned_cols=121  Identities=20%  Similarity=0.198  Sum_probs=86.1

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcC--CCC------C----------ccccceeeeEEEEEEEECCEEEEEEEecC
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDG--SFT------T----------SFITTIGIDFKIRTIELDGKRIKLQIWDT   71 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~--~~~------~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~D~   71 (160)
                      ...+...+|+++|..++|||||+++|+..  .+.      .          +.....++......+..++  +.+++|||
T Consensus         7 ~~~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~--~~i~liDT   84 (691)
T 1dar_A            7 YDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDT   84 (691)
T ss_dssp             CCGGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEETT--EEEEEECC
T ss_pred             CccccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECC--eEEEEEEC
Confidence            44567799999999999999999999831  110      0          0011222223333444555  68999999


Q ss_pred             CCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc
Q 031411           72 AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK  136 (160)
Q Consensus        72 ~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~  136 (160)
                      ||+..+...+...+..+|++++|+|+++..+.+....|.. +..   .++|+++++||+|+.+..
T Consensus        85 PG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~~~~  145 (691)
T 1dar_A           85 PGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMDKTGAD  145 (691)
T ss_dssp             CSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTTCC
T ss_pred             cCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEECCCcccCC
Confidence            9999988888899999999999999998777766655553 222   378999999999997443

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.72  E-value=5.9e-17  Score=123.58  Aligned_cols=116  Identities=24%  Similarity=0.222  Sum_probs=76.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc----------
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT----------   81 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~----------   81 (160)
                      +..++++++|++|+|||||+|+|.+.... ....++.+.+.....+..++.  .+.+|||+|..+.....          
T Consensus       178 ~~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~  255 (439)
T 1mky_A          178 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNY  255 (439)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCH
T ss_pred             ccCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHH
Confidence            35689999999999999999999987542 223334444455556777874  67899999974332211          


Q ss_pred             --hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           82 --TAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        82 --~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                        ...+..+|++++++|+++..+.+.. .+...+..   .+.|+++++||+|+.+
T Consensus       256 ~~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~~---~~~~~ilv~NK~Dl~~  306 (439)
T 1mky_A          256 RVVDSIEKADVVVIVLDATQGITRQDQ-RMAGLMER---RGRASVVVFNKWDLVV  306 (439)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGST
T ss_pred             HHHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCCC
Confidence              2356789999999999876555432 22222222   3789999999999964

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.71  E-value=5e-19  Score=139.17  Aligned_cols=118  Identities=21%  Similarity=0.203  Sum_probs=62.0

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCC-------------------------------CCCccccceeeeEEEEEEEEC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGS-------------------------------FTTSFITTIGIDFKIRTIELD   60 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~   60 (160)
                      ....++|+++|.+++|||||+++|+...                               +..+..++.+++.....+..+
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~  253 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFESD  253 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEeC
Confidence            4567899999999999999999996311                               011112233333333333333


Q ss_pred             CEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChh---hH---HHHHHHHHHHHHhcCCCCc-EEEEEeCCCCC
Q 031411           61 GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDES---SF---NNIRNWIRNIEQHASDNVN-KILVGNKADMD  133 (160)
Q Consensus        61 ~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~---~~---~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~  133 (160)
                        ...+.||||||+..|.......+..+|++|+|+|+++..   .+   ....+.+..+..   .++| +++++||+|+.
T Consensus       254 --~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~---lgip~iIvviNKiDl~  328 (592)
T 3mca_A          254 --KKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA---LGISEIVVSVNKLDLM  328 (592)
T ss_dssp             -------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH---SSCCCEEEEEECGGGG
T ss_pred             --CeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH---cCCCeEEEEEeccccc
Confidence              368899999999999888888899999999999998532   11   011111111221   2555 99999999996


Q ss_pred             C
Q 031411          134 E  134 (160)
Q Consensus       134 ~  134 (160)
                      +
T Consensus       329 ~  329 (592)
T 3mca_A          329 S  329 (592)
T ss_dssp             T
T ss_pred             c
Confidence            3

>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=99.71  E-value=6.3e-17  Score=125.77  Aligned_cols=117  Identities=16%  Similarity=0.109  Sum_probs=79.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCc----------------------cccceeeeEEEEEEEECCEEEEEEEec
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTS----------------------FITTIGIDFKIRTIELDGKRIKLQIWD   70 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~D   70 (160)
                      ....+|+++|.+++|||||+++|+.......                      .....++......+..++  +.+.+||
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~--~~i~liD   88 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHD--CLVNLLD   88 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETT--EEEEEEC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECC--eEEEEEE
Confidence            3568999999999999999999986311000                      001111111122334444  6899999


Q ss_pred             CCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           71 TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        71 ~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      |||+..+.......+..+|++|+|+|+++..... ..+++..+   ...++|+++++||+|+.+.
T Consensus        89 TPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~-t~~~~~~~---~~~~ipiivviNK~Dl~~~  149 (529)
T 2h5e_A           89 TPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDR-TRKLMEVT---RLRDTPILTFMNKLDRDIR  149 (529)
T ss_dssp             CCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHH-HHHHHHHH---TTTTCCEEEEEECTTSCCS
T ss_pred             CCCChhHHHHHHHHHHHCCEEEEEEeCCccchHH-HHHHHHHH---HHcCCCEEEEEcCcCCccc
Confidence            9999998888888999999999999998753221 12222222   2347899999999999744

>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=99.71  E-value=3.2e-17  Score=133.39  Aligned_cols=126  Identities=21%  Similarity=0.208  Sum_probs=88.1

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCC------------CC----Cccccceeee--EEEEEEE------------ECC
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGS------------FT----TSFITTIGID--FKIRTIE------------LDG   61 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~------------~~----~~~~~~~~~~--~~~~~~~------------~~~   61 (160)
                      .+...||+|+|..++|||||+++|+...            +.    .+..+..++.  .....+.            .++
T Consensus        16 ~~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~   95 (842)
T 1n0u_A           16 VTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDG   95 (842)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCS
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccC
Confidence            3456899999999999999999998631            10    0011111111  1112222            134


Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCCh
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPF  141 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~  141 (160)
                      ..+.+++|||||+.+|...+..+++.+|++|+|+|+.+..+++....|.....    .++|+++++||+|+...+.....
T Consensus        96 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~----~~~p~ilviNK~D~~~~e~~~~~  171 (842)
T 1n0u_A           96 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRALLELQVSK  171 (842)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHHHHTSCCCH
T ss_pred             CCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH----cCCCeEEEEECCCcchhhhccCH
Confidence            46899999999999999999999999999999999999877777665654332    37899999999998643333333

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.70  E-value=6.1e-18  Score=129.59  Aligned_cols=115  Identities=16%  Similarity=0.122  Sum_probs=74.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCC--------cccccccchh
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAG--------QERFRTITTA   83 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g--------~~~~~~~~~~   83 (160)
                      ....+|+++|.+|||||||+|+|.+.... ....+..+.+..  ..........+.+|||||        ++.+..+...
T Consensus        21 m~~~~V~lvG~~nvGKSTL~n~l~~~~~~~v~~~~g~t~~~~--~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~   98 (456)
T 4dcu_A           21 MGKPVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRI--YSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEI   98 (456)
T ss_dssp             --CCEEEEECSSSSSHHHHHHHHEEEEEC-----------CE--EEECTTCSSCCEEECCCC------CCHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcceeEE--EEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHh
Confidence            34579999999999999999999986543 222222332222  223332235799999999        6667777788


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           84 YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +++.+|++++|+|..+...  ....|+..+.+  ..+.|+++++||+|+.
T Consensus        99 ~~~~ad~il~VvD~~~~~~--~~d~~l~~~l~--~~~~pvilV~NK~D~~  144 (456)
T 4dcu_A           99 AMDEADVIIFMVNGREGVT--AADEEVAKILY--RTKKPVVLAVNKLDNT  144 (456)
T ss_dssp             HHHHCSEEEEEEESSSCSC--HHHHHHHHHHT--TCCSCEEEEEECC---
T ss_pred             hHhhCCEEEEEEeCCCCCC--hHHHHHHHHHH--HcCCCEEEEEECccch
Confidence            8899999999999876322  22334433332  2478999999999986

>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=99.70  E-value=2.4e-16  Score=126.14  Aligned_cols=132  Identities=17%  Similarity=0.051  Sum_probs=88.9

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCC--CCCc----------------cccceeeeEEEEEEEEC-----CEEEEEEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGS--FTTS----------------FITTIGIDFKIRTIELD-----GKRIKLQI   68 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~--~~~~----------------~~~~~~~~~~~~~~~~~-----~~~~~~~~   68 (160)
                      .+...+|+++|..++|||||+++|+...  +...                .....++......+.++     +..+.+++
T Consensus         7 ~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~l   86 (704)
T 2rdo_7            7 IARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINI   86 (704)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEE
Confidence            3456899999999999999999997421  1100                01112222222233332     23478999


Q ss_pred             ecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHH
Q 031411           69 WDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETI  147 (160)
Q Consensus        69 ~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~  147 (160)
                      |||||+..|...+...++.+|++|+++|+++....+....|.. ..   ..++|+++++||+|+.........+++++.
T Consensus        87 iDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~---~~~ip~ilviNKiD~~~~~~~~~~~~l~~~  161 (704)
T 2rdo_7           87 IDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-AN---KYKVPRIAFVNKMDRMGANFLKVVNQIKTR  161 (704)
T ss_pred             EeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HH---HcCCCEEEEEeCCCcccccHHHHHHHHHHH
Confidence            9999999998888889999999999999998765544443432 22   237899999999999754433334444433

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.70  E-value=1.1e-16  Score=127.99  Aligned_cols=117  Identities=20%  Similarity=0.184  Sum_probs=83.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc--CCCCCc----------------cccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD--GSFTTS----------------FITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~--~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      +...+|+++|.+++|||||+++|+.  +.+...                ..+..++......+..++  ..+++|||||+
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~--~~i~liDTPG~   85 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEG--HRVNIIDTPGH   85 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETT--EEEEEECCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECC--eeEEEEECcCC
Confidence            4578999999999999999999984  221100                011112222233445555  67999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ..+...+...++.+|++++|+|+++..+.+....|.. +..   .++|+++++||+|+...
T Consensus        86 ~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~---~~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           86 VDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATT---YGVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             SSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTTC
T ss_pred             cchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHH---cCCCEEEEEECCCcccc
Confidence            9998888889999999999999998766666555543 332   37899999999999743

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.70  E-value=1.2e-17  Score=124.75  Aligned_cols=119  Identities=9%  Similarity=0.058  Sum_probs=83.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      +|+++|.+++|||||+++|.        .+..+++.....+..++  ..+.+|||||+++|.......+..+|++++|+|
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~--------~~giTi~~~~~~~~~~~--~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG--------KKGTSSDITMYNNDKEG--RNMVFVDAHSYPKTLKSLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS--------EEEEESSSEEEEECSSS--SEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHH--------hCCEEEEeeEEEEecCC--eEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc
Confidence            99999999999999999998        12222223333333444  469999999999987777778899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEe-CCCCCCCcc-CCChhHHHHHhhhc
Q 031411           97 VTDESSFNNIRNWIRNIEQHASDNVNK-ILVGN-KADMDESKR-EAPFCLHETILLTV  151 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~pi-~vv~~-K~Dl~~~~~-~~~~~~~~~~~~~~  151 (160)
                       + ...+....+++..+...   ++|. ++++| |+|+ +... +...++++++....
T Consensus        93 -~-~g~~~qt~e~~~~~~~~---~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~  144 (370)
T 2elf_A           93 -P-QGLDAHTGECIIALDLL---GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGT  144 (370)
T ss_dssp             -T-TCCCHHHHHHHHHHHHT---TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTS
T ss_pred             -C-CCCcHHHHHHHHHHHHc---CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhc
Confidence             4 34445556666555442   5677 88889 9999 3321 11235667776654

>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=99.69  E-value=8e-17  Score=118.51  Aligned_cols=76  Identities=16%  Similarity=0.242  Sum_probs=65.4

Q ss_pred             EEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECC----------ChhhHHHHHHHHHHHHHhc-CCCCcEE
Q 031411           56 TIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVT----------DESSFNNIRNWIRNIEQHA-SDNVNKI  124 (160)
Q Consensus        56 ~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~----------~~~~~~~~~~~~~~~~~~~-~~~~pi~  124 (160)
                      .+..++  +.+.+||++|++++..+|..++++++++|+|||++          +..+++....|+..+.... ..++|++
T Consensus       155 ~~~~~~--v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~pii  232 (340)
T 4fid_A          155 DFVVKD--IPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKL  232 (340)
T ss_dssp             EEESSS--CEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEE
T ss_pred             EEEeee--eeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEE
Confidence            344444  78999999999999999999999999999999998          6788888888988886643 3589999


Q ss_pred             EEEeCCCCC
Q 031411          125 LVGNKADMD  133 (160)
Q Consensus       125 vv~~K~Dl~  133 (160)
                      |++||+|+.
T Consensus       233 Lv~NK~DL~  241 (340)
T 4fid_A          233 IFLNKMDLF  241 (340)
T ss_dssp             EEEECHHHH
T ss_pred             EEEECchhh
Confidence            999999974

>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=99.69  E-value=2.9e-17  Score=128.99  Aligned_cols=112  Identities=18%  Similarity=0.174  Sum_probs=78.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCcc----ccceeeeEEEEEEEE---------CC-----EEEEEEEecCCCcc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSF----ITTIGIDFKIRTIEL---------DG-----KRIKLQIWDTAGQE   75 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~----~~~~~~~~~~~~~~~---------~~-----~~~~~~~~D~~g~~   75 (160)
                      +.++|+++|..++|||||+++|.+..+....    ..+.+.  .......         .+     ....+.+|||||+.
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~--~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe   81 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGA--TEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHE   81 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTE--EEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTS
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCe--EEEeechhhhhccccccccccccccCCEEEEECCCcH
Confidence            3469999999999999999999875432211    112121  1111100         00     11258999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           76 RFRTITTAYYRGAMGILLVYDVTD---ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        76 ~~~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .|..++...+..+|++++|+|+++   +.+++.+..    +..   .++|+++++||+|+.+
T Consensus        82 ~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~----l~~---~~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           82 AFTTLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM---YRTPFVVAANKIDRIH  136 (594)
T ss_dssp             CCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHH----HHH---TTCCEEEEEECGGGST
T ss_pred             HHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHH----HHH---cCCeEEEEeccccccc
Confidence            999999888999999999999998   666655432    222   3789999999999964

>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=99.68  E-value=3.1e-17  Score=135.25  Aligned_cols=138  Identities=20%  Similarity=0.118  Sum_probs=87.7

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCC-------CCC-------ccccceeeeEEEEEEEECCEEEEEEEecCCCccc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGS-------FTT-------SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER   76 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~-------~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~   76 (160)
                      .....++|+++|..++|||||+++|.+..       +..       ......+++.....+.++.....+.+|||||+++
T Consensus       292 ~~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHed  371 (1289)
T 3avx_A          292 RTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHAD  371 (1289)
T ss_dssp             CCCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHH
T ss_pred             ccCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHH
Confidence            34567999999999999999999998631       000       0011112111111223333336789999999999


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCcc--CCChhHHHHHhhhcc
Q 031411           77 FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDESKR--EAPFCLHETILLTVQ  152 (160)
Q Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~~~~--~~~~~~~~~~~~~~~  152 (160)
                      |.......+..+|++|+|+|+++.... ...+++..+...   ++| +++++||+|+.+...  +...++++++..+++
T Consensus       372 F~~~mi~gas~AD~aILVVDAtdGv~~-QTrEhL~ll~~l---gIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G  446 (1289)
T 3avx_A          372 YVKNMITGAAQMDGAILVVAATDGPMP-QTREHILLGRQV---GVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYD  446 (1289)
T ss_dssp             HHHHHHHTSCCCSEEEEEEETTTCSCT-THHHHHHHHHHH---TCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhCCEEEEEEcCCccCcH-HHHHHHHHHHHc---CCCeEEEEEeecccccchhhHHHHHHHHHHHHHhcc
Confidence            988888889999999999999875332 233444444332   677 789999999974211  112345666666554

>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=99.68  E-value=4.4e-16  Score=116.92  Aligned_cols=76  Identities=18%  Similarity=0.314  Sum_probs=67.5

Q ss_pred             EEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHHhc-CCCCcEE
Q 031411           56 TIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTD----------ESSFNNIRNWIRNIEQHA-SDNVNKI  124 (160)
Q Consensus        56 ~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~-~~~~pi~  124 (160)
                      .+.+++  +.+.+||++|++.+...|..++++++++|+|||+++          ..+|+....|+..+.... ..++|++
T Consensus       211 ~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~pii  288 (402)
T 1azs_C          211 KFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVI  288 (402)
T ss_dssp             EEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEE
T ss_pred             EeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEE
Confidence            445555  789999999999999999999999999999999999          889999999999987653 3578999


Q ss_pred             EEEeCCCCC
Q 031411          125 LVGNKADMD  133 (160)
Q Consensus       125 vv~~K~Dl~  133 (160)
                      |++||+|+.
T Consensus       289 LvgNK~DL~  297 (402)
T 1azs_C          289 LFLNKQDLL  297 (402)
T ss_dssp             EEEECHHHH
T ss_pred             EEEEChhhh
Confidence            999999985

>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=99.68  E-value=8.9e-17  Score=119.72  Aligned_cols=136  Identities=14%  Similarity=0.153  Sum_probs=83.5

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeee---EE-------------------------------------
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGID---FK-------------------------------------   53 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~---~~-------------------------------------   53 (160)
                      ...+|+|+|++|||||||+++|.+..+........+..   ..                                     
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~  112 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETD  112 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHH
Confidence            34599999999999999999999976632211111100   00                                     


Q ss_pred             --------------EEEEEECCEEEEEEEecCCCcccc-------------cccchhhccCCcEEEEEEECCChhhHHHH
Q 031411           54 --------------IRTIELDGKRIKLQIWDTAGQERF-------------RTITTAYYRGAMGILLVYDVTDESSFNNI  106 (160)
Q Consensus        54 --------------~~~~~~~~~~~~~~~~D~~g~~~~-------------~~~~~~~~~~~~~~i~v~d~~~~~~~~~~  106 (160)
                                    ...+... ....+.+|||||...+             ..+...++.++|+++++++.++.+...  
T Consensus       113 ~~~g~~~~~s~~~i~l~i~~~-~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--  189 (360)
T 3t34_A          113 RETGRSKAISSVPIHLSIYSP-NVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--  189 (360)
T ss_dssp             HTSCTTCCCCCSCEEEEEEET-TSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--
T ss_pred             HhcCCCCCcccceEEEEEeCC-CCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--
Confidence                          0000111 1135899999997665             445667889999999999876543221  


Q ss_pred             HHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcce
Q 031411          107 RNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQV  153 (160)
Q Consensus       107 ~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~  153 (160)
                      ..|+..+....+.+.|+++|+||+|+.+.. ....+.++.+...++.
T Consensus       190 ~~~~~l~~~~~~~~~~~i~V~nK~Dl~~~~-~~~~~~~~~~~~~~~~  235 (360)
T 3t34_A          190 SDAIKISREVDPSGDRTFGVLTKIDLMDKG-TDAVEILEGRSFKLKY  235 (360)
T ss_dssp             CHHHHHHHHSCTTCTTEEEEEECGGGCCTT-CCSHHHHTTSSSCCSS
T ss_pred             HHHHHHHHHhcccCCCEEEEEeCCccCCCc-ccHHHHHcCccccccC
Confidence            234444444455578999999999986332 2333334433433333

>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=99.68  E-value=1.5e-16  Score=119.75  Aligned_cols=85  Identities=20%  Similarity=0.217  Sum_probs=47.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEE--E-------------------EECC-EEEEEEEecCCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRT--I-------------------ELDG-KRIKLQIWDTAG   73 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~--~-------------------~~~~-~~~~~~~~D~~g   73 (160)
                      ++|+++|.+|+|||||+|+|.+........+..+.+.....  +                   .+++ ..+++.+|||||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            48999999999999999999987633222222222222111  1                   1233 247899999999


Q ss_pred             ccc----ccccch---hhccCCcEEEEEEECCCh
Q 031411           74 QER----FRTITT---AYYRGAMGILLVYDVTDE  100 (160)
Q Consensus        74 ~~~----~~~~~~---~~~~~~~~~i~v~d~~~~  100 (160)
                      ...    ...+..   ..++++|++++|+|+++.
T Consensus        81 ~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTCC
T ss_pred             cccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            753    222222   346899999999999875

>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=99.66  E-value=3.6e-16  Score=115.93  Aligned_cols=72  Identities=13%  Similarity=0.220  Sum_probs=62.6

Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECC----------ChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCC
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVT----------DESSFNNIRNWIRNIEQHA-SDNVNKILVGNKA  130 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~----------~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~  130 (160)
                      ..+.+.+||++|++.+..+|..++++++++|+|||++          +..+++....|+..+.... ..++|++|++||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            5689999999999999999999999999999999998          7889999999998887643 2578999999999


Q ss_pred             CCC
Q 031411          131 DMD  133 (160)
Q Consensus       131 Dl~  133 (160)
                      |+.
T Consensus       261 DL~  263 (354)
T 2xtz_A          261 DIF  263 (354)
T ss_dssp             HHH
T ss_pred             chh
Confidence            984

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.65  E-value=5.6e-16  Score=112.33  Aligned_cols=120  Identities=14%  Similarity=0.173  Sum_probs=75.9

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCc------cccce----------------------eee------------
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTS------FITTI----------------------GID------------   51 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~------~~~~~----------------------~~~------------   51 (160)
                      ....++|+|+|.+|+|||||+|+|.+..+...      ..++.                      +.+            
T Consensus        23 ~~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~  102 (299)
T 2aka_B           23 DLDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDR  102 (299)
T ss_dssp             TCCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHH
Confidence            34568999999999999999999998776311      11210                      000            


Q ss_pred             -----------EEEEEEEECCEEEEEEEecCCCcc-------------cccccchhhccCCcEEE-EEEECCChhhHHHH
Q 031411           52 -----------FKIRTIELDGKRIKLQIWDTAGQE-------------RFRTITTAYYRGAMGIL-LVYDVTDESSFNNI  106 (160)
Q Consensus        52 -----------~~~~~~~~~~~~~~~~~~D~~g~~-------------~~~~~~~~~~~~~~~~i-~v~d~~~~~~~~~~  106 (160)
                                 .....+...+ ...+.+|||||..             .+..+...++..++.++ +++|+++..+....
T Consensus       103 i~g~~~gi~~~~~~~~~~~~~-~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~  181 (299)
T 2aka_B          103 VTGTNKGISPVPINLRVYSPH-VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA  181 (299)
T ss_dssp             HCSSTTCCCSCCEEEEEEETT-CCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHH
T ss_pred             hcccCCCccccceEEEEeCCC-CCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHH
Confidence                       0000001110 2478999999964             23345566777888666 78999875443333


Q ss_pred             HHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411          107 RNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus       107 ~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ..++..+.   ..+.|+++|+||+|+.+.
T Consensus       182 ~~~~~~~~---~~~~~~i~V~NK~Dl~~~  207 (299)
T 2aka_B          182 LKIAKEVD---PQGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHHHHHC---TTCSSEEEEEECGGGSCT
T ss_pred             HHHHHHhC---CCCCeEEEEEEccccCCC
Confidence            33444443   347899999999999643

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.64  E-value=4.7e-16  Score=107.17  Aligned_cols=131  Identities=20%  Similarity=0.260  Sum_probs=76.5

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc----------ccccch
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----------FRTITT   82 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----------~~~~~~   82 (160)
                      ....+++++|++|+|||||++++.+..+.....++.+.......+..++   .+.+||+||...          +.....
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  100 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRALG  100 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHHH
Confidence            4457999999999999999999998764332233333222222333333   467999999742          222222


Q ss_pred             hhc---cCCcEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc-cCCChhHHHHHhhhcc
Q 031411           83 AYY---RGAMGILLVYDVTDESSFN--NIRNWIRNIEQHASDNVNKILVGNKADMDESK-REAPFCLHETILLTVQ  152 (160)
Q Consensus        83 ~~~---~~~~~~i~v~d~~~~~~~~--~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~-~~~~~~~~~~~~~~~~  152 (160)
                      .++   ..++++++++|++.+.+..  .+..|+.      ..++|+++++||+|+.... .+...+.+++++.+.+
T Consensus       101 ~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~------~~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~  170 (210)
T 1pui_A          101 EYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAV------DSNIAVLVLLTKADKLASGARKAQLNMVREAVLAFN  170 (210)
T ss_dssp             HHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHH------HTTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGC
T ss_pred             HHHHhhhcccEEEEEEECCCCCchhHHHHHHHHH------HcCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcC
Confidence            333   4789999999998765442  2333332      1368999999999985321 2222455666665543

>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=99.63  E-value=4e-16  Score=113.99  Aligned_cols=69  Identities=16%  Similarity=0.275  Sum_probs=45.3

Q ss_pred             EEEEEecCCCccc-------------ccccchhhccCCcEEEEEEECCChhhH-HHHHHHHHHHHHhcCCCCcEEEEEeC
Q 031411           64 IKLQIWDTAGQER-------------FRTITTAYYRGAMGILLVYDVTDESSF-NNIRNWIRNIEQHASDNVNKILVGNK  129 (160)
Q Consensus        64 ~~~~~~D~~g~~~-------------~~~~~~~~~~~~~~~i~v~d~~~~~~~-~~~~~~~~~~~~~~~~~~pi~vv~~K  129 (160)
                      ..+.+|||||...             +......++.++|++++++|.++.... .....++..+   ...+.|+++++||
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~---~~~~~~~i~v~NK  207 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEV---DPEGKRTIGVITK  207 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHH---CSSCSSEEEEEEC
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHh---CCCCCcEEEEEcC
Confidence            4689999999653             334456678899999999997443211 1111222222   2347899999999


Q ss_pred             CCCCCC
Q 031411          130 ADMDES  135 (160)
Q Consensus       130 ~Dl~~~  135 (160)
                      +|+.+.
T Consensus       208 ~Dl~~~  213 (315)
T 1jwy_B          208 LDLMDK  213 (315)
T ss_dssp             TTSSCS
T ss_pred             cccCCc
Confidence            999643

>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=99.63  E-value=1.7e-15  Score=112.31  Aligned_cols=84  Identities=19%  Similarity=0.171  Sum_probs=56.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEE---------------EEEEEecCCCccccc--
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKR---------------IKLQIWDTAGQERFR--   78 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~D~~g~~~~~--   78 (160)
                      ++|+++|.+|+|||||+|+|.+........+..+.+.....+.+.+.+               ..+.+||+||..+..  
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~~   82 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASK   82 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCcccccc
Confidence            689999999999999999999876433323322333332334444421               478999999986542  


Q ss_pred             --ccc---hhhccCCcEEEEEEECCC
Q 031411           79 --TIT---TAYYRGAMGILLVYDVTD   99 (160)
Q Consensus        79 --~~~---~~~~~~~~~~i~v~d~~~   99 (160)
                        .+.   ...++++|++++|+|+++
T Consensus        83 ~~gl~~~fl~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           83 GEGLGNKFLANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             HGGGTCCHHHHHHTCSEEEEEEECSC
T ss_pred             cchHHHHHHHHHHhcCeEEEEEecCC
Confidence              222   234789999999999986

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.63  E-value=2e-16  Score=123.51  Aligned_cols=120  Identities=19%  Similarity=0.199  Sum_probs=80.1

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCC---CccccceeeeEEEE--------------------------------
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFT---TSFITTIGIDFKIR--------------------------------   55 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~---~~~~~~~~~~~~~~--------------------------------   55 (160)
                      ..+...+|+|+|.+|+|||||+|+|++..+.   ....+++.......                                
T Consensus        61 ~~~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~  140 (550)
T 2qpt_A           61 DFDGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFL  140 (550)
T ss_dssp             TTSSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCSEEEEECCSSSEEECCC------------------CCC
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccceEEEEEECCcccccCCceeeecCcccHHHHhhhccccc
Confidence            4456789999999999999999999987753   22222221100000                                


Q ss_pred             ----EEEECCE-EEEEEEecCCCccc-----------ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCC
Q 031411           56 ----TIELDGK-RIKLQIWDTAGQER-----------FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD  119 (160)
Q Consensus        56 ----~~~~~~~-~~~~~~~D~~g~~~-----------~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~  119 (160)
                          .+...+. ...+.+|||||...           +...+..++..+|++++|+|+++....+....|+..+..   .
T Consensus       141 ~~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~---~  217 (550)
T 2qpt_A          141 NRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG---H  217 (550)
T ss_dssp             TTEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT---C
T ss_pred             ccceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh---c
Confidence                0000000 02588999999764           334556678899999999999875555556666655543   3


Q ss_pred             CCcEEEEEeCCCCC
Q 031411          120 NVNKILVGNKADMD  133 (160)
Q Consensus       120 ~~pi~vv~~K~Dl~  133 (160)
                      +.|+++|+||+|+.
T Consensus       218 ~~pvilVlNK~Dl~  231 (550)
T 2qpt_A          218 EDKIRVVLNKADMV  231 (550)
T ss_dssp             GGGEEEEEECGGGS
T ss_pred             CCCEEEEEECCCcc
Confidence            57999999999986

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.60  E-value=7.4e-15  Score=114.60  Aligned_cols=129  Identities=13%  Similarity=0.047  Sum_probs=91.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCC----------------------CCCccccceeeeEEEEEEEECCEEEEEEEec
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGS----------------------FTTSFITTIGIDFKIRTIELDGKRIKLQIWD   70 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D   70 (160)
                      .+.-||+|+|..++|||||..+|+...                      .+.+..+..++......+.+++  +.++|+|
T Consensus        29 ~r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~--~~iNlID  106 (548)
T 3vqt_A           29 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRD--RVVNLLD  106 (548)
T ss_dssp             HTEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETT--EEEEEEC
T ss_pred             cccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECC--EEEEEEe
Confidence            456799999999999999999996211                      0122333333434445566677  6799999


Q ss_pred             CCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHH
Q 031411           71 TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETI  147 (160)
Q Consensus        71 ~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~  147 (160)
                      ||||..|.......++-+|++|+|+|+...-..+...-|.....    .++|.+++.||+|..........+++++.
T Consensus       107 TPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~~----~~lp~i~fINK~Dr~~ad~~~~~~~i~~~  179 (548)
T 3vqt_A          107 TPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCRM----RATPVMTFVNKMDREALHPLDVMADIEQH  179 (548)
T ss_dssp             CCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCCEEEEEECTTSCCCCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHHHH----hCCceEEEEecccchhcchhHhhhhhhhh
Confidence            99999999999999999999999999988655555544543333    38899999999999755554444555443

>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=99.60  E-value=4.8e-15  Score=112.05  Aligned_cols=140  Identities=17%  Similarity=0.214  Sum_probs=75.4

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCcc--------ccceeeeEEEEEEEECCEEEEEEEecCCCccccc----
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSF--------ITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR----   78 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~----   78 (160)
                      -....++|+|+|++|+|||||++.|.+..+....        .++.........+...+....+++||++|.....    
T Consensus        27 l~~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~  106 (418)
T 2qag_C           27 KRGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSN  106 (418)
T ss_dssp             C-CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC----------
T ss_pred             ecCCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchh
Confidence            3445688999999999999999999987653111        1122211111112223333578999999965431    


Q ss_pred             ---c------------------cchhhccCCcEEEEEEECCCh-hhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           79 ---T------------------ITTAYYRGAMGILLVYDVTDE-SSFNNIR-NWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        79 ---~------------------~~~~~~~~~~~~i~v~d~~~~-~~~~~~~-~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                         .                  +...++.++++.+++|..... .+++.+. .|+..+.    .++|+++|+||+|+.. 
T Consensus       107 ~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll~-  181 (418)
T 2qag_C          107 CWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----EKVNIIPLIAKADTLT-  181 (418)
T ss_dssp             -CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----TTSEEEEEEESTTSSC-
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh----ccCcEEEEEEcccCcc-
Confidence               1                  122344555554445544322 2344433 5666553    3789999999999863 


Q ss_pred             ccCCCh--hHHHHHhhhcceEE
Q 031411          136 KREAPF--CLHETILLTVQVHL  155 (160)
Q Consensus       136 ~~~~~~--~~~~~~~~~~~~~~  155 (160)
                      ..++..  +++.+++..+++.+
T Consensus       182 ~~ev~~~k~~i~~~~~~~~i~~  203 (418)
T 2qag_C          182 PEECQQFKKQIMKEIQEHKIKI  203 (418)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHHHHHHcCCeE
Confidence            222332  56677777766544

>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=99.58  E-value=1.8e-14  Score=114.77  Aligned_cols=130  Identities=15%  Similarity=0.169  Sum_probs=87.8

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCcc------------------ccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSF------------------ITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      +...+|+++|+.|+|||||+++|.+.......                  ....++......+...+  +.+++|||||+
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~--~~~nliDTpG~   84 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG--HRVFLLDAPGY   84 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT--EEEEEEECCCS
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCC--EEEEEEeCCCc
Confidence            45679999999999999999999843221000                  11223333333444444  68999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc
Q 031411           75 ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQ  152 (160)
Q Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~  152 (160)
                      ..+.......+..+|++++++|+.+...... .+++..+..   .++|+++++||+|+. ..   ..+..+++...++
T Consensus        85 ~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt-~~~~~~~~~---~~ip~ilv~NKiD~~-~~---~~~~~~~l~~~l~  154 (665)
T 2dy1_A           85 GDFVGEIRGALEAADAALVAVSAEAGVQVGT-ERAWTVAER---LGLPRMVVVTKLDKG-GD---YYALLEDLRSTLG  154 (665)
T ss_dssp             GGGHHHHHHHHHHCSEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCEEEEEECGGGC-CC---HHHHHHHHHHHHC
T ss_pred             cchHHHHHHHHhhcCcEEEEEcCCcccchhH-HHHHHHHHH---ccCCEEEEecCCchh-hh---HHHHHHHHHHHhC
Confidence            9988888889999999999999876543322 244444433   378999999999986 22   3333444544443

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.58  E-value=7.3e-15  Score=117.53  Aligned_cols=118  Identities=18%  Similarity=0.229  Sum_probs=78.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceee----e----EE-E-----------------------------
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGI----D----FK-I-----------------------------   54 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~----~----~~-~-----------------------------   54 (160)
                      ..++|+|+|.+|+|||||+|+|++..... ...+++..    .    .. .                             
T Consensus        68 ~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~~  147 (695)
T 2j69_A           68 GVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEAK  147 (695)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHHH
Confidence            46899999999999999999999866432 22222210    0    00 0                             


Q ss_pred             ---------------EEEEECCEE--EEEEEecCCCccc---ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHH
Q 031411           55 ---------------RTIELDGKR--IKLQIWDTAGQER---FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE  114 (160)
Q Consensus        55 ---------------~~~~~~~~~--~~~~~~D~~g~~~---~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~  114 (160)
                                     ..+......  ..+.+|||||...   .......++..+|++++|+|++++.+......|...+.
T Consensus       148 ~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~  227 (695)
T 2j69_A          148 KLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIK  227 (695)
T ss_dssp             HHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTT
T ss_pred             HHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHH
Confidence                           000010000  2589999999654   33445577889999999999998877766655554443


Q ss_pred             HhcCCCCcEEEEEeCCCCCC
Q 031411          115 QHASDNVNKILVGNKADMDE  134 (160)
Q Consensus       115 ~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .   .+.|+++|+||+|+.+
T Consensus       228 ~---~~~~iiiVlNK~Dl~~  244 (695)
T 2j69_A          228 G---RGLTVFFLVNAWDQVR  244 (695)
T ss_dssp             T---SCCCEEEEEECGGGGG
T ss_pred             h---hCCCEEEEEECccccc
Confidence            2   3678999999999863

>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=99.57  E-value=1.2e-14  Score=109.82  Aligned_cols=137  Identities=15%  Similarity=0.133  Sum_probs=88.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc----ccccchh---hccCCc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----FRTITTA---YYRGAM   89 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----~~~~~~~---~~~~~~   89 (160)
                      .++++|++|+|||||++.|.+........+..+.......+..++ ...+.+||+||...    +..+...   ....++
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~  237 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIARTR  237 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHHH
Confidence            478999999999999999998643211112222233334445543 24689999999632    2222222   245799


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc--eEEEEe
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHAS--DNVNKILVGNKADMDESKREAPFCLHETILLTVQ--VHLVIL  158 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~  158 (160)
                      .++.++|++ ...++.+..|..++..+..  .+.|.++++||+|+...   ...++.++...+.+  +.++||
T Consensus       238 ~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~---~~~~~l~~~l~~~g~~vi~iSA  306 (416)
T 1udx_A          238 VLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE---EAVKALADALAREGLAVLPVSA  306 (416)
T ss_dssp             EEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH---HHHHHHHHHHHTTTSCEEECCT
T ss_pred             hhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH---HHHHHHHHHHHhcCCeEEEEEC
Confidence            999999998 6677788878777765432  25689999999999633   23444555555444  344443

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.55  E-value=3.9e-14  Score=105.58  Aligned_cols=118  Identities=16%  Similarity=0.126  Sum_probs=83.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccccc----c---cchhhc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR----T---ITTAYY   85 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~----~---~~~~~~   85 (160)
                      ....+|.++|.||+|||||+|+|++........+..+.+.....+.+.+  .+++++|+||-....    .   .....+
T Consensus        70 ~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~--~~i~l~D~pGl~~~a~~~~~~g~~~l~~i  147 (376)
T 4a9a_A           70 TGVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKG--AKIQMLDLPGIIDGAKDGRGRGKQVIAVA  147 (376)
T ss_dssp             CSSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETT--EEEEEEECGGGCCC-----CHHHHHHHHH
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCC--cEEEEEeCCCccCCchhhhHHHHHHHHHH
Confidence            3457999999999999999999998776656667777778888888888  578999999953211    1   122346


Q ss_pred             cCCcEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           86 RGAMGILLVYDVTDESS-FNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.+|++++|+|++++.. .+.+...+..+.... ...|..++.||.|..
T Consensus       148 ~~ad~il~vvD~~~p~~~~~~i~~EL~~~~~~l-~~k~~~i~~nK~d~~  195 (376)
T 4a9a_A          148 RTCNLLFIILDVNKPLHHKQIIEKELEGVGIRL-NKTPPDILIKKKEKG  195 (376)
T ss_dssp             HHCSEEEEEEETTSHHHHHHHHHHHHHHTTEEE-TCCCCCEEEEECSSS
T ss_pred             HhcCccccccccCccHHHHHHHHHHHHHhhHhh-ccCChhhhhhHhhhh
Confidence            78999999999998643 233333332222111 245778889999963

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.54  E-value=2.2e-15  Score=109.72  Aligned_cols=141  Identities=21%  Similarity=0.263  Sum_probs=71.2

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcC-CCCCcc--------ccceeeeEEEEEEEECCEEEEEEEecCCCc-------
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDG-SFTTSF--------ITTIGIDFKIRTIELDGKRIKLQIWDTAGQ-------   74 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~-~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~-------   74 (160)
                      -....++|+++|++|+|||||+++|.+. .++...        .++............++....+++||++|.       
T Consensus        14 l~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~   93 (301)
T 2qnr_A           14 KKGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCR   93 (301)
T ss_dssp             ----CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC---------
T ss_pred             EcCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcH
Confidence            3455689999999999999999998875 433222        111111111112222333468999999997       


Q ss_pred             ccccccch-------hhccC-------------CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           75 ERFRTITT-------AYYRG-------------AMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        75 ~~~~~~~~-------~~~~~-------------~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +.+..+..       .++..             +++++++.+.+. .+++.+..  ..+.... ...|+++|+||+|+..
T Consensus        94 e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~-~~Ld~~~~--~~l~~l~-~~~~iilV~~K~Dl~~  169 (301)
T 2qnr_A           94 DCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFG-HGLKPLDV--AFMKAIH-NKVNIVPVIAKADTLT  169 (301)
T ss_dssp             --CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSS-SSCCHHHH--HHHHHHT-TTSCEEEEECCGGGSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcc-cCCCHHHH--HHHHHHH-hcCCEEEEEEeCCCCC
Confidence            44544443       33322             233444444321 12333321  2222222 3679999999999863


Q ss_pred             Cc-cCCChhHHHHHhhhcceEE
Q 031411          135 SK-REAPFCLHETILLTVQVHL  155 (160)
Q Consensus       135 ~~-~~~~~~~~~~~~~~~~~~~  155 (160)
                      .. .....+++++++.++++.+
T Consensus       170 ~~e~~~~~~~~~~~~~~~~~~~  191 (301)
T 2qnr_A          170 LKERERLKKRILDEIEEHNIKI  191 (301)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHHHHHHHHHHHHHcCCeE
Confidence            22 2233467888888887654

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.52  E-value=9.4e-14  Score=111.46  Aligned_cols=131  Identities=16%  Similarity=0.086  Sum_probs=89.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC--------CC----------CCccccceeeeEEEEEEEECC-----EEEEEEEe
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG--------SF----------TTSFITTIGIDFKIRTIELDG-----KRIKLQIW   69 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~--------~~----------~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~   69 (160)
                      ++.-||+|+|..++|||||..+|+..        ..          ..+..+..++......+.+.+     ..+.++++
T Consensus        11 ~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlI   90 (709)
T 4fn5_A           11 NRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVI   90 (709)
T ss_dssp             GGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEE
T ss_pred             HHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEE
Confidence            56789999999999999999999631        10          112222333333333344321     24789999


Q ss_pred             cCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHH
Q 031411           70 DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETI  147 (160)
Q Consensus        70 D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~  147 (160)
                      |||||..|.......++-+|++|+|+|+...-..+...-|.+....    ++|.+++.||+|..........+++++.
T Consensus        91 DTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~----~lp~i~~iNKiDr~~a~~~~~~~ei~~~  164 (709)
T 4fn5_A           91 DTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKY----GVPRIVYVNKMDRQGANFLRVVEQIKKR  164 (709)
T ss_dssp             CCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHH----TCCEEEEEECSSSTTCCHHHHHHHHHHH
T ss_pred             eCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHc----CCCeEEEEccccccCccHHHHHHHhhhh
Confidence            9999999999999999999999999999876544444444444433    8899999999999755555555555543

>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=99.52  E-value=2.9e-14  Score=106.05  Aligned_cols=93  Identities=20%  Similarity=0.234  Sum_probs=69.7

Q ss_pred             EEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHHhc-CCCCc
Q 031411           54 IRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTD----------ESSFNNIRNWIRNIEQHA-SDNVN  122 (160)
Q Consensus        54 ~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~-~~~~p  122 (160)
                      ...+..++  +.+.+||++|++.+...|..++++++++|+|||+++          ..+++....|+..+.... ..++|
T Consensus       193 ~~~~~~~~--~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~p  270 (362)
T 1zcb_A          193 EYDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVS  270 (362)
T ss_dssp             EEEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSE
T ss_pred             EEEeeeCC--eEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCC
Confidence            34555665  789999999999999999999999999999999999          678999999999887642 35799


Q ss_pred             EEEEEeCCCCCCCc---------------cCCChhHHHHHh
Q 031411          123 KILVGNKADMDESK---------------REAPFCLHETIL  148 (160)
Q Consensus       123 i~vv~~K~Dl~~~~---------------~~~~~~~~~~~~  148 (160)
                      +++++||+|+.++.               ..+..+++.+++
T Consensus       271 iILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~  311 (362)
T 1zcb_A          271 IILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFL  311 (362)
T ss_dssp             EEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHH
T ss_pred             EEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHH
Confidence            99999999985221               126678888876

>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=99.49  E-value=2.4e-14  Score=106.36  Aligned_cols=118  Identities=17%  Similarity=0.158  Sum_probs=68.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCcc------cccee--------------------------------------
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSF------ITTIG--------------------------------------   49 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~------~~~~~--------------------------------------   49 (160)
                      ...+|+|+|.+++|||||+|+|.+..+....      .++..                                      
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i~  109 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  109 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHhc
Confidence            4579999999999999999999987763111      11100                                      


Q ss_pred             -----eeE--EEEEEEECCEEEEEEEecCCCcc-------------cccccchhhccCCc-EEEEEEECCChhhHHHHHH
Q 031411           50 -----IDF--KIRTIELDGKRIKLQIWDTAGQE-------------RFRTITTAYYRGAM-GILLVYDVTDESSFNNIRN  108 (160)
Q Consensus        50 -----~~~--~~~~~~~~~~~~~~~~~D~~g~~-------------~~~~~~~~~~~~~~-~~i~v~d~~~~~~~~~~~~  108 (160)
                           +..  ....+... ....+.+|||||..             .+..+...++...+ +++++.+++....-.....
T Consensus       110 g~~~gi~~~~~~~~i~~~-~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~  188 (353)
T 2x2e_A          110 GTNKGISPVPINLRVYSP-HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  188 (353)
T ss_dssp             TTTTCCCCCCEEEEEEET-TCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHH
T ss_pred             ccCCCcccCceEEEEecC-CCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHH
Confidence                 000  00000111 12468999999953             23344555665555 5555666654222112222


Q ss_pred             HHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411          109 WIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus       109 ~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ++   ....+.+.|+++|+||+|+.+.
T Consensus       189 i~---~~~~~~~~~~i~V~NK~Dl~~~  212 (353)
T 2x2e_A          189 VA---KEVDPQGQRTIGVITKLDLMDE  212 (353)
T ss_dssp             HH---HHHCTTCTTEEEEEECGGGSCT
T ss_pred             HH---HHhCcCCCceEEEeccccccCc
Confidence            33   3334457899999999999643

>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=99.48  E-value=1.1e-13  Score=103.03  Aligned_cols=84  Identities=19%  Similarity=0.194  Sum_probs=53.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECC-------------------EEEEEEEecCCCccc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG-------------------KRIKLQIWDTAGQER   76 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~~~D~~g~~~   76 (160)
                      ++|+++|.+|+|||||+++|.+........+..++..+.....+.+                   ....+.+||+||..+
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~~   81 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLVK   81 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCccc
Confidence            5799999999999999999997542211111111112222222221                   124789999999765


Q ss_pred             cc----ccc---hhhccCCcEEEEEEECCC
Q 031411           77 FR----TIT---TAYYRGAMGILLVYDVTD   99 (160)
Q Consensus        77 ~~----~~~---~~~~~~~~~~i~v~d~~~   99 (160)
                      ..    .+.   ...++.+|++++|+|+++
T Consensus        82 ~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           82 GAHKGEGLGNQFLAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             CCCSSSCTTHHHHHHHHTCSEEEEEEECCC
T ss_pred             cccccchHHHHHHHHHHhCCEEEEEEECCC
Confidence            42    222   234789999999999985

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.48  E-value=3.8e-15  Score=108.43  Aligned_cols=111  Identities=17%  Similarity=0.134  Sum_probs=85.9

Q ss_pred             HHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChh-hHHHHH
Q 031411           30 CLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDES-SFNNIR  107 (160)
Q Consensus        30 tli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~-~~~~~~  107 (160)
                      +++.++..+.|. ..+.++.+..+ ...+..++   ++.+||+  ++++..++..+++++|++++|||++++. +++.+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~-~~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRV-EYTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEE-EEECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEE-EEEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            677888888887 77888888433 33322233   6899999  8899999999999999999999999987 789999


Q ss_pred             HHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc
Q 031411          108 NWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQ  152 (160)
Q Consensus       108 ~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~  152 (160)
                      .|+..+..   .++|+++++||+|+.+. ..  .+++++++..++
T Consensus       106 ~~l~~~~~---~~~piilv~NK~DL~~~-~~--v~~~~~~~~~~~  144 (301)
T 1u0l_A          106 KFLVLAEK---NELETVMVINKMDLYDE-DD--LRKVRELEEIYS  144 (301)
T ss_dssp             HHHHHHHH---TTCEEEEEECCGGGCCH-HH--HHHHHHHHHHHT
T ss_pred             HHHHHHHH---CCCCEEEEEeHHHcCCc-hh--HHHHHHHHHHHh
Confidence            99987755   37899999999999632 22  245666666654

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.42  E-value=2.1e-14  Score=113.92  Aligned_cols=125  Identities=17%  Similarity=0.146  Sum_probs=85.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc--CCC----------------CCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD--GSF----------------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF   77 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~--~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~   77 (160)
                      -||+|+|..++|||||..+|+.  +..                +.+..+..++......+.+++  +.++++|||||..|
T Consensus         3 RNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~--~~iNlIDTPGH~DF   80 (638)
T 3j25_A            3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWEN--TKVNIIDTPGHMDF   80 (638)
T ss_dssp             CCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSS--CBCCCEECCCSSST
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECC--EEEEEEECCCcHHH
Confidence            4799999999999999999963  111                011122223333333344455  57899999999999


Q ss_pred             cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHH
Q 031411           78 RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHET  146 (160)
Q Consensus        78 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~  146 (160)
                      .......++-+|++|+|+|+...-.-+...-|......    ++|.+++.||+|..........+++++
T Consensus        81 ~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~~~----~lp~i~~INKmDr~~a~~~~~~~~i~~  145 (638)
T 3j25_A           81 LAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKM----GIPTIFFINKIDQNGIDLSTVYQDIKE  145 (638)
T ss_dssp             HHHHHHHHTTCSEEECCEESSCTTCSHHHHHHHHHHHH----TCSCEECCEECCSSSCCSHHHHHHHHH
T ss_pred             HHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHHHc----CCCeEEEEeccccccCCHHHHHHHHHH
Confidence            99999999999999999999875443443334433332    788999999999875554444444433

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.39  E-value=2.5e-13  Score=101.77  Aligned_cols=90  Identities=16%  Similarity=0.165  Sum_probs=52.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCE---------------EEEEEEecCCCcccc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGK---------------RIKLQIWDTAGQERF   77 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~D~~g~~~~   77 (160)
                      ....+|+++|.+|+|||||+|+|.+........++.+.++....+.+.+.               ...+.+||+||....
T Consensus        20 ~~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~   99 (396)
T 2ohf_A           20 GTSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKG   99 (396)
T ss_dssp             SSCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC----
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccc
Confidence            44579999999999999999999987654444444455555555555442               125899999997654


Q ss_pred             cc-------cchhhccCCcEEEEEEECCChhh
Q 031411           78 RT-------ITTAYYRGAMGILLVYDVTDESS  102 (160)
Q Consensus        78 ~~-------~~~~~~~~~~~~i~v~d~~~~~~  102 (160)
                      ..       .+...++++|++++|+|+++.++
T Consensus       100 as~~~glg~~~l~~ir~aD~Il~VvD~~~~~~  131 (396)
T 2ohf_A          100 AHNGQGLGNAFLSHISACDGIFHLTRAFEDDD  131 (396)
T ss_dssp             -------CCHHHHHHHTSSSEEEEEEC-----
T ss_pred             cchhhHHHHHHHHHHHhcCeEEEEEecCCCcc
Confidence            32       34566789999999999986443

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.25  E-value=1.7e-12  Score=90.00  Aligned_cols=125  Identities=17%  Similarity=0.121  Sum_probs=68.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeE--------------EEEEEEE----------------CCEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDF--------------KIRTIEL----------------DGKRI   64 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~--------------~~~~~~~----------------~~~~~   64 (160)
                      ..+++++|.+|+|||||+++|...............++              ....+..                .....
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSDC  109 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTTC
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCCC
Confidence            46899999999999999999986421111000000000              0011111                00124


Q ss_pred             EEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHH
Q 031411           65 KLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLH  144 (160)
Q Consensus        65 ~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~  144 (160)
                      .+.+||++|+...   ...+....+.+++++|+.....  ....+...      .+.|+++++||+|+.+ ......++.
T Consensus       110 d~iiidt~G~~~~---~~~~~~~~~~~i~vvd~~~~~~--~~~~~~~~------~~~~~iiv~NK~Dl~~-~~~~~~~~~  177 (221)
T 2wsm_A          110 DLLLIENVGNLIC---PVDFDLGENYRVVMVSVTEGDD--VVEKHPEI------FRVADLIVINKVALAE-AVGADVEKM  177 (221)
T ss_dssp             SEEEEEEEEBSSG---GGGCCCSCSEEEEEEEGGGCTT--HHHHCHHH------HHTCSEEEEECGGGHH-HHTCCHHHH
T ss_pred             CEEEEeCCCCCCC---CchhccccCcEEEEEeCCCcch--hhhhhhhh------hhcCCEEEEecccCCc-chhhHHHHH
Confidence            6788988884110   0111135688999999876432  11111111      1468899999999863 223455666


Q ss_pred             HHHhhhc
Q 031411          145 ETILLTV  151 (160)
Q Consensus       145 ~~~~~~~  151 (160)
                      .+++.+.
T Consensus       178 ~~~~~~~  184 (221)
T 2wsm_A          178 KADAKLI  184 (221)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            6666543

>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=99.23  E-value=1e-12  Score=97.68  Aligned_cols=59  Identities=19%  Similarity=0.170  Sum_probs=41.1

Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.+.+|||||...   .....+..+|++++|+|....+..+.+..+        -...|+++++||+|+.
T Consensus       172 ~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~~--------~~~~p~ivVlNK~Dl~  230 (355)
T 3p32_A          172 FDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKKG--------VLELADIVVVNKADGE  230 (355)
T ss_dssp             CCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCTT--------SGGGCSEEEEECCCGG
T ss_pred             CCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHHh--------HhhcCCEEEEECCCCc
Confidence            5789999999432   233445889999999998765544332211        1135899999999986

>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=99.21  E-value=8.7e-11  Score=94.36  Aligned_cols=118  Identities=16%  Similarity=0.161  Sum_probs=70.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-Cccccceee------------------------------------------
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGI------------------------------------------   50 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~------------------------------------------   50 (160)
                      ...+|+|+|..++|||||+|.|.+..+. ......+..                                          
T Consensus        50 ~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~~  129 (772)
T 3zvr_A           50 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  129 (772)
T ss_dssp             CCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhhc
Confidence            4569999999999999999999987652 111100000                                          


Q ss_pred             --------eEEEEEEEECCEEEEEEEecCCCccc-------------ccccchhhc-cCCcEEEEEEECCChhhHHHHHH
Q 031411           51 --------DFKIRTIELDGKRIKLQIWDTAGQER-------------FRTITTAYY-RGAMGILLVYDVTDESSFNNIRN  108 (160)
Q Consensus        51 --------~~~~~~~~~~~~~~~~~~~D~~g~~~-------------~~~~~~~~~-~~~~~~i~v~d~~~~~~~~~~~~  108 (160)
                              +.....+...+ ..++.|+||||-..             +..+...++ ..+|++++|+|++....-.....
T Consensus       130 g~~~~is~~~i~l~I~~P~-~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~  208 (772)
T 3zvr_A          130 GTNKGISPVPINLRVYSPH-VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  208 (772)
T ss_dssp             CSTTCCCSCCEEEEEEETT-CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHH
T ss_pred             CCCCcccccceEEEEecCC-CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHH
Confidence                    00011111111 12578999999433             122233333 57899999999986432222222


Q ss_pred             HHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411          109 WIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus       109 ~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ++..+   ...+.|+++|+||+|+.+.
T Consensus       209 ll~~L---~~~g~pvIlVlNKiDlv~~  232 (772)
T 3zvr_A          209 IAKEV---DPQGQRTIGVITKLDLMDE  232 (772)
T ss_dssp             HHHHH---CTTCSSEEEEEECTTSSCT
T ss_pred             HHHHH---HhcCCCEEEEEeCcccCCc
Confidence            33333   3347899999999998643

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.17  E-value=5.5e-14  Score=97.90  Aligned_cols=29  Identities=21%  Similarity=0.342  Sum_probs=24.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTT   42 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~   42 (160)
                      ...+|+++|.+|||||||++++....+..
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~   65 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDK   65 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            35899999999999999999999765443

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.17  E-value=7.7e-11  Score=87.38  Aligned_cols=59  Identities=15%  Similarity=0.165  Sum_probs=35.9

Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.+.++||+|....   .......+|++++++|++.+...+.+..   .+     ...|.++++||+|+.
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i-----l~~~~ivVlNK~Dl~  225 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI-----IEMADLVAVTKSDGD  225 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGG
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH-----HhcCCEEEEeeecCC
Confidence            46899999995321   2345678999999999976543222211   11     145789999999985

>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=99.07  E-value=2.8e-10  Score=85.34  Aligned_cols=89  Identities=19%  Similarity=0.212  Sum_probs=62.3

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCEE---------------EEEEEecCCCc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGKR---------------IKLQIWDTAGQ   74 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~D~~g~   74 (160)
                      ......+++++|++|+|||||+|.|.+... .....++.+.++....+.+.+.+               ..+.+||+||.
T Consensus        16 ~v~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl   95 (392)
T 1ni3_A           16 RPGNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGL   95 (392)
T ss_dssp             SSSSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGG
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEecccc
Confidence            334457999999999999999999998665 44444444455555555555411               35889999995


Q ss_pred             cc-------ccccchhhccCCcEEEEEEECCC
Q 031411           75 ER-------FRTITTAYYRGAMGILLVYDVTD   99 (160)
Q Consensus        75 ~~-------~~~~~~~~~~~~~~~i~v~d~~~   99 (160)
                      ..       ........++.+|++++++|+.+
T Consensus        96 ~~~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           96 TKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccCCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            43       22233445688999999999864

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=99.02  E-value=2.4e-10  Score=81.90  Aligned_cols=24  Identities=29%  Similarity=0.565  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++++|++|+|||||++.|.+.
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            579999999999999999999874

>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=99.00  E-value=1e-10  Score=86.49  Aligned_cols=59  Identities=20%  Similarity=0.202  Sum_probs=37.4

Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.+.+|||||......   .....+|++++|+|++..+.++.+..   ..     .+.|.++++||+|+.
T Consensus       149 ~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~---~~-----~~~p~ivv~NK~Dl~  207 (341)
T 2p67_A          149 YDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKK---GL-----MEVADLIVINKDDGD  207 (341)
T ss_dssp             CSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCH---HH-----HHHCSEEEECCCCTT
T ss_pred             CCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHH---hh-----hcccCEEEEECCCCC
Confidence            5789999999654332   24689999999999975543221111   00     135789999999996

>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=98.99  E-value=5.6e-10  Score=79.20  Aligned_cols=69  Identities=14%  Similarity=-0.080  Sum_probs=40.1

Q ss_pred             EEEEEecCCCcccccccch------hhccCCcEEEEEEECCChhhHHHHHHHHHH-HHHhcCCCCcEEEEEeCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITT------AYYRGAMGILLVYDVTDESSFNNIRNWIRN-IEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~------~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~-~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.+.+|||||.........      ..+.+ +++++++|+............... .......+.|+++++||+|+.
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~  184 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLL  184 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEeccccc
Confidence            4789999999865432221      23456 888888887543222222111111 111111267999999999986

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.89  E-value=2.1e-10  Score=85.66  Aligned_cols=109  Identities=16%  Similarity=0.176  Sum_probs=65.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC------CCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc--------cc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG------SFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT--------IT   81 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~--------~~   81 (160)
                      .+++++|.+|+|||||+|+|.+.      .......+..+.+  ......+.   .+.++||||-.....        ..
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~--~~~~~~~~---~~~liDtPG~~~~~~~~~~l~~~~l  237 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLD--MIEIPLES---GATLYDTPGIINHHQMAHFVDARDL  237 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCE--EEEEECST---TCEEEECCSCCCCSSGGGGSCTTTH
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEe--eEEEEeCC---CeEEEeCCCcCcHHHHHHHHhHHHH
Confidence            47999999999999999999975      2222223333322  23344443   378999999432221        11


Q ss_pred             hhhc--cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           82 TAYY--RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        82 ~~~~--~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ...+  ...+.++++++....--+..+.    .+......+.|+++++||.|..
T Consensus       238 ~~~~~~~~i~~~~~~l~~~~~~~~g~l~----~l~~l~~~~~~~~~v~~k~d~~  287 (369)
T 3ec1_A          238 KIITPKREIHPRVYQLNEGQTLFFGGLA----RLDYIKGGRRSFVCYMANELTV  287 (369)
T ss_dssp             HHHSCSSCCCCEEEEECTTEEEEETTTE----EEEEEESSSEEEEEEECTTSCE
T ss_pred             HHHhcccccCceEEEEcCCceEEECCEE----EEEEccCCCceEEEEecCCccc
Confidence            1222  5688999999884321111110    0222223468999999999975

>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=98.88  E-value=4.1e-09  Score=76.65  Aligned_cols=78  Identities=15%  Similarity=0.099  Sum_probs=59.7

Q ss_pred             cccccccchhhccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCC-hhHHHHHhhhc
Q 031411           74 QERFRTITTAYYRGAMGILLVYDVTDES-SFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAP-FCLHETILLTV  151 (160)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~-~~~~~~~~~~~  151 (160)
                      ++++..+...++.++|++++|+|++++. +++.+.+|+..+..   .++|+++++||+|+.+.. ++. .++..+++.+.
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~~-~v~~~~~~~~~~~~~  141 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNEE-EKKELERWISIYRDA  141 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHH-HHHHHHHHHHHHHHT
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCcc-ccHHHHHHHHHHHHC
Confidence            6777888888999999999999999886 88889999987654   478999999999996322 222 45566666655


Q ss_pred             ceEE
Q 031411          152 QVHL  155 (160)
Q Consensus       152 ~~~~  155 (160)
                      +..+
T Consensus       142 g~~~  145 (302)
T 2yv5_A          142 GYDV  145 (302)
T ss_dssp             TCEE
T ss_pred             CCeE
Confidence            5433

>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=98.88  E-value=3.7e-09  Score=79.95  Aligned_cols=60  Identities=23%  Similarity=0.375  Sum_probs=34.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCcc----ccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSF----ITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      .++++|+|++|+|||||++.|.+..+....    .+..............+-...++++|++|-
T Consensus        42 i~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~  105 (427)
T 2qag_B           42 CFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGF  105 (427)
T ss_dssp             EEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhh
Confidence            367999999999999999999986432111    111111111111121222236889998874

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=98.84  E-value=1.9e-09  Score=73.86  Aligned_cols=73  Identities=7%  Similarity=-0.021  Sum_probs=45.4

Q ss_pred             CCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHH---HHhc--CCCCcEEEEEeCC-CCCCCccCCChhHH
Q 031411           71 TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI---EQHA--SDNVNKILVGNKA-DMDESKREAPFCLH  144 (160)
Q Consensus        71 ~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~---~~~~--~~~~pi~vv~~K~-Dl~~~~~~~~~~~~  144 (160)
                      .+||.++..+|..++.++|++|+|+|++|.+.++ .++.+.++   ....  ..+.|++|++||. |+++.....+..+.
T Consensus       109 ~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~Ams~~EI~e~  187 (227)
T 3l82_B          109 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAHE  187 (227)
T ss_dssp             --------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCBCCHHHHHHH
T ss_pred             cCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCCCCHHHHHHH
Confidence            3478899999999999999999999999986554 44444333   2222  2578999999995 78644443333333

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.82  E-value=2.9e-09  Score=78.52  Aligned_cols=59  Identities=19%  Similarity=0.135  Sum_probs=35.3

Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ..+.++||+|.....   ......+|++++++|....+..+.+..++   .     ..+.+++.||+|+.
T Consensus       148 ~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i~~~i---~-----~~~~ivvlNK~Dl~  206 (337)
T 2qm8_A          148 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKGI---F-----ELADMIAVNKADDG  206 (337)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTTH---H-----HHCSEEEEECCSTT
T ss_pred             CCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHHHHHH---h-----ccccEEEEEchhcc
Confidence            578999999964322   23457899999999986543222121111   1     12456777999974

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.79  E-value=1.2e-09  Score=81.54  Aligned_cols=109  Identities=14%  Similarity=0.146  Sum_probs=62.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC-------CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc----cch--
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT-------TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT----ITT--   82 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~----~~~--   82 (160)
                      .+++++|.+|+|||||+|+|.+....       ....+..+  .....+...+   .+.++||||-.....    +..  
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT--~~~~~~~~~~---~~~liDtPG~~~~~~~~~~l~~~~  235 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTT--LDLIDIPLDE---ESSLYDTPGIINHHQMAHYVGKQS  235 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC------CEEEEESSS---SCEEEECCCBCCTTSGGGGSCHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCee--cceEEEEecC---CeEEEeCCCcCcHHHHHHHhhHHH
Confidence            47999999999999999999875211       11222222  2222333343   278999999532221    111  


Q ss_pred             --hh--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           83 --AY--YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        83 --~~--~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                        ..  ....+.++++++.....-+..+.    .+......+.|+++++||.|..
T Consensus       236 l~~~~~~~~i~~~~~~l~~~~~~~~g~l~----~~d~l~~~~~~~~~v~nk~d~~  286 (368)
T 3h2y_A          236 LKLITPTKEIKPMVFQLNEEQTLFFSGLA----RFDYVSGGRRAFTCHFSNRLTI  286 (368)
T ss_dssp             HHHHSCSSCCCCEEEEECTTEEEEETTTE----EEEEEESSSEEEEEEECTTSCE
T ss_pred             HHHhccccccCceEEEEcCCCEEEEcceE----EEEEecCCCceEEEEecCcccc
Confidence              11  25678888888873211011110    0122223467999999999975

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.61  E-value=4.2e-08  Score=70.61  Aligned_cols=58  Identities=28%  Similarity=0.354  Sum_probs=35.9

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE   75 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~   75 (160)
                      +..++++++|.+|+|||||+|+|.+.... ....+..+.+.  ..+..+.   .+.+|||||-.
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~g~T~~~--~~~~~~~---~~~l~DtpG~~  176 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQ--QWVKVGK---ELELLDTPGIL  176 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC--------------CCEEETT---TEEEEECCCCC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeecCCCCCeeeee--EEEEeCC---CEEEEECcCcC
Confidence            45589999999999999999999976532 22222222221  1223333   57899999954

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.58  E-value=2.1e-08  Score=71.51  Aligned_cols=57  Identities=23%  Similarity=0.344  Sum_probs=34.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER   76 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~   76 (160)
                      ++++++|.+|+|||||+|+|.+...... .+..+.+.....+..+.   .+.+|||||...
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~~---~~~l~DtpG~~~  156 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSV-GAQPGITKGIQWFSLEN---GVKILDTPGILY  156 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECTT---SCEEESSCEECC
T ss_pred             hheEEeCCCCCCHHHHHHHHhccccccc-CCCCCCccceEEEEeCC---CEEEEECCCccc
Confidence            6999999999999999999998654321 11112111111222232   578999999653

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=98.53  E-value=2e-08  Score=71.98  Aligned_cols=71  Identities=4%  Similarity=-0.060  Sum_probs=48.8

Q ss_pred             CCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHH---HHH-Hhc-CCCCcEEEEEeC-CCCCCCccCCChh
Q 031411           71 TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIR---NIE-QHA-SDNVNKILVGNK-ADMDESKREAPFC  142 (160)
Q Consensus        71 ~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~---~~~-~~~-~~~~pi~vv~~K-~Dl~~~~~~~~~~  142 (160)
                      .+||+.+...|..++.++|++|+|+|++|.+.++ .++.+.   .+. ... ..+.|++|++|| .|+++.....+..
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~Ams~~EI~  270 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLA  270 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCBCCHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCCCCHHHHH
Confidence            4678899999999999999999999999987655 333332   222 221 358999999996 5886444433333

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.47  E-value=1.3e-07  Score=73.04  Aligned_cols=113  Identities=16%  Similarity=0.178  Sum_probs=61.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc------CCCC-Cc---cccc-----------eeeeEEEEEEE-------------E
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD------GSFT-TS---FITT-----------IGIDFKIRTIE-------------L   59 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~------~~~~-~~---~~~~-----------~~~~~~~~~~~-------------~   59 (160)
                      ....|+++|.+|+||||+++.|..      .... ..   +.+.           .++........             .
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~~  179 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEKF  179 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHHH
Confidence            356899999999999999999982      2110 00   0000           01111110000             0


Q ss_pred             CCEEEEEEEecCCCcccccc-cchh---h--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEeCCCC
Q 031411           60 DGKRIKLQIWDTAGQERFRT-ITTA---Y--YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNK-ILVGNKADM  132 (160)
Q Consensus        60 ~~~~~~~~~~D~~g~~~~~~-~~~~---~--~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi-~vv~~K~Dl  132 (160)
                      ....+.+.++||||...... +...   .  ...+|.+++|+|+........   ....+..    .+|+ .++.||.|.
T Consensus       180 ~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~---~a~~~~~----~~~i~gvVlNK~D~  252 (504)
T 2j37_W          180 KNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEA---QAKAFKD----KVDVASVIVTKLDG  252 (504)
T ss_dssp             HHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHH---HHHHHHH----HHCCCCEEEECTTS
T ss_pred             HHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHH---HHHHHHh----hcCceEEEEeCCcc
Confidence            00125789999999653221 1111   1  227899999999986432111   1222222    2464 788899998


Q ss_pred             C
Q 031411          133 D  133 (160)
Q Consensus       133 ~  133 (160)
                      .
T Consensus       253 ~  253 (504)
T 2j37_W          253 H  253 (504)
T ss_dssp             C
T ss_pred             c
Confidence            6

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.27  E-value=4.4e-07  Score=71.37  Aligned_cols=62  Identities=19%  Similarity=0.201  Sum_probs=38.5

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCcc-----ccceeeeEEEEEEEE-CCEEEEEEEecCCCcc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSF-----ITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQE   75 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~-----~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~   75 (160)
                      ....++|+|+|.+|+|||||+|+|.+....-..     ..+.+  ........ ......+.++||||-.
T Consensus        35 ~~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~g--i~~~~~~~~~~~~~~i~LiDTpGi~  102 (592)
T 1f5n_A           35 TQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKG--IWMWCVPHPKKPGHILVLLDTEGLG  102 (592)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCS--EEEEEEECSSSTTCEEEEEEECCBC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeE--EEEeecccccCCCceEEEecCCCcC
Confidence            345689999999999999999999986532111     11122  11111111 1112468999999954

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=98.18  E-value=5.1e-06  Score=62.77  Aligned_cols=109  Identities=12%  Similarity=0.161  Sum_probs=57.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccce-eeeE--EEEEEEECCEEEEEEEecCCCcccccccchh-----hcc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTI-GIDF--KIRTIELDGKRIKLQIWDTAGQERFRTITTA-----YYR   86 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~-----~~~   86 (160)
                      ...++++|++|+|||||+|.|.+-..+..-.-.. +.+.  ......... .-.+++||++|-.........     .+.
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~~-~~~ltv~D~~g~~~~~~~~~~~L~~~~L~  147 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPN-IPNVVFWDLPGIGSTNFPPDTYLEKMKFY  147 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSS-CTTEEEEECCCGGGSSCCHHHHHHHTTGG
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEeccccc-cCCeeehHhhcccchHHHHHHHHHHcCCC
Confidence            3589999999999999999999843221100000 0000  001111111 115789999984322111111     233


Q ss_pred             CCcEEEEEEECC--ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           87 GAMGILLVYDVT--DESSFNNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        87 ~~~~~i~v~d~~--~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ..+..++ ++..  ..... .   ....+..   .+.|++++.||.|+
T Consensus       148 ~~~~~~~-lS~G~~~kqrv-~---la~aL~~---~~~p~~lV~tkpdl  187 (413)
T 1tq4_A          148 EYDFFII-ISATRFKKNDI-D---IAKAISM---MKKEFYFVRTKVDS  187 (413)
T ss_dssp             GCSEEEE-EESSCCCHHHH-H---HHHHHHH---TTCEEEEEECCHHH
T ss_pred             ccCCeEE-eCCCCccHHHH-H---HHHHHHh---cCCCeEEEEecCcc
Confidence            4455555 7775  22211 1   2222222   26799999999995

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.06  E-value=5.7e-06  Score=65.50  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++|+|++|||||||++.+.+-.
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC
T ss_pred             eEEEECCCCChHHHHHHHHhCCC
Confidence            49999999999999999999864

>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=98.02  E-value=2.4e-07  Score=71.18  Aligned_cols=101  Identities=12%  Similarity=0.130  Sum_probs=57.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcc--cccccc--------hh
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE--RFRTIT--------TA   83 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~--~~~~~~--------~~   83 (160)
                      ....|+++|.+|+||||+.++|........ ..+..+..........+......+||..|..  +....+        ..
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~~~~-~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~~  116 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLNFIG-VPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRK  116 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTT-CCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhccC-CCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            457899999999999999999976421110 1111100000000001111234579988863  222222        44


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHHh
Q 031411           84 YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQH  116 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~  116 (160)
                      ++...++.++++|.++. +.+....|+..+...
T Consensus       117 ~l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~~  148 (469)
T 1bif_A          117 FLSEEGGHVAVFDATNT-TRERRAMIFNFGEQN  148 (469)
T ss_dssp             HHHTTCCSEEEEESCCC-SHHHHHHHHHHHHHH
T ss_pred             HHHhCCCCEEEEeCCCC-CHHHHHHHHHHHHhc
Confidence            55567888899999876 456666676666543

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.02  E-value=2.7e-06  Score=63.38  Aligned_cols=56  Identities=23%  Similarity=0.401  Sum_probs=44.5

Q ss_pred             CcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           73 GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        73 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .++.|..+...+.+.++++++|+|++++.     ..|...+.+... +.|+++|+||+|+.+
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~~-~~p~ilV~NK~DL~~  110 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFVG-NNKVLLVGNKADLIP  110 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHSS-SSCEEEEEECGGGSC
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHhC-CCcEEEEEEChhcCC
Confidence            35678888888888999999999998753     456666666555 789999999999963

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=97.98  E-value=9.9e-06  Score=61.60  Aligned_cols=63  Identities=21%  Similarity=0.161  Sum_probs=37.6

Q ss_pred             EEEEEecCCCcccccc-cch-----hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC-c-EEEEEeCCCCC
Q 031411           64 IKLQIWDTAGQERFRT-ITT-----AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNV-N-KILVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~-~~~-----~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~-p-i~vv~~K~Dl~  133 (160)
                      +.+.++||+|...... ...     ..+..+|.+++|+|+.....   .......+   .. .+ | ..++.||.|..
T Consensus       181 ~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~---~~-~~~~i~gvVlnK~D~~  251 (432)
T 2v3c_C          181 ADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AGIQAKAF---KE-AVGEIGSIIVTKLDGS  251 (432)
T ss_dssp             CSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HHHHHHHH---HT-TSCSCEEEEEECSSSC
T ss_pred             CCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HHHHHHHH---hh-cccCCeEEEEeCCCCc
Confidence            5689999999653211 111     12236899999999865431   11112222   22 35 5 78889999975

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.92  E-value=2.5e-05  Score=59.44  Aligned_cols=64  Identities=19%  Similarity=0.118  Sum_probs=37.2

Q ss_pred             EEEEEecCCCcccccccc------hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           64 IKLQIWDTAGQERFRTIT------TAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~------~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.+.++||+|........      .......|.+++|+|+........   ....+...   -.+..+|.||.|..
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~---~a~~f~~~---~~i~gVIlTKlD~~  252 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYN---QALAFKEA---TPIGSIIVTKLDGS  252 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHH---HHHHHHHS---CTTEEEEEECCSSC
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHH---HHHHHHhh---CCCeEEEEECCCCc
Confidence            578899999953322111      012335789999999976432222   12223221   22556888999985

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.83  E-value=2.7e-06  Score=63.41  Aligned_cols=56  Identities=21%  Similarity=0.320  Sum_probs=43.4

Q ss_pred             CcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           73 GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        73 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .++.|..+.....++++++++|+|++++.+     .|...+.+... +.|+++|+||+|+.+
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l~-~~piilV~NK~DLl~  112 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFAA-DNPILLVGNKADLLP  112 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHCT-TSCEEEEEECGGGSC
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHhC-CCCEEEEEEChhcCC
Confidence            467888888888899999999999998763     35555555544 789999999999963

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=97.70  E-value=2.8e-05  Score=59.25  Aligned_cols=25  Identities=20%  Similarity=0.186  Sum_probs=22.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ....-|.|+|++++|||+|+|.|++
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg   89 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLR   89 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhh
Confidence            3567799999999999999999985

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=97.68  E-value=8.7e-05  Score=56.39  Aligned_cols=64  Identities=19%  Similarity=0.138  Sum_probs=36.8

Q ss_pred             EEEEEecCCCccc--ccc-cch---h--hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           64 IKLQIWDTAGQER--FRT-ITT---A--YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~--~~~-~~~---~--~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +.+.++||+|...  ... ...   .  .....+.+++|+|+........   ....+...   -.+..++.||.|..
T Consensus       180 ~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~---~a~~f~~~---~~~~gVIlTKlD~~  251 (433)
T 3kl4_A          180 MDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYD---LASRFHQA---SPIGSVIITKMDGT  251 (433)
T ss_dssp             CSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHH---HHHHHHHH---CSSEEEEEECGGGC
T ss_pred             CCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHH---HHHHHhcc---cCCcEEEEeccccc
Confidence            5678999999533  111 111   1  1224689999999976433222   22333322   23567888999975

>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=97.68  E-value=2.4e-05  Score=52.36  Aligned_cols=22  Identities=32%  Similarity=0.752  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +++++|++|+|||||++.+.+.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999999998864

>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=97.67  E-value=2.7e-05  Score=55.96  Aligned_cols=59  Identities=22%  Similarity=0.123  Sum_probs=40.3

Q ss_pred             EecCCCcc-cccccchhhccCCcEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           68 IWDTAGQE-RFRTITTAYYRGAMGILLVYDVTDESSFN--NIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        68 ~~D~~g~~-~~~~~~~~~~~~~~~~i~v~d~~~~~~~~--~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +-.+|||. +........+..+|+++.|+|+.++.+..  .+.+|+        .+.|.++++||+|+.+
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~   64 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKAD   64 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSC
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCC
Confidence            34578975 44455667789999999999999987654  343333        3789999999999973

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.56  E-value=4.4e-05  Score=50.99  Aligned_cols=22  Identities=27%  Similarity=0.504  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -++++|++|||||||++.|.+.
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            6899999999999999999863

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=97.54  E-value=0.00015  Score=52.47  Aligned_cols=80  Identities=14%  Similarity=0.060  Sum_probs=44.9

Q ss_pred             EEEEEecCCCccc--ccc-cch-----hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCC
Q 031411           64 IKLQIWDTAGQER--FRT-ITT-----AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDE  134 (160)
Q Consensus        64 ~~~~~~D~~g~~~--~~~-~~~-----~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~  134 (160)
                      +.+.++||||...  ... +..     .....+|.+++++|+....   ........+..    ..| ..++.||.|...
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~---~~~~~~~~~~~----~~~i~gvVlnk~D~~~  253 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQ---KAYDLASKFNQ----ASKIGTIIITKMDGTA  253 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGG---GHHHHHHHHHH----TCTTEEEEEECGGGCT
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchH---HHHHHHHHHHh----hCCCCEEEEeCCCCCc
Confidence            5689999999765  221 111     1244689999999986432   11122222222    345 678889999752


Q ss_pred             CccCCChhHHHHHhhhcceEE
Q 031411          135 SKREAPFCLHETILLTVQVHL  155 (160)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~  155 (160)
                      .     ...+..+....+...
T Consensus       254 ~-----~g~~~~~~~~~~~pi  269 (297)
T 1j8m_F          254 K-----GGGALSAVAATGATI  269 (297)
T ss_dssp             T-----HHHHHHHHHTTTCCE
T ss_pred             c-----hHHHHHHHHHHCcCE
Confidence            1     223445555555443

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.51  E-value=5.5e-05  Score=51.39  Aligned_cols=21  Identities=43%  Similarity=0.638  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .++|+|++|+|||||++.|.+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            689999999999999999975

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.45  E-value=7.2e-05  Score=50.65  Aligned_cols=22  Identities=23%  Similarity=0.437  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -++++|++|||||||++.|.+.
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            5899999999999999999864

>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=97.43  E-value=9.4e-05  Score=50.32  Aligned_cols=23  Identities=39%  Similarity=0.537  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      --++|+|++|+|||||++.|...
T Consensus        20 ~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           20 KTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECcCCCCHHHHHHHHHhh
Confidence            46899999999999999999853

>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=97.43  E-value=8e-05  Score=49.88  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.++++|++||||||+++.|.+.
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            36899999999999999999875

>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=97.43  E-value=7.7e-05  Score=50.89  Aligned_cols=23  Identities=30%  Similarity=0.406  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      --++++|++|||||||++.+.+-
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            35899999999999999999864

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=97.39  E-value=0.00011  Score=51.15  Aligned_cols=29  Identities=17%  Similarity=0.335  Sum_probs=21.7

Q ss_pred             CCCCCeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411            9 RADYDYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus         9 ~~~~~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ........+|+|+|.+||||||+.+.|..
T Consensus        10 ~~~~~~~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           10 VPESPKGVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             ----CCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            33334446899999999999999999864

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.39  E-value=8.3e-05  Score=49.27  Aligned_cols=19  Identities=42%  Similarity=0.653  Sum_probs=17.0

Q ss_pred             EEEEEcCCCCCHHHHHHHH
Q 031411           17 KLLLIGDSGVGKSCLLLRF   35 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l   35 (160)
                      -++++|++|||||||++.+
T Consensus        11 i~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999954

>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=97.37  E-value=0.0001  Score=51.02  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++|+|++|||||||++.|.+..
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            68999999999999999998743

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.36  E-value=0.00018  Score=48.70  Aligned_cols=26  Identities=19%  Similarity=0.378  Sum_probs=21.7

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ......|+|.|.+||||||+.+.|..
T Consensus        12 ~~~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           12 PDQVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            33446899999999999999998864

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.36  E-value=0.0001  Score=50.78  Aligned_cols=22  Identities=36%  Similarity=0.658  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++|+|++|+|||||++.|.+-
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999999863

>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=97.33  E-value=0.00018  Score=47.53  Aligned_cols=22  Identities=32%  Similarity=0.433  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..++++|++||||||+++.|..
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.32  E-value=0.00018  Score=48.87  Aligned_cols=23  Identities=17%  Similarity=0.037  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...|+|.|.+||||||+.+.|..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            35799999999999999999875

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.31  E-value=0.00014  Score=49.60  Aligned_cols=24  Identities=29%  Similarity=0.241  Sum_probs=21.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ....++|+|++|||||||++.|.+
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999998865

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.31  E-value=0.00013  Score=51.02  Aligned_cols=23  Identities=30%  Similarity=0.329  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|||||||++.+.+-.
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            57999999999999999998754

>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=97.31  E-value=0.00013  Score=49.79  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -|+++|++||||||+++.|...
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            5899999999999999999864

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.28  E-value=0.00015  Score=47.52  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|+.|+|||||++.+.+..
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            58899999999999999998744

>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=97.26  E-value=0.00018  Score=48.55  Aligned_cols=21  Identities=38%  Similarity=0.612  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      |+|+||+|+|||||+++|...
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            799999999999999999753

>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=97.25  E-value=0.00018  Score=47.12  Aligned_cols=20  Identities=30%  Similarity=0.373  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHH
Q 031411           16 IKLLLIGDSGVGKSCLLLRF   35 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l   35 (160)
                      .-|+++|++||||||+.+.|
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            36899999999999999999

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.25  E-value=0.00016  Score=50.18  Aligned_cols=23  Identities=39%  Similarity=0.420  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998753

>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=97.24  E-value=0.00017  Score=48.24  Aligned_cols=21  Identities=33%  Similarity=0.540  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -++++|++|+||||+++.|..
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999999975

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.24  E-value=0.00017  Score=48.97  Aligned_cols=23  Identities=35%  Similarity=0.525  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .-|+|+|++||||||+++.|...
T Consensus        13 ~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           13 PPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            36899999999999999999753

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.24  E-value=0.00017  Score=48.78  Aligned_cols=24  Identities=33%  Similarity=0.541  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      ..++++|++||||||+++.|.+..
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            368999999999999999998654

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.23  E-value=0.00019  Score=47.26  Aligned_cols=22  Identities=27%  Similarity=0.548  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .|+++|++||||||+++.|...
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998763

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.23  E-value=0.00019  Score=50.28  Aligned_cols=23  Identities=30%  Similarity=0.418  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998754

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.20  E-value=0.00022  Score=47.06  Aligned_cols=22  Identities=36%  Similarity=0.416  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|++.|++||||||+.+.|..
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            4689999999999999999986

>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=97.20  E-value=0.0002  Score=51.27  Aligned_cols=23  Identities=35%  Similarity=0.531  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|||||||++.+.+-.
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47899999999999999998744

>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=97.19  E-value=0.00024  Score=49.71  Aligned_cols=21  Identities=24%  Similarity=0.616  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHh
Q 031411           16 IKLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~   36 (160)
                      ..|+|+|++||||||+++.|.
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999999998

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=97.19  E-value=0.0002  Score=50.83  Aligned_cols=23  Identities=35%  Similarity=0.392  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|||||||++.+.+-.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998753

>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=97.19  E-value=0.00021  Score=49.24  Aligned_cols=23  Identities=30%  Similarity=0.393  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998753

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.19  E-value=0.00021  Score=48.41  Aligned_cols=22  Identities=27%  Similarity=0.501  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.++|+|++||||||+++.|.+
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            4689999999999999998864

>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=97.19  E-value=0.00024  Score=46.58  Aligned_cols=21  Identities=24%  Similarity=0.251  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .|+|.|++||||||+.+.|..
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            689999999999999999864

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.18  E-value=0.00025  Score=48.24  Aligned_cols=22  Identities=18%  Similarity=0.329  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..++++|++|||||||++.|.+
T Consensus         7 ~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            7 FVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998876

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=97.18  E-value=0.00024  Score=49.68  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998753

>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=97.18  E-value=0.00021  Score=50.55  Aligned_cols=23  Identities=35%  Similarity=0.419  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
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            57899999999999999998754

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.17  E-value=0.0002  Score=48.38  Aligned_cols=21  Identities=38%  Similarity=0.716  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .++++|++|+|||||++.+.+
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            588999999999999998876

>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=97.17  E-value=0.00022  Score=50.75  Aligned_cols=23  Identities=35%  Similarity=0.466  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            57899999999999999998743

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.17  E-value=0.00026  Score=52.51  Aligned_cols=24  Identities=38%  Similarity=0.400  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSF   40 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~   40 (160)
                      .++++|++|+|||||+|.|.+...
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            689999999999999999997543

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.16  E-value=0.00024  Score=48.52  Aligned_cols=22  Identities=23%  Similarity=0.480  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ++|+|.|++||||||+.+.|..
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            3799999999999999999854

>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=97.15  E-value=0.00027  Score=49.61  Aligned_cols=23  Identities=26%  Similarity=0.275  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999998743

>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=97.14  E-value=0.00027  Score=49.76  Aligned_cols=23  Identities=30%  Similarity=0.297  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
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            57899999999999999998754

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.14  E-value=0.00024  Score=50.38  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.++++|++|||||||++.+.+
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHH
Confidence            3689999999999999999886

>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=0.00026  Score=48.40  Aligned_cols=22  Identities=32%  Similarity=0.510  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ++|+|+|++||||||+.+.|..
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            3799999999999999999964

>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=97.14  E-value=0.00025  Score=50.39  Aligned_cols=23  Identities=35%  Similarity=0.424  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Confidence            57899999999999999998753

>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=97.13  E-value=0.00029  Score=48.99  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
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            57899999999999999998754

>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=97.13  E-value=0.00025  Score=49.64  Aligned_cols=23  Identities=30%  Similarity=0.406  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998753

>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=97.13  E-value=0.00026  Score=50.12  Aligned_cols=23  Identities=35%  Similarity=0.333  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998754

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=97.12  E-value=0.00026  Score=49.86  Aligned_cols=23  Identities=43%  Similarity=0.644  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            57899999999999999998753

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.12  E-value=0.00027  Score=47.87  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+|+|++||||||+++.|..
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            4699999999999999998864

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=97.12  E-value=0.00028  Score=49.68  Aligned_cols=22  Identities=32%  Similarity=0.382  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|+|||||++.+.+-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999985

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=97.11  E-value=0.00029  Score=50.14  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|+|||||++.+.+-
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            5789999999999999999985

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=97.10  E-value=0.00025  Score=48.65  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|+|||||++.+.+-
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            5789999999999999999874

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=97.10  E-value=0.00031  Score=50.31  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
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            57899999999999999998753

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.10  E-value=0.00096  Score=42.70  Aligned_cols=23  Identities=17%  Similarity=0.290  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ..|++.|++|+|||++++.+...
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            36999999999999999988764

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=97.10  E-value=0.00031  Score=49.76  Aligned_cols=22  Identities=27%  Similarity=0.335  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|+|||||++.+.+-
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            5899999999999999999874

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.09  E-value=0.00034  Score=47.30  Aligned_cols=22  Identities=32%  Similarity=0.585  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.|+++|++||||||+.+.|..
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            4799999999999999998864

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=97.09  E-value=0.00031  Score=47.56  Aligned_cols=22  Identities=32%  Similarity=0.520  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+|+++|++||||||+.+.|.+
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            3799999999999999999876

>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=97.09  E-value=0.00028  Score=46.89  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.++++|++|+|||||++.+.+.
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988763

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=97.09  E-value=0.00034  Score=47.88  Aligned_cols=22  Identities=27%  Similarity=0.563  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +.|+++|+|||||+|...+|..
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            3689999999999999999875

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=97.07  E-value=0.00034  Score=49.90  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++|+|++|+|||||++.+.+-.
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            57899999999999999998753

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=97.07  E-value=0.00038  Score=48.23  Aligned_cols=26  Identities=27%  Similarity=0.408  Sum_probs=22.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ....-|+|.|+.||||||+++.|.+.
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            34468999999999999999998764

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.06  E-value=0.0004  Score=46.32  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+|.|.+||||||+++.|..
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            3689999999999999998865

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=97.06  E-value=0.00032  Score=49.54  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998754

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=97.06  E-value=0.00032  Score=49.91  Aligned_cols=23  Identities=39%  Similarity=0.475  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            57899999999999999998753

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.06  E-value=0.00036  Score=47.01  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .|+|.|.+||||||+++.|..
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            689999999999999998875

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=97.06  E-value=0.00034  Score=50.74  Aligned_cols=21  Identities=33%  Similarity=0.377  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .++|+|++|+|||||++.|.+
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhh
Confidence            789999999999999999875

>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=97.05  E-value=0.00038  Score=45.97  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -|++.|++||||||+.+.|..
T Consensus         5 ~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999986

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.04  E-value=0.00048  Score=46.53  Aligned_cols=23  Identities=26%  Similarity=0.668  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+.|+|.|.+||||||+.+.|..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999864

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=97.04  E-value=0.00047  Score=46.75  Aligned_cols=22  Identities=32%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +.|+++|++||||||+.+.|..
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            4799999999999999999976

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=97.04  E-value=0.00021  Score=49.47  Aligned_cols=22  Identities=27%  Similarity=0.379  Sum_probs=15.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHh-cC
Q 031411           17 KLLLIGDSGVGKSCLLLRFS-DG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~-~~   38 (160)
                      -++|+|++||||||+++.|. +.
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            58999999999999999998 53

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=97.04  E-value=0.00038  Score=46.36  Aligned_cols=23  Identities=30%  Similarity=0.332  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .-++++|++|+|||||+++|...
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            46899999999999999999864

>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=97.03  E-value=0.00046  Score=46.47  Aligned_cols=25  Identities=24%  Similarity=0.236  Sum_probs=21.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ....|+|.|++||||||+.+.|...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            3468999999999999999998764

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.03  E-value=0.00054  Score=45.53  Aligned_cols=22  Identities=23%  Similarity=0.510  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+++|++||||||+.+.|..
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            5799999999999999999864

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=97.03  E-value=0.00058  Score=46.33  Aligned_cols=25  Identities=16%  Similarity=0.170  Sum_probs=21.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ....|+++|++||||||+++.|.+.
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3467999999999999999999874

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.03  E-value=0.00046  Score=46.10  Aligned_cols=23  Identities=26%  Similarity=0.536  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .+|+++|.+||||||+.+.|...
T Consensus        11 ~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999988754

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=97.03  E-value=0.00042  Score=47.59  Aligned_cols=22  Identities=27%  Similarity=0.394  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|.++|++||||||+++.|.+
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            4799999999999999998865

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.02  E-value=0.00064  Score=46.90  Aligned_cols=20  Identities=20%  Similarity=0.509  Sum_probs=17.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      |+|+|+|||||+|....|..
T Consensus        32 I~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEECCTTCCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56789999999999998864

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.02  E-value=0.00038  Score=47.11  Aligned_cols=22  Identities=32%  Similarity=0.409  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+++|++||||||+++.|.+
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            5799999999999999988865

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=97.01  E-value=0.00043  Score=49.19  Aligned_cols=23  Identities=35%  Similarity=0.560  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
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            57899999999999999998754

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.01  E-value=0.00037  Score=47.86  Aligned_cols=21  Identities=24%  Similarity=0.295  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -++++|++|+|||||++.+.+
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            588999999999999999986

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=97.00  E-value=0.00042  Score=47.36  Aligned_cols=22  Identities=18%  Similarity=0.388  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ++|+|.|++||||||+.+.|..
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            3699999999999999999864

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.00  E-value=0.00055  Score=45.72  Aligned_cols=22  Identities=18%  Similarity=0.386  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+++|.+||||||+.+.|..
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            5799999999999999998864

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=97.00  E-value=0.00047  Score=49.88  Aligned_cols=24  Identities=42%  Similarity=0.420  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSF   40 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~   40 (160)
                      .++++|++|+|||||++.|.+...
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             eEEEECCCCCcHHHHHHHhccccc
Confidence            578999999999999999987543

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.99  E-value=0.00051  Score=45.65  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+++|++||||||+.+.|..
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            4799999999999999999864

>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=96.98  E-value=0.00057  Score=49.73  Aligned_cols=25  Identities=20%  Similarity=0.147  Sum_probs=21.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ....-++|+|++|||||||++.|.+
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHh
Confidence            3456899999999999999998875

>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=96.97  E-value=0.00051  Score=45.72  Aligned_cols=22  Identities=23%  Similarity=0.241  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+|.|++||||||+.+.|..
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            4799999999999999998864

>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=96.97  E-value=0.00045  Score=50.01  Aligned_cols=22  Identities=50%  Similarity=0.792  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||+|.|. ..
T Consensus       167 i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH-SC
T ss_pred             EEEEECCCCCCHHHHHHHHH-Hh
Confidence            67999999999999999998 43

>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=96.97  E-value=0.00014  Score=52.91  Aligned_cols=23  Identities=43%  Similarity=0.546  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||+|.|.+..
T Consensus       175 ~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             EEEEECCCCCCHHHHHHHhcccc
Confidence            78999999999999999998753

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.96  E-value=0.00045  Score=47.39  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+.|+|+|.+||||||+.+.|..
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            36899999999999999999864

>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=96.96  E-value=0.00063  Score=47.59  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=21.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...+|+|.|++||||||+.+.|..
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            347899999999999999999964

>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=96.96  E-value=0.00039  Score=51.58  Aligned_cols=24  Identities=21%  Similarity=0.367  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .-+++|+|++|+|||||++.|.+-
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            468999999999999999999864

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=96.96  E-value=0.00016  Score=51.33  Aligned_cols=56  Identities=14%  Similarity=0.170  Sum_probs=36.1

Q ss_pred             CCCccc-ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           71 TAGQER-FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        71 ~~g~~~-~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +|||.. ........+.++|+++.|+|+.++.+.....     +. ..  +.|.++++||+|+.+
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~-----l~-ll--~k~~iivlNK~DL~~   60 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYG-----VD-FS--RKETIILLNKVDIAD   60 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTT-----SC-CT--TSEEEEEEECGGGSC
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChH-----HH-hc--CCCcEEEEECccCCC
Confidence            678753 3335566789999999999999876653210     11 11  679999999999973

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.93  E-value=0.00064  Score=46.01  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+|.|.+||||||+++.|..
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            5799999999999999999875

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.93  E-value=0.00058  Score=46.83  Aligned_cols=22  Identities=32%  Similarity=0.638  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+|+|.+||||||+.+.|..
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998864

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.92  E-value=0.00059  Score=44.57  Aligned_cols=21  Identities=33%  Similarity=0.314  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      +|++.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999875

>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=96.91  E-value=0.00053  Score=49.39  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            57899999999999999998753

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.91  E-value=0.00065  Score=47.49  Aligned_cols=23  Identities=17%  Similarity=0.244  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...|.|+|+.|||||||++.|.+
T Consensus        25 g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           25 PFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998876

>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=96.91  E-value=0.0005  Score=50.98  Aligned_cols=21  Identities=38%  Similarity=0.548  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .++|+|++|||||||++.+.+
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            799999999999999999876

>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=96.91  E-value=0.00065  Score=50.38  Aligned_cols=23  Identities=39%  Similarity=0.557  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|||||||++.+.+-.
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47899999999999999999854

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.90  E-value=0.00076  Score=44.98  Aligned_cols=22  Identities=23%  Similarity=0.548  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|++.|.+||||||+.+.|..
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            5799999999999999998864

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.90  E-value=0.00059  Score=47.04  Aligned_cols=22  Identities=23%  Similarity=0.579  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+|+|++||||||+++.|..
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999864

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.89  E-value=0.00027  Score=46.99  Aligned_cols=22  Identities=32%  Similarity=0.450  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .+.|+|++|||||||++.|.+-
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999874

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.89  E-value=0.00057  Score=50.61  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|||||||++.+.+-.
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999998754

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.88  E-value=0.00053  Score=45.29  Aligned_cols=21  Identities=33%  Similarity=0.521  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      +|+++|++||||||+.+.|..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            699999999999999998864

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.88  E-value=0.00057  Score=48.78  Aligned_cols=20  Identities=35%  Similarity=0.587  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      ++++|++|+|||||++.+.+
T Consensus        47 vlL~Gp~GtGKTtLakala~   66 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVAN   66 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            99999999999999999986

>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=96.88  E-value=0.00038  Score=50.55  Aligned_cols=22  Identities=41%  Similarity=0.492  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|+|||||++.|.+-
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            6899999999999999998874

>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=96.87  E-value=0.00061  Score=50.62  Aligned_cols=23  Identities=35%  Similarity=0.309  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -+.++|++|||||||++.+.+-.
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHhcCC
Confidence            47899999999999999998754

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.87  E-value=0.00086  Score=48.99  Aligned_cols=25  Identities=20%  Similarity=0.141  Sum_probs=21.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...+-++++|++|||||||++.|.+
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999988853

>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=96.87  E-value=0.00062  Score=50.86  Aligned_cols=23  Identities=35%  Similarity=0.489  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|||||||++.+.+-.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCC
Confidence            47899999999999999998754

>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=96.86  E-value=0.00061  Score=50.53  Aligned_cols=23  Identities=35%  Similarity=0.456  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|||||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHCCC
Confidence            47899999999999999998754

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.86  E-value=0.00063  Score=50.51  Aligned_cols=23  Identities=39%  Similarity=0.492  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|||||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47899999999999999998754

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.86  E-value=0.00071  Score=46.64  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .|+|.|++||||||+++.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999864

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.85  E-value=0.00088  Score=48.12  Aligned_cols=23  Identities=30%  Similarity=0.394  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..-|+++|++||||||+++.|..
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            36799999999999999999964

>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=96.84  E-value=0.00099  Score=47.96  Aligned_cols=25  Identities=20%  Similarity=0.365  Sum_probs=21.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .....|+|+|++|||||||++.|..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999988764

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.83  E-value=0.00068  Score=47.75  Aligned_cols=21  Identities=19%  Similarity=0.374  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -|+|+|++|||||||...|..
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999864

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.83  E-value=0.0012  Score=47.15  Aligned_cols=25  Identities=40%  Similarity=0.425  Sum_probs=21.5

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...+.|+|.|.+||||||+.+.|..
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998863

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.83  E-value=0.00049  Score=44.58  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|+|||+|++.+.+.
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999999874

>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=96.83  E-value=0.00069  Score=47.47  Aligned_cols=21  Identities=38%  Similarity=0.631  Sum_probs=19.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      ++++|++|+|||||++.+.+.
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999999863

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.82  E-value=0.00081  Score=44.38  Aligned_cols=23  Identities=30%  Similarity=0.592  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.+++.|++|+|||++++.+...
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988753

>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=96.82  E-value=0.00067  Score=49.20  Aligned_cols=22  Identities=27%  Similarity=0.563  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.++++|++||||||+++.+.+
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            3788999999999999999874

>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=96.82  E-value=0.0007  Score=50.49  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|||||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCC
Confidence            47899999999999999998754

>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=96.82  E-value=0.00072  Score=50.41  Aligned_cols=23  Identities=35%  Similarity=0.459  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|||||||++.+.+-.
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            47899999999999999998743

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.81  E-value=0.00059  Score=46.88  Aligned_cols=22  Identities=18%  Similarity=0.312  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+|+|++||||||+.+.|..
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            4799999999999999998864

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.81  E-value=0.0007  Score=49.05  Aligned_cols=22  Identities=23%  Similarity=0.477  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      --++++|++||||||++..+.+
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4789999999999999998875

>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=96.81  E-value=0.00086  Score=49.81  Aligned_cols=25  Identities=36%  Similarity=0.575  Sum_probs=21.4

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHh
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~   36 (160)
                      ..+..||+++|.++||||||++.+.
T Consensus        30 ~~~~~killlG~~~SGKST~~kq~~   54 (362)
T 1zcb_A           30 SARLVKILLLGAGESGKSTFLKQMR   54 (362)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             hcCccEEEEECCCCCcHHHHHHHHH
Confidence            3557999999999999999998764

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.81  E-value=0.0012  Score=43.89  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...|+++|.+||||||+++.|..
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            46799999999999999998865

>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=96.81  E-value=0.00098  Score=48.31  Aligned_cols=23  Identities=22%  Similarity=0.209  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...|+|+|++|||||||++.|.+
T Consensus        80 g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           80 PYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999998875

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.80  E-value=0.001  Score=45.01  Aligned_cols=24  Identities=29%  Similarity=0.189  Sum_probs=20.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ....++++|++||||||+++.|.+
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998864

>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=96.80  E-value=0.00082  Score=45.30  Aligned_cols=23  Identities=13%  Similarity=0.226  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ..|+|.|.+||||||+.+.|...
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            47999999999999999999864

>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=96.79  E-value=0.00077  Score=50.25  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.++++|++||||||+++.+.+
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3699999999999999999986

>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=96.79  E-value=0.00079  Score=44.58  Aligned_cols=22  Identities=36%  Similarity=0.572  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+++|++|+||||+.+.|..
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHH
Confidence            4699999999999999999874

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.78  E-value=0.0007  Score=50.24  Aligned_cols=24  Identities=21%  Similarity=0.441  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -.++++|++|+|||||++.+.+-.
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            379999999999999999998743

>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=96.78  E-value=0.0007  Score=49.64  Aligned_cols=23  Identities=17%  Similarity=0.385  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
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            68999999999999999998743

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.78  E-value=0.00084  Score=44.78  Aligned_cols=21  Identities=19%  Similarity=0.305  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .|++.|.+||||||+.+.|..
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            589999999999999999875

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.76  E-value=0.00087  Score=44.83  Aligned_cols=22  Identities=18%  Similarity=0.379  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|++.|++||||||+.+.|..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>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=96.75  E-value=0.0011  Score=46.83  Aligned_cols=22  Identities=32%  Similarity=0.540  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+++|.+||||||+.+.|..
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            4799999999999999998875

>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=96.74  E-value=0.00084  Score=49.20  Aligned_cols=23  Identities=17%  Similarity=0.489  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .--++++|++|+||||+++.|.+
T Consensus       129 g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          129 PYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999999875

>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=96.74  E-value=0.00031  Score=47.80  Aligned_cols=21  Identities=29%  Similarity=0.471  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -|+|.|++||||||+++.|..
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            489999999999999999875

>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=96.73  E-value=0.001  Score=44.05  Aligned_cols=22  Identities=18%  Similarity=0.296  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..+.++|.+|+|||||+.+|..
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            4689999999999999999875

>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=96.73  E-value=0.00057  Score=50.52  Aligned_cols=23  Identities=22%  Similarity=0.421  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|||||||++.+.+-.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCccHHHHHHHHHcCC
Confidence            57899999999999999998754

>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=96.73  E-value=0.0014  Score=43.59  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|++.|.+||||||+.+.|..
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            4799999999999999998864

>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=96.72  E-value=0.00083  Score=50.85  Aligned_cols=22  Identities=32%  Similarity=0.385  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++|+|++||||||+++.+.+.
T Consensus       169 ii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999999863

>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=96.71  E-value=0.00089  Score=50.22  Aligned_cols=22  Identities=41%  Similarity=0.566  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|||||||++.+.+-
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            5789999999999999999863

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.71  E-value=0.0011  Score=44.52  Aligned_cols=22  Identities=23%  Similarity=0.460  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|++.|.+||||||+.+.|..
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            4799999999999999998865

>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=96.70  E-value=0.0009  Score=49.01  Aligned_cols=22  Identities=32%  Similarity=0.537  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|+|||||++.+.+.
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5899999999999999999863

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.70  E-value=0.00089  Score=51.98  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++|+|++||||||+++.+.+--
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            59999999999999999998743

>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=96.69  E-value=0.0011  Score=43.38  Aligned_cols=21  Identities=14%  Similarity=0.436  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .|++.|.+||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999998864

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.68  E-value=0.00091  Score=47.01  Aligned_cols=23  Identities=35%  Similarity=0.414  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...|+++|++||||||+.+.|..
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            46899999999999999999865

>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=96.68  E-value=0.0012  Score=44.88  Aligned_cols=22  Identities=23%  Similarity=0.279  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+|.|.+||||||+++.|..
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            4799999999999999999874

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.67  E-value=0.001  Score=47.30  Aligned_cols=21  Identities=38%  Similarity=0.631  Sum_probs=19.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      ++++|++|+|||||++.+.+.
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHHH
Confidence            999999999999999999864

>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=96.67  E-value=0.0011  Score=43.90  Aligned_cols=21  Identities=24%  Similarity=0.181  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.+|+|++|+|||||++.+..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999998864

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.66  E-value=0.0013  Score=46.30  Aligned_cols=21  Identities=29%  Similarity=0.360  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHh
Q 031411           16 IKLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~   36 (160)
                      ..|.|+|++||||||+++.|.
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            579999999999999999997

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.66  E-value=0.0011  Score=45.43  Aligned_cols=21  Identities=33%  Similarity=0.597  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -++++|++|+|||||+..+..
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            578999999999999998874

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=96.65  E-value=0.00078  Score=47.56  Aligned_cols=26  Identities=19%  Similarity=0.245  Sum_probs=21.8

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .+...|+|.|.+||||||+++.|...
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHh
Confidence            34578999999999999999988754

>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=96.65  E-value=0.0012  Score=43.81  Aligned_cols=21  Identities=38%  Similarity=0.564  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .|+|+|.+||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999998864

>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=96.64  E-value=0.0015  Score=44.65  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +.|+|.|.+||||||+.+.|..
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            6799999999999999999875

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.62  E-value=0.0014  Score=42.81  Aligned_cols=22  Identities=41%  Similarity=0.469  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.|++.|.+||||||+.+.|..
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            4799999999999999998864

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.61  E-value=0.00089  Score=44.29  Aligned_cols=22  Identities=23%  Similarity=0.311  Sum_probs=15.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+|.|.+||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999874

>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=96.61  E-value=0.0015  Score=43.28  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+++|.+||||||+++.|..
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            4689999999999999998876

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.61  E-value=0.0012  Score=49.02  Aligned_cols=22  Identities=23%  Similarity=0.477  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      --++++|++||||||++..|.+
T Consensus       158 ~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          158 AVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHh
Confidence            4789999999999999998875

>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=96.60  E-value=0.00056  Score=50.63  Aligned_cols=23  Identities=22%  Similarity=0.436  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|||||||++.+.+-.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            57899999999999999998754

>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=96.59  E-value=0.0038  Score=45.32  Aligned_cols=54  Identities=15%  Similarity=0.209  Sum_probs=37.3

Q ss_pred             cccchhhccCCcEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           78 RTITTAYYRGAMGILLVYDVTDESS-FNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        78 ~~~~~~~~~~~~~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +.+.+..+.++|.+++|+|+.+|.. ...+.+++....   ..++|.++++||+||.+
T Consensus        77 ~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~---~~~~~~vivlnK~DL~~  131 (307)
T 1t9h_A           77 NELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVE---ANDIQPIICITKMDLIE  131 (307)
T ss_dssp             CEETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHH---TTTCEEEEEEECGGGCC
T ss_pred             hhhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHH---HCCCCEEEEEECCccCc
Confidence            3444556889999999999987643 334444443222   24788999999999963

>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=96.58  E-value=0.0016  Score=45.70  Aligned_cols=24  Identities=17%  Similarity=0.207  Sum_probs=21.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..+.|+|.|++||||||+.+.|..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            447899999999999999998865

>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=96.57  E-value=0.0012  Score=50.85  Aligned_cols=22  Identities=27%  Similarity=0.606  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      --++|+|++|||||||++.|.+
T Consensus       294 eVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          294 FVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCcccHHHHHHHHHH
Confidence            4689999999999999998864

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.57  E-value=0.001  Score=43.76  Aligned_cols=22  Identities=32%  Similarity=0.590  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.+++.|++|+|||++++.+..
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            4689999999999999988875

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.57  E-value=0.0013  Score=46.07  Aligned_cols=22  Identities=27%  Similarity=0.508  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..++++|++|+|||++++.+.+
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            3599999999999999999976

>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=96.57  E-value=0.0015  Score=44.89  Aligned_cols=22  Identities=18%  Similarity=0.256  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.+++.|++|+|||++++.+..
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            4799999999999999998875

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.56  E-value=0.0014  Score=48.44  Aligned_cols=23  Identities=39%  Similarity=0.611  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      ++.++|++|+|||||++.+.+..
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            78999999999999999999864

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=96.55  E-value=0.0057  Score=46.68  Aligned_cols=63  Identities=25%  Similarity=0.301  Sum_probs=39.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc------------------CCCC---CccccceeeeEEEEEE--EE-CCEEEEEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD------------------GSFT---TSFITTIGIDFKIRTI--EL-DGKRIKLQI   68 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~------------------~~~~---~~~~~~~~~~~~~~~~--~~-~~~~~~~~~   68 (160)
                      ....-|.|+|+.++|||+|+|.|++                  ..|.   .....|.|+-.+...+  .. ++..+.+.+
T Consensus        65 ~~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vll  144 (457)
T 4ido_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLL  144 (457)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEE
T ss_pred             CceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEEE
Confidence            3567778999999999999996642                  1222   1122344432222222  22 566788999


Q ss_pred             ecCCCcc
Q 031411           69 WDTAGQE   75 (160)
Q Consensus        69 ~D~~g~~   75 (160)
                      .||.|..
T Consensus       145 lDTEG~~  151 (457)
T 4ido_A          145 MDTQGTF  151 (457)
T ss_dssp             EEECCBT
T ss_pred             EeccCCC
Confidence            9999953

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.52  E-value=0.0013  Score=50.41  Aligned_cols=23  Identities=22%  Similarity=0.446  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++|+|+.|||||||++.|.+-.
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            68999999999999999998743

>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=96.51  E-value=0.0016  Score=42.06  Aligned_cols=19  Identities=47%  Similarity=0.635  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 031411           18 LLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~   36 (160)
                      .+|+|+.|+||||+++.+.
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            4789999999999999875

>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=96.51  E-value=0.0014  Score=46.99  Aligned_cols=21  Identities=24%  Similarity=0.400  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -++|+|++|+|||||+..+.+
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~   57 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQAL   57 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            578999999999999998875

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.49  E-value=0.0018  Score=43.58  Aligned_cols=22  Identities=41%  Similarity=0.579  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..+++.|++|+|||+|+..+..
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            4799999999999999998875

>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=96.49  E-value=0.0016  Score=44.31  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+++|.+|+||||+++.|..
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999998865

>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=96.47  E-value=0.0012  Score=48.14  Aligned_cols=23  Identities=35%  Similarity=0.404  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      --++|+|+.|+|||||++.+.+.
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cEEEEEecCCCCHHHHHHHHHhh
Confidence            45789999999999999999965

>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=96.45  E-value=0.0018  Score=44.06  Aligned_cols=21  Identities=24%  Similarity=0.207  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -++++|++|+|||||+..+..
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            589999999999999999986

>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=96.45  E-value=0.0028  Score=43.90  Aligned_cols=24  Identities=17%  Similarity=0.245  Sum_probs=21.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...-|++.|++||||||+++.|..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~   48 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYH   48 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            346799999999999999999875

>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=96.43  E-value=0.0019  Score=44.66  Aligned_cols=22  Identities=14%  Similarity=0.158  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -++++|++|+|||||+..+...
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            5889999999999999999873

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.42  E-value=0.0015  Score=44.74  Aligned_cols=21  Identities=29%  Similarity=0.455  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+++.|++|+|||+++..+.+
T Consensus        60 ~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999988875

>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=96.42  E-value=0.002  Score=46.26  Aligned_cols=22  Identities=36%  Similarity=0.416  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+++|.+||||||+.+.|..
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            4689999999999999999875

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=96.41  E-value=0.0027  Score=42.89  Aligned_cols=25  Identities=20%  Similarity=0.242  Sum_probs=21.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ..+.|++.|..||||||+.+.|...
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHh
Confidence            4578999999999999999988753

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.41  E-value=0.0021  Score=44.81  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+.|.+.|++||||||+.+.|..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998863

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.40  E-value=0.0027  Score=49.56  Aligned_cols=23  Identities=22%  Similarity=0.330  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
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            68999999999999999998743

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.39  E-value=0.0017  Score=45.75  Aligned_cols=22  Identities=23%  Similarity=0.327  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.|+++|++|+||||+.+.|..
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            3699999999999999998864

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.37  E-value=0.0023  Score=40.99  Aligned_cols=24  Identities=21%  Similarity=0.238  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      ..|++.|++|+|||++++.+....
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHhC
Confidence            469999999999999999998643

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.36  E-value=0.0025  Score=49.77  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|+|||||++.|.+-.
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            57899999999999999998743

>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=96.34  E-value=0.0022  Score=43.77  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -+++.|++|+|||++++.+..
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            589999999999999998874

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=96.33  E-value=0.0022  Score=48.81  Aligned_cols=23  Identities=39%  Similarity=0.475  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      +++++|++|+|||||++.+.+..
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            78999999999999999998854

>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=96.32  E-value=0.0023  Score=43.12  Aligned_cols=22  Identities=27%  Similarity=0.548  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .+++.|++|+|||++++.+...
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999988753

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.32  E-value=0.0022  Score=45.89  Aligned_cols=23  Identities=35%  Similarity=0.446  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.+++.|++|+|||++++.+...
T Consensus        55 ~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           55 KGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            47999999999999999999763

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=96.29  E-value=0.0023  Score=49.28  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .++++|++|+|||||++.+.+
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            578999999999999998875

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.29  E-value=0.0026  Score=45.17  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.+++.|++|+|||++++.+...
T Consensus        52 ~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           52 KGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             SEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            36999999999999999999763

>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=96.28  E-value=0.0025  Score=44.54  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..+++.|++|+|||++++.+..
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            4689999999999999999876

>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=96.27  E-value=0.004  Score=47.04  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .-|+++|.+||||||+.+.|..
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            5688999999999999999875

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=96.27  E-value=0.0024  Score=50.30  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhcc
Confidence            68999999999999999998743

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=96.27  E-value=0.0026  Score=47.23  Aligned_cols=19  Identities=37%  Similarity=0.545  Sum_probs=17.2

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 031411           18 LLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~   36 (160)
                      .+|+|++|+||||+++.+.
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            4589999999999999886

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.26  E-value=0.0031  Score=45.27  Aligned_cols=23  Identities=22%  Similarity=0.593  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...+++.|++|+|||++++.+..
T Consensus        67 ~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999986654

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.26  E-value=0.0033  Score=49.83  Aligned_cols=23  Identities=35%  Similarity=0.498  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.|.+-.
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            68999999999999999998743

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=96.24  E-value=0.0025  Score=47.55  Aligned_cols=22  Identities=23%  Similarity=0.249  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.++++|++|+|||||++.+.+
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            3789999999999999999885

>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=96.23  E-value=0.0026  Score=45.85  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.+++.|++|+|||++++.+.+.
T Consensus        50 ~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           50 KGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCcCHHHHHHHHHHH
Confidence            36899999999999999999863

>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=96.23  E-value=0.0027  Score=49.98  Aligned_cols=22  Identities=36%  Similarity=0.498  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|+|||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6899999999999999999874

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.22  E-value=0.0026  Score=45.71  Aligned_cols=23  Identities=26%  Similarity=0.179  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .-+++.|++|+|||+|++.+...
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46788899999999999998763

>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=96.19  E-value=0.0047  Score=43.64  Aligned_cols=25  Identities=28%  Similarity=0.470  Sum_probs=21.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ....+++.|++|+|||+++..+...
T Consensus        63 ~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4468999999999999999998763

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.17  E-value=0.0035  Score=43.47  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=20.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ....|+++|++||||||+.+.|..
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            345899999999999999998874

>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=96.17  E-value=0.0029  Score=45.90  Aligned_cols=22  Identities=27%  Similarity=0.520  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .+++.|++|+|||+|++.+.+.
T Consensus        39 ~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           39 PIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5899999999999999998763

>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=96.16  E-value=0.0029  Score=45.00  Aligned_cols=21  Identities=33%  Similarity=0.458  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -++|+|++|+|||||+..+..
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            588999999999999988874

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=96.13  E-value=0.0036  Score=43.49  Aligned_cols=24  Identities=25%  Similarity=0.454  Sum_probs=20.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..+++.++|++||||||+...|..
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHH
Confidence            357999999999999999998864

>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=96.13  E-value=0.0043  Score=49.15  Aligned_cols=23  Identities=17%  Similarity=0.320  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.|.+-.
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            68999999999999999998743

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.11  E-value=0.0049  Score=48.14  Aligned_cols=23  Identities=17%  Similarity=0.436  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .+.++|+.|+|||||++.+.+-.
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            57899999999999999999754

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.10  E-value=0.0053  Score=44.04  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.+++.|++|+|||++++.+...
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHHH
Confidence            47999999999999999988763

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.09  E-value=0.0043  Score=48.45  Aligned_cols=23  Identities=17%  Similarity=0.348  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.|.+-.
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998754

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.07  E-value=0.0042  Score=41.80  Aligned_cols=21  Identities=29%  Similarity=0.336  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .|.+.|++||||||+.+.|..
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            689999999999999998865

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.07  E-value=0.0034  Score=45.28  Aligned_cols=22  Identities=27%  Similarity=0.584  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.++++|++|+||||++..|..
T Consensus       106 ~vi~lvG~~GsGKTTl~~~LA~  127 (296)
T 2px0_A          106 KYIVLFGSTGAGKTTTLAKLAA  127 (296)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999988863

>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=96.06  E-value=0.0053  Score=48.67  Aligned_cols=23  Identities=17%  Similarity=0.436  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.|.+-.
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            47899999999999999998754

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.06  E-value=0.0029  Score=50.06  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            78999999999999999998743

>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=96.06  E-value=0.0037  Score=44.69  Aligned_cols=22  Identities=36%  Similarity=0.693  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..+++.|++|+|||++++.+..
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            4699999999999999998875

>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=96.05  E-value=0.0029  Score=46.34  Aligned_cols=20  Identities=35%  Similarity=0.587  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      +++.|++|+||||+++.+.+
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998876

>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=96.04  E-value=0.0035  Score=46.06  Aligned_cols=22  Identities=18%  Similarity=0.368  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.++|.|++|+|||||++.+.+
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            3689999999999999999876

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.03  E-value=0.004  Score=43.01  Aligned_cols=20  Identities=35%  Similarity=0.582  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 031411           17 KLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~   36 (160)
                      -++++|++|+|||||+..+.
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~   44 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFL   44 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            57899999999999987665

>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=96.02  E-value=0.0044  Score=42.17  Aligned_cols=24  Identities=42%  Similarity=0.631  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .-|+|+|++|+|||+|+..|....
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            458999999999999999998653

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.99  E-value=0.0024  Score=50.31  Aligned_cols=23  Identities=30%  Similarity=0.320  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            68899999999999999888743

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.99  E-value=0.004  Score=47.24  Aligned_cols=22  Identities=32%  Similarity=0.537  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      --+++.||||+|||+|++.+.+
T Consensus       207 rGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          207 RGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999999986

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.99  E-value=0.004  Score=47.30  Aligned_cols=22  Identities=27%  Similarity=0.371  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      --|++.||||+|||+|++.+.+
T Consensus       216 rGvLLyGPPGTGKTllAkAiA~  237 (434)
T 4b4t_M          216 KGALMYGPPGTGKTLLARACAA  237 (434)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             CeeEEECcCCCCHHHHHHHHHH
Confidence            4799999999999999999986

>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=95.99  E-value=0.0039  Score=45.57  Aligned_cols=22  Identities=27%  Similarity=0.590  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ++++.|++|+||||+++.+.+.
T Consensus        48 ~~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           48 HLLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999998764

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.97  E-value=0.0041  Score=45.33  Aligned_cols=23  Identities=35%  Similarity=0.482  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.+++.|++|+|||+|++.+...
T Consensus        46 ~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            47999999999999999999864

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.96  E-value=0.0045  Score=45.52  Aligned_cols=22  Identities=18%  Similarity=0.477  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .-|+|+|++|||||||...|..
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            4689999999999999999875

>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=95.96  E-value=0.0047  Score=45.57  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++|.|++|+|||++++.+.+.
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            6999999999999999998864

>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=0.0047  Score=45.10  Aligned_cols=22  Identities=27%  Similarity=0.564  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+|+|++||||||+...|..
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            3799999999999999998875

>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=95.94  E-value=0.0046  Score=44.86  Aligned_cols=22  Identities=18%  Similarity=0.457  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      --++++|++|+||||++..|..
T Consensus       105 ~vi~ivG~~GsGKTTl~~~LA~  126 (306)
T 1vma_A          105 FVIMVVGVNGTGKTTSCGKLAK  126 (306)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHH
Confidence            4688999999999999988864

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.92  E-value=0.0045  Score=47.07  Aligned_cols=22  Identities=32%  Similarity=0.449  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      --|++.||||+|||+|++.+.+
T Consensus       216 rGvLL~GPPGtGKTllAkAiA~  237 (437)
T 4b4t_L          216 KGVLLYGPPGTGKTLLAKAVAA  237 (437)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4799999999999999999986

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=95.91  E-value=0.0054  Score=41.64  Aligned_cols=20  Identities=45%  Similarity=0.569  Sum_probs=17.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 031411           17 KLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~   36 (160)
                      -.+|+|+.|+||||+++.+.
T Consensus        25 ~~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           25 INLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHH
Confidence            35788999999999998775

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.90  E-value=0.0063  Score=48.26  Aligned_cols=23  Identities=26%  Similarity=0.573  Sum_probs=20.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDGSF   40 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~~~   40 (160)
                      ++++|++|+|||||++.|.+-..
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~~  403 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGALK  403 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCC
Confidence            68999999999999999987543

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.90  E-value=0.0033  Score=49.61  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|+|||||++.+.+-
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            6899999999999999988874

>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=95.87  E-value=0.0069  Score=43.98  Aligned_cols=23  Identities=35%  Similarity=0.459  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...+++.|++|+|||++++.+..
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            35799999999999999999975

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=95.85  E-value=0.022  Score=41.19  Aligned_cols=21  Identities=19%  Similarity=0.324  Sum_probs=17.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      +++.|++|+|||++++.+...
T Consensus        51 ~L~~G~~G~GKT~la~~la~~   71 (324)
T 3u61_B           51 ILHSPSPGTGKTTVAKALCHD   71 (324)
T ss_dssp             EEECSSTTSSHHHHHHHHHHH
T ss_pred             EEeeCcCCCCHHHHHHHHHHH
Confidence            455666999999999999754

>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=95.84  E-value=0.0049  Score=45.50  Aligned_cols=23  Identities=22%  Similarity=0.208  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      --+.|+|++|+|||||+..+...
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999998864

>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=95.83  E-value=0.0051  Score=44.83  Aligned_cols=22  Identities=27%  Similarity=0.623  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .+++.|++|+|||++++.+...
T Consensus        60 ~~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           60 HMLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3899999999999999988764

>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=95.82  E-value=0.0061  Score=40.75  Aligned_cols=21  Identities=24%  Similarity=0.279  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      ++|+|.++||||+|...+...
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            789999999999999999854

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.81  E-value=0.0078  Score=44.53  Aligned_cols=23  Identities=26%  Similarity=0.531  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..+|+++|++|+||||+...|..
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHH
Confidence            46899999999999999987754

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.79  E-value=0.0055  Score=46.10  Aligned_cols=22  Identities=27%  Similarity=0.440  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      --+++.||||+|||.|++.+.+
T Consensus       183 rGvLL~GPPGTGKTllAkAiA~  204 (405)
T 4b4t_J          183 KGVILYGPPGTGKTLLARAVAH  204 (405)
T ss_dssp             CCEEEESCSSSSHHHHHHHHHH
T ss_pred             CceEEeCCCCCCHHHHHHHHHH
Confidence            3689999999999999999976

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=95.79  E-value=0.0061  Score=50.79  Aligned_cols=23  Identities=30%  Similarity=0.580  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.|.++.
T Consensus       463 ~v~LiGpNGsGKSTLLk~LagG~  485 (986)
T 2iw3_A          463 RYGICGPNGCGKSTLMRAIANGQ  485 (986)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57999999999999999998654

>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=95.77  E-value=0.0063  Score=44.32  Aligned_cols=22  Identities=18%  Similarity=0.357  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -|+|+|++|||||+|...|...
T Consensus         5 ~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCcCCHHHHHHHHHHh
Confidence            5789999999999999999764

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=95.77  E-value=0.0048  Score=45.41  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.+++.|++|+|||++++.+...
T Consensus        45 ~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           45 SNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999998763

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.77  E-value=0.0065  Score=44.62  Aligned_cols=22  Identities=36%  Similarity=0.610  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -|+|+|++|||||+|...|...
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999753

>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=95.76  E-value=0.0024  Score=44.97  Aligned_cols=21  Identities=33%  Similarity=0.570  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+++.|++|+|||++++.+..
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            388999999999999999875

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=95.74  E-value=0.0061  Score=44.82  Aligned_cols=22  Identities=23%  Similarity=0.581  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.+++.|++|+|||++++.+..
T Consensus        71 ~~vLl~GppGtGKT~la~~la~   92 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQ   92 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998875

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.72  E-value=0.0094  Score=43.31  Aligned_cols=23  Identities=22%  Similarity=0.455  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .-|+|+|++|||||+|...|...
T Consensus        11 ~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCccCHHHHHHHHHHh
Confidence            35789999999999999999753

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.71  E-value=0.007  Score=43.85  Aligned_cols=22  Identities=45%  Similarity=0.674  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.+++.|++|+|||+|+..+..
T Consensus       153 ~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          153 KGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999988875

>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=95.69  E-value=0.0058  Score=47.76  Aligned_cols=22  Identities=36%  Similarity=0.528  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|+|||||++.+.+.
T Consensus       110 ~vll~Gp~GtGKTtlar~ia~~  131 (543)
T 3m6a_A          110 ILCLAGPPGVGKTSLAKSIAKS  131 (543)
T ss_dssp             EEEEESSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            6899999999999999988753

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=95.68  E-value=0.0096  Score=41.29  Aligned_cols=26  Identities=19%  Similarity=-0.019  Sum_probs=19.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      +++=|++-|+++.|||+|++++....
T Consensus        28 nkilvl~~~~~~~~~~~~~~~lf~~~   53 (233)
T 3uc9_A           28 NKILVLSDHPHNFLKTQFLQDLFHCS   53 (233)
T ss_dssp             CEEEEEEEGGGHHHHHHHHHHHHCCC
T ss_pred             CceEEEecCcccccHHHHHHHHhccc
Confidence            33444444999999999999999863

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.68  E-value=0.0081  Score=41.68  Aligned_cols=22  Identities=27%  Similarity=0.428  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|++.|..||||||+++.|..
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~   24 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999999875

>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=95.67  E-value=0.0062  Score=46.33  Aligned_cols=21  Identities=33%  Similarity=0.657  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+++.|++|+|||+|++.+.+
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            689999999999999998876

>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=95.66  E-value=0.0066  Score=44.84  Aligned_cols=23  Identities=35%  Similarity=0.466  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.+++.|++|+|||+|++.+...
T Consensus        85 ~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Confidence            46999999999999999998863

>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=95.66  E-value=0.007  Score=42.53  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      ..+++.|++|+|||++++.+....
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             CCEEEECCCCCcHHHHHHHHHHhc
Confidence            469999999999999999998643

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=95.66  E-value=0.0063  Score=46.66  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -+++++|++|+|||++++.+..
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            4789999999999999988864

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.65  E-value=0.0067  Score=44.12  Aligned_cols=23  Identities=30%  Similarity=0.393  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ..+++.|++|+|||++++.+...
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            35899999999999999999653

>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=95.64  E-value=0.0069  Score=44.70  Aligned_cols=24  Identities=33%  Similarity=0.455  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ...+++.|++|+|||++++.+...
T Consensus        51 ~~~vll~GppGtGKT~la~~ia~~   74 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAETLARL   74 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999998763

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=95.62  E-value=0.0076  Score=41.33  Aligned_cols=22  Identities=27%  Similarity=0.311  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .-|++.|.+|+||||+++.|..
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~   28 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAE   28 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5689999999999999998864

>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=95.61  E-value=0.0072  Score=44.81  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ..+++.|++|+|||++++.+...
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999998763

>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=95.58  E-value=0.007  Score=44.64  Aligned_cols=22  Identities=23%  Similarity=0.342  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .+++.|++|+|||++++.+...
T Consensus        47 ~vll~G~~G~GKT~la~~l~~~   68 (384)
T 2qby_B           47 SNLFLGLTGTGKTFVSKYIFNE   68 (384)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999988763

>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=95.58  E-value=0.007  Score=47.06  Aligned_cols=19  Identities=37%  Similarity=0.649  Sum_probs=0.0

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 031411           18 LLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~   36 (160)
                      ++++|++|+|||||++.++
T Consensus        42 ~~l~G~nGsGKSTL~~~~l   60 (525)
T 1tf7_A           42 TLVSGTSGTGKTLFSIQFL   60 (525)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHH

>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=95.57  E-value=0.022  Score=42.25  Aligned_cols=46  Identities=24%  Similarity=0.261  Sum_probs=30.3

Q ss_pred             ccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           85 YRGAMGILLVYDVTDES-SFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ..++|.+++|... .|. +...+.+++.....   .++|.++++||+||.+
T Consensus       128 ~anvD~v~iv~a~-~P~~~~~~i~r~L~~a~~---~~~~~iivlNK~DL~~  174 (358)
T 2rcn_A          128 AANIDQIVIVSAI-LPELSLNIIDRYLVGCET---LQVEPLIVLNKIDLLD  174 (358)
T ss_dssp             EECCCEEEEEEES-TTTCCHHHHHHHHHHHHH---HTCEEEEEEECGGGCC
T ss_pred             HhcCCEEEEEEeC-CCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCC
Confidence            5789999988665 453 33444444433322   2678899999999963

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.56  E-value=0.0047  Score=48.41  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ...++|+|++||||||+++.|.+.
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCChHHHHHHHHHHh
Confidence            357999999999999999988753

>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=95.56  E-value=0.0084  Score=44.26  Aligned_cols=23  Identities=26%  Similarity=0.392  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ..+++.|++|+|||++++.+...
T Consensus       118 ~~vLl~GppGtGKT~la~aia~~  140 (357)
T 3d8b_A          118 KGILLFGPPGTGKTLIGKCIASQ  140 (357)
T ss_dssp             SEEEEESSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999753

---

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	160
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-45
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	5e-45
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	1e-42
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	4e-40
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	9e-39
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	9e-39
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	2e-37
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	1e-36
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	5e-35
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	1e-33
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	6e-33
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	5e-31
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	2e-29
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	2e-28
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	6e-28
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	2e-26
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	4e-26
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	5e-26
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	2e-25
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	1e-24
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	3e-24
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	8e-24
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	1e-23
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	7e-23
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	7e-23
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	1e-22
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	2e-22
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	3e-22
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	2e-21
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	2e-21
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	5e-21
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	6e-21
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	7e-21
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-20
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	4e-20
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	5e-20
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	1e-19
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	8e-19
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	5e-18
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	5e-18
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	6e-18
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	1e-16
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	1e-16
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	3e-16
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	3e-16
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	6e-16
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-15
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	5e-15
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	6e-15
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	5e-14
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	9e-13
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-12
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	3e-12
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	7e-12
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	1e-11
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	4e-11
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	2e-09
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	6e-05
d1h65a_	257	c.37.1.8 (A:) Chloroplast protein translocon GTPas	7e-04
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	0.001
d1xzpa2	160	c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotog	0.004

>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 =  144 bits (364), Expect = 2e-45
 Identities = 96/121 (79%), Positives = 113/121 (93%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           YDYL KLLLIGDSGVGK+C+L RFS+ +F ++FI+TIGIDFKIRTIELDGKRIKLQIWDT
Sbjct: 3   YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDT 62

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           AGQERFRTITTAYYRGAMGI+LVYD+T+E SF+NIRNWIRNIE+HAS +V K+++GNK D
Sbjct: 63  AGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCD 122

Query: 132 M 132
           +
Sbjct: 123 V 123

>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 =  144 bits (363), Expect = 5e-45
 Identities = 82/125 (65%), Positives = 110/125 (88%)

Query: 10  ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIW 69
           ++YDYL KLLLIG+SGVGKSCLLLRFSD ++T  +I+TIG+DFKI+T+ELDGK +KLQIW
Sbjct: 1   SEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIW 60

Query: 70  DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNK 129
           DTAGQERFRTIT++YYRG+ GI++VYDVTD+ SFN ++ W++ I+++A+  V K+LVGNK
Sbjct: 61  DTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNK 120

Query: 130 ADMDE 134
            D+ +
Sbjct: 121 CDLKD 125

>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 =  137 bits (346), Expect = 1e-42
 Identities = 70/135 (51%), Positives = 99/135 (73%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
           DYD+L K++LIG++GVGK+CL+ RF+ G F      TIG+DF I+T+E++G+++KLQIWD
Sbjct: 1   DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWD 60

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           TAGQERFR+IT +YYR A  ++L YD+T E SF  +  W+R IEQ+AS+ V  +LVGNK 
Sbjct: 61  TAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKI 120

Query: 131 DMDESKREAPFCLHE 145
           D+ E +  +     E
Sbjct: 121 DLAERREVSQQRAEE 135

>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 =  130 bits (328), Expect = 4e-40
 Identities = 81/118 (68%), Positives = 103/118 (87%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           ++K+LLIGDSGVGKSCLL+RF +  F  SFITTIGIDFKI+T++++GK++KLQIWDTAGQ
Sbjct: 2   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ 61

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           ERFRTITTAYYRGAMGI+LVYD+TDE +F NI+ W + + +HA+D    +LVGNK+DM
Sbjct: 62  ERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 119

>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 =  127 bits (320), Expect = 9e-39
 Identities = 72/135 (53%), Positives = 105/135 (77%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWD 70
           ++DY+ K+L+IG+S VGK+  L R++D SFT +F++T+GIDFK++TI  + KRIKLQIWD
Sbjct: 1   NFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWD 60

Query: 71  TAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA 130
           TAGQER+RTITTAYYRGAMG +L+YD+T+E SFN +++W   I+ ++ DN   +LVGNK 
Sbjct: 61  TAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKC 120

Query: 131 DMDESKREAPFCLHE 145
           DM++ +  +     +
Sbjct: 121 DMEDERVVSSERGRQ 135

>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 =  127 bits (320), Expect = 9e-39
 Identities = 67/121 (55%), Positives = 90/121 (74%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           YDYL K++LIGDSGVGKS LL RF+   F     +TIG++F  R+I++DGK IK QIWDT
Sbjct: 1   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 60

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           AGQER+R IT+AYYRGA+G LLVYD+    ++ N+  W++ +  HA  N+  +LVGNK+D
Sbjct: 61  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 120

Query: 132 M 132
           +
Sbjct: 121 L 121

>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 =  124 bits (311), Expect = 2e-37
 Identities = 62/122 (50%), Positives = 88/122 (72%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           Y Y+ K ++IGD GVGKSCLL +F++  F      TIG++F  R IE+ G++IKLQIWDT
Sbjct: 1   YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDT 60

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           AGQERFR +T +YYRGA G L+VYD+T  S++N++ +W+ +     + N   IL+GNKAD
Sbjct: 61  AGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKAD 120

Query: 132 MD 133
           ++
Sbjct: 121 LE 122

>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 =  122 bits (306), Expect = 1e-36
 Identities = 66/125 (52%), Positives = 98/125 (78%), Gaps = 1/125 (0%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIW 69
            YD   K++L+GDSGVGK+CLL+RF DG+F   +FI+T+GIDF+ + +++DG ++KLQ+W
Sbjct: 2   FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMW 61

Query: 70  DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNK 129
           DTAGQERFR++T AYYR A  +LL+YDVT+++SF+NI+ W+  I ++A  +V  +L+GNK
Sbjct: 62  DTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNK 121

Query: 130 ADMDE 134
            D   
Sbjct: 122 VDSAH 126

>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 =  118 bits (296), Expect = 5e-35
 Identities = 63/134 (47%), Positives = 86/134 (64%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           YD+L K L+IG++G GKSCLL +F +  F      TIG++F  + I + GK +KLQIWDT
Sbjct: 2   YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDT 61

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
           AGQERFR++T +YYRGA G LLVYD+T   ++N + NW+ +    AS N+  IL GNK D
Sbjct: 62  AGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKD 121

Query: 132 MDESKREAPFCLHE 145
           +D  +         
Sbjct: 122 LDADREVTFLEASR 135

>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 =  115 bits (288), Expect = 1e-33
 Identities = 65/146 (44%), Positives = 96/146 (65%), Gaps = 11/146 (7%)

Query: 11  DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL----------D 60
           DYDYLIKLL +GDSGVGK+  L R++D  F   FITT+GIDF+ + +             
Sbjct: 1   DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGK 60

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQH-ASD 119
             ++ LQ+WDTAGQERFR++TTA++R AMG LL++D+T + SF N+RNW+  ++ +   +
Sbjct: 61  AFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCE 120

Query: 120 NVNKILVGNKADMDESKREAPFCLHE 145
           N + +L+GNKAD+ + +        E
Sbjct: 121 NPDIVLIGNKADLPDQREVNERQARE 146

>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 =  113 bits (282), Expect = 6e-33
 Identities = 65/137 (47%), Positives = 90/137 (65%), Gaps = 3/137 (2%)

Query: 11  DYDYL--IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQI 68
           D D L  +K+L+IG+SGVGKS LLLRF+D +F      TIG+DFK++TI +DG + KL I
Sbjct: 1   DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAI 60

Query: 69  WDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGN 128
           WDTAGQERFRT+T +YYRGA G++LVYDVT   +F  + NW+  +E + + N    ++  
Sbjct: 61  WDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVG 120

Query: 129 KADMDESKREAPFCLHE 145
              +D+  RE       
Sbjct: 121 N-KIDKENREVDRNEGL 136

>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 =  108 bits (269), Expect = 5e-31
 Identities = 66/120 (55%), Positives = 92/120 (76%)

Query: 14  YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG 73
           YL K ++IGD+GVGKSCLLL+F+D  F      TIG++F  R + +DGK+IKLQIWDTAG
Sbjct: 2   YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 61

Query: 74  QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD 133
           QE FR+IT +YYRGA G LLVYD+T   +FN++ +W+ +  QH+S N+  +L+GNK+D++
Sbjct: 62  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE 121

>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 =  103 bits (258), Expect = 2e-29
 Identities = 49/129 (37%), Positives = 80/129 (62%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+ +G+  VGK+ L+ RF   SF  ++  TIGIDF  +T+ L+ + I+LQ+WDTAGQER
Sbjct: 2   KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQER 61

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK 136
           FR++  +Y R +   ++VYD+T+ +SF     WI ++      +V  +LVGNK D+ + +
Sbjct: 62  FRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKR 121

Query: 137 REAPFCLHE 145
           + +      
Sbjct: 122 QVSIEEGER 130

>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 =  101 bits (251), Expect = 2e-28
 Identities = 50/132 (37%), Positives = 81/132 (61%)

Query: 14  YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG 73
           Y  K++L+G+  VGK+ L+LR+ +  F    ITT+G  F  + + + GKR+ L IWDTAG
Sbjct: 2   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAG 61

Query: 74  QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD 133
           QERF  +   YYR + G +LVYD+TDE SF  ++NW++ + +   + +   +VGNK D++
Sbjct: 62  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 121

Query: 134 ESKREAPFCLHE 145
           + +  +      
Sbjct: 122 KERHVSIQEAES 133

>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 =  100 bits (249), Expect = 6e-28
 Identities = 34/130 (26%), Positives = 60/130 (46%), Gaps = 1/130 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+ ++   F + ++ T+  D    T+ + G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQE 62

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
            +  +    Y      L+ + V   SSF N++        H       +LVG + D+ + 
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDD 122

Query: 136 KREAPFCLHE 145
                     
Sbjct: 123 PSTIEKLAKN 132

>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 = 95.9 bits (237), Expect = 2e-26
 Identities = 55/128 (42%), Positives = 80/128 (62%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+L+G+S VGKS L+LRF  G F     +TIG  F  +T+ LD   +K +IWDTAGQER
Sbjct: 8   KLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQER 67

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESK 136
           + ++   YYRGA   ++VYD+T+E SF   +NW++ +++ AS N+   L GNKAD+   +
Sbjct: 68  YHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKR 127

Query: 137 REAPFCLH 144
                   
Sbjct: 128 AVDFQEAQ 135

>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 = 95.8 bits (237), Expect = 4e-26
 Identities = 35/137 (25%), Positives = 71/137 (51%), Gaps = 7/137 (5%)

Query: 1   MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELD 60
           MA  P         ++K +++GD  VGK+CLL+ +++ +F   ++ T+  D    ++ + 
Sbjct: 1   MAHGP------GALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVG 53

Query: 61  GKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN 120
           GK+  L ++DTAGQE +  +    Y      L+ + V + +SF N++       +  + N
Sbjct: 54  GKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPN 113

Query: 121 VNKILVGNKADMDESKR 137
           V  +L+G + D+ +  +
Sbjct: 114 VPFLLIGTQIDLRDDPK 130

>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 = 95.0 bits (235), Expect = 5e-26
 Identities = 53/129 (41%), Positives = 79/129 (61%), Gaps = 4/129 (3%)

Query: 10  ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIW 69
           A    L K++L+GD GVGKS L+ R+    F T    TIG++F  + +E+DG  + +QIW
Sbjct: 1   AGKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIW 60

Query: 70  DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKIL 125
           DTAGQERFR++ T +YRG+   LL + V D  SF N+ NW +    +A     ++   ++
Sbjct: 61  DTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVI 120

Query: 126 VGNKADMDE 134
           +GNK D+ E
Sbjct: 121 LGNKIDISE 129

>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 = 93.9 bits (232), Expect = 2e-25
 Identities = 40/129 (31%), Positives = 64/129 (49%), Gaps = 1/129 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK +++GD  VGK+CLL+ ++  +F   +I T+  D     + +DGK + L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 64

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
            +  +    Y      L+ + +   +SF N+R       +H   N   ILVG K D+ + 
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDD 124

Query: 136 KREAPFCLH 144
           K        
Sbjct: 125 KDTIEKLKE 133

>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 = 91.7 bits (226), Expect = 1e-24
 Identities = 55/145 (37%), Positives = 82/145 (56%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IKL+L+G++ VGKS ++LRF    F  +   TIG  F  + + ++   +K +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           RF ++   YYR A   L+VYDVT   SF   R+W++ + + AS ++   LVGNK DM + 
Sbjct: 64  RFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQE 123

Query: 136 KREAPFCLHETILLTVQVHLVILKV 160
             E      E   L  +  L+  + 
Sbjct: 124 GGERKVAREEGEKLAEEKGLLFFET 148

>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 = 90.4 bits (223), Expect = 3e-24
 Identities = 43/118 (36%), Positives = 66/118 (55%), Gaps = 2/118 (1%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            K++++G  GVGKS L ++F  G+F   +  TI  DF  + IE+D     L+I DTAG E
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIE-QHASDNVNKILVGNKADM 132
           +F ++   Y +   G +LVY + ++ SF +I+     I      + V  ILVGNK D+
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDL 120

>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 = 89.7 bits (221), Expect = 8e-24
 Identities = 30/121 (24%), Positives = 63/121 (52%), Gaps = 1/121 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            K++++GDS  GK+ LL  F+   F  +++ T+  +    + E+D +RI+L +WDT+G  
Sbjct: 3   CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSP 61

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
            +  +    Y  +  +L+ +D++   + +++    +   Q    N   +LVG K+D+   
Sbjct: 62  YYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTD 121

Query: 136 K 136
            
Sbjct: 122 V 122

>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 = 88.9 bits (219), Expect = 1e-23
 Identities = 40/121 (33%), Positives = 63/121 (52%), Gaps = 1/121 (0%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            KL+++GD   GK+CLL+  S   F   ++ T+  +  +  IE+DGK+++L +WDTAG E
Sbjct: 3   KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLE 61

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
            +  +    Y     IL+ + +    S  NI        +H   NV  ILVGNK D+   
Sbjct: 62  DYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRND 121

Query: 136 K 136
           +
Sbjct: 122 E 122

>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 = 87.0 bits (214), Expect = 7e-23
 Identities = 41/127 (32%), Positives = 64/127 (50%), Gaps = 2/127 (1%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++G  GVGKS L ++     F   +  TI  D   + + +DG+   L I DTAGQE 
Sbjct: 5   KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEE 63

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDES 135
           +  +   Y R   G L V+ + +  SF +I  +   I++    D+V  +LVGNK D+   
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAAR 123

Query: 136 KREAPFC 142
             E+   
Sbjct: 124 TVESRQA 130

>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 = 87.0 bits (214), Expect = 7e-23
 Identities = 42/122 (34%), Positives = 60/122 (49%), Gaps = 2/122 (1%)

Query: 13  DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTA 72
               KL+++G  GVGKS L ++F    F + +      D   +   +DG   +L I DTA
Sbjct: 4   SETHKLVVVGGGGVGKSALTIQFIQSYFVSDYD-PTIEDSYTKICSVDGIPARLDILDTA 62

Query: 73  GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNKAD 131
           GQE F  +   Y R   G LLV+ + D  SFN +      I      D+   +LVGNKAD
Sbjct: 63  GQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKAD 122

Query: 132 MD 133
           ++
Sbjct: 123 LE 124

>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 = 87.1 bits (214), Expect = 1e-22
 Identities = 47/122 (38%), Positives = 80/122 (65%), Gaps = 4/122 (3%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           L+K++++GDSGVGK+ L+ ++ +  F+  +  TIG DF  + + +D + + +QIWDTAGQ
Sbjct: 2   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 61

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS----DNVNKILVGNKA 130
           ERF+++  A+YRGA   +LV+DVT  ++F  + +W       AS    +N   +++GNK 
Sbjct: 62  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 121

Query: 131 DM 132
           D+
Sbjct: 122 DL 123

>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 = 85.8 bits (211), Expect = 2e-22
 Identities = 43/131 (32%), Positives = 72/131 (54%), Gaps = 2/131 (1%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            KL+++G  GVGKS L ++F  G F   +  TI  D   + +E+D ++  L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTAGTE 62

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNKADMDE 134
           +F  +   Y +   G  LVY +T +S+FN++++    I     +++V  ILVGNK D+++
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 135 SKREAPFCLHE 145
            +         
Sbjct: 123 ERVVGKEQGQN 133

>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 = 85.5 bits (210), Expect = 3e-22
 Identities = 54/136 (39%), Positives = 90/136 (66%), Gaps = 5/136 (3%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRI-KLQIWDTAG 73
           ++K++++GDSGVGK+ L+ R+ +  ++  +  TIG DF  + + +DG ++  +Q+WDTAG
Sbjct: 2   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 61

Query: 74  QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNK----ILVGNK 129
           QERF+++  A+YRGA   +LVYDVT+ SSF NI++W      HA+ N  +    +++GNK
Sbjct: 62  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNK 121

Query: 130 ADMDESKREAPFCLHE 145
            D +ESK+       +
Sbjct: 122 IDAEESKKIVSEKSAQ 137

>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 = 83.1 bits (204), Expect = 2e-21
 Identities = 42/119 (35%), Positives = 65/119 (54%), Gaps = 2/119 (1%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           L K++++G  GVGKS L L+F    F   +  T   D   + + LDG+ +++ I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILDTAGQ 62

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNI-EQHASDNVNKILVGNKADM 132
           E +  I   Y+R   G L V+ +T+  SF    ++   I      +NV  +LVGNK+D+
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDL 121

>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 = 83.2 bits (204), Expect = 2e-21
 Identities = 55/120 (45%), Positives = 86/120 (71%), Gaps = 2/120 (1%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           + K+++IGDS VGK+CL  RF  G F      TIG+DF+ R +++DG+RIK+Q+WDTAGQ
Sbjct: 2   IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 61

Query: 75  ERF-RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADM 132
           ERF +++   YYR    ++ VYD+T+ +SF+++  WI   +QH  ++++ +ILVGNK D+
Sbjct: 62  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 121

>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 = 82.0 bits (201), Expect = 5e-21
 Identities = 48/117 (41%), Positives = 75/117 (64%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +K+ L+GD+GVGKS ++ RF + SF  +   TIG  F  +T++   +  K  IWDTAG E
Sbjct: 5   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 64

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           RFR +   YYRG+   ++VYD+T E +F+ ++NW+R + QH   ++   + GNK D+
Sbjct: 65  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDL 121

>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 = 82.9 bits (204), Expect = 6e-21
 Identities = 25/140 (17%), Positives = 46/140 (32%), Gaps = 19/140 (13%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           Y    +LLL+G    GKS ++ +          + T GI       +    ++   ++D 
Sbjct: 3   YRATHRLLLLGAGESGKSTIVKQMRIL----HVVLTSGIFET----KFQVDKVNFHMFDV 54

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQH-----------ASDN 120
            GQ   R      +     I+ V   +  +      N    +++                
Sbjct: 55  GGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRT 114

Query: 121 VNKILVGNKADMDESKREAP 140
           ++ IL  NK D+   K  A 
Sbjct: 115 ISVILFLNKQDLLAEKVLAG 134

>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 = 81.6 bits (200), Expect = 7e-21
 Identities = 23/123 (18%), Positives = 45/123 (36%), Gaps = 5/123 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +   G   T                ++ K I   +WD  GQ+
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEIVT-----TIPTIGFNVETVEYKNISFTVWDVGGQD 55

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
           + R +   Y++   G++ V D  D    N  R  +  +          +LV        +
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 115

Query: 136 KRE 138
              
Sbjct: 116 AMN 118

>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 = 81.2 bits (199), Expect = 1e-20
 Identities = 30/124 (24%), Positives = 58/124 (46%), Gaps = 6/124 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G    GK+ +L +   G   T+ I T+G + +  T     K +K  +WD  GQ+
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQSVTT-IPTVGFNVETVTY----KNVKFNVWDVGGQD 67

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE 134
           + R +   YY G  G++ V D  D    +  R  +  I       +   ++  NK D+ +
Sbjct: 68  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 127

Query: 135 SKRE 138
           + + 
Sbjct: 128 AMKP 131

>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 = 79.7 bits (195), Expect = 4e-20
 Identities = 44/104 (42%), Positives = 65/104 (62%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           IK++++G+  VGKS ++ R+  G FT  +  TIG+DF  R I+++ + ++L +WDTAGQE
Sbjct: 3   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE 62

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASD 119
            F  IT AYYRGA   +LV+  TD  SF  I +W   +     D
Sbjct: 63  EFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGD 106

>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 = 79.6 bits (195), Expect = 5e-20
 Identities = 31/128 (24%), Positives = 54/128 (42%), Gaps = 6/128 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G  G GK+ +L R   G   T+   TIG + +     L  K +KL +WD  GQ 
Sbjct: 18  LRILILGLDGAGKTTILYRLQIGEVVTTKP-TIGFNVET----LSYKNLKLNVWDLGGQT 72

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE 134
             R     YY     ++ V D TD+   +     +  + Q     +   ++  NK D   
Sbjct: 73  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG 132

Query: 135 SKREAPFC 142
           +   +   
Sbjct: 133 ALSASEVS 140

>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 = 78.5 bits (192), Expect = 1e-19
 Identities = 46/118 (38%), Positives = 63/118 (53%), Gaps = 2/118 (1%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           +L+++G  GVGKS L ++F    F T +  TI  D   +   +D +  +L I DTAGQE 
Sbjct: 7   RLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEE 65

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIR-NIEQHASDNVNKILVGNKADMD 133
           F  +   Y R   G LLV+ VTD  SF  I  + R  +     D    IL+GNKAD+D
Sbjct: 66  FGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLD 123

>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 = 77.3 bits (189), Expect = 8e-19
 Identities = 26/132 (19%), Positives = 46/132 (34%), Gaps = 17/132 (12%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +KLLL+G    GKS  + +      +   + T GI         D + +  ++ D  GQ 
Sbjct: 3   LKLLLLGTGESGKSTFIKQMRIIHGSG--VPTTGIIEY----PFDLQSVIFRMVDVGGQR 56

Query: 76  RFRTITTAYYRGAMGILLVYDVTD-----------ESSFNNIRNWIRNIEQHASDNVNKI 124
             R      +     I+ +  +++                +   +   I      N + I
Sbjct: 57  SERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVI 116

Query: 125 LVGNKADMDESK 136
           L  NK D+ E K
Sbjct: 117 LFLNKKDLLEEK 128

>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 = 74.3 bits (181), Expect = 5e-18
 Identities = 44/132 (33%), Positives = 67/132 (50%), Gaps = 2/132 (1%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+++GD GVGKS L ++F    F   +  TI  D  ++  E+D +   L + DTAGQE 
Sbjct: 6   KLVVVGDGGVGKSALTIQFFQKIFVPDYDPTI-EDSYLKHTEIDNQWAILDVLDTAGQEE 64

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNK-ILVGNKADMDES 135
           F  +   Y R   G L+VY VTD++SF ++  + + I +         ILV NK D+   
Sbjct: 65  FSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHL 124

Query: 136 KREAPFCLHETI 147
           ++       E  
Sbjct: 125 RKVTRDQGKEMA 136

>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 = 74.9 bits (183), Expect = 5e-18
 Identities = 28/133 (21%), Positives = 44/133 (33%), Gaps = 18/133 (13%)

Query: 15  LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ 74
           L+K+LL+G    GKS  L +            T GI       + + K +  ++ D  GQ
Sbjct: 2   LVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHEY----DFEIKNVPFKMVDVGGQ 54

Query: 75  ERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRN-----------IEQHASDNVNK 123
              R      +     IL +   ++                        +      NV+ 
Sbjct: 55  RSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSI 114

Query: 124 ILVGNKADMDESK 136
           IL  NK D+ E K
Sbjct: 115 ILFLNKTDLLEEK 127

>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 = 74.3 bits (181), Expect = 6e-18
 Identities = 39/119 (32%), Positives = 59/119 (49%), Gaps = 3/119 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +KL + G +GVGKS L++RF    F   +  T+   ++ +    D + + ++I DT   +
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATI-DDEVVSMEILDT-AGQ 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIR-NIEQHASDNVNKILVGNKADMD 133
                   + R   G +LVYD+TD  SF  +        E     NV  ILVGNKAD+D
Sbjct: 61  EDTIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLD 119

>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 = 70.5 bits (171), Expect = 1e-16
 Identities = 24/110 (21%), Positives = 41/110 (37%), Gaps = 5/110 (4%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KLL +G    GK+ LL    +         T+   +   + EL    IK   +D  G  +
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRL-----ATLQPTWHPTSEELAIGNIKFTTFDLGGHIQ 56

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV 126
            R +   Y+    GI+ + D  D   F+  R  +  +   A       ++
Sbjct: 57  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVI 106

>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 = 70.4 bits (171), Expect = 1e-16
 Identities = 36/120 (30%), Positives = 54/120 (45%), Gaps = 3/120 (2%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            ++ + G  GVGKS L+LRF  G+F  S+I T+   ++      D     LQI DT G  
Sbjct: 3   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISC-DKSICTLQITDTTGSH 61

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNK--ILVGNKADMD 133
           +F  +           +LVY +T   S   ++     I +   D  +   +LVGNK D  
Sbjct: 62  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 121

>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 = 69.7 bits (169), Expect = 3e-16
 Identities = 26/124 (20%), Positives = 51/124 (41%), Gaps = 6/124 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           ++LL++G    GK+ +L +F+          TI          L+ +  KL IWD  GQ+
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGEDV-----DTISPTLGFNIKTLEHRGFKLNIWDVGGQK 57

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE 134
             R+    Y+    G++ V D  D     + +  ++++           ++  NK D+  
Sbjct: 58  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG 117

Query: 135 SKRE 138
           +   
Sbjct: 118 ALSC 121

>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 = 70.4 bits (171), Expect = 3e-16
 Identities = 19/124 (15%), Positives = 44/124 (35%), Gaps = 5/124 (4%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
            +L +G    GK+ L +R   G +  +  T+I     I  +  +       I     +  
Sbjct: 2   AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVNNNRGNSLTLIDLPGHESL 60

Query: 77  FRTITTAYYRGAMGILLVYDVTD-ESSFNNIRNWIRNIEQHASDNVNK---ILVGNKADM 132
              +   +   A  ++ V D    +    ++  ++  +   +    N    ++  NK D+
Sbjct: 61  RFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDI 120

Query: 133 DESK 136
             +K
Sbjct: 121 AMAK 124

>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 = 69.2 bits (168), Expect = 6e-16
 Identities = 25/132 (18%), Positives = 42/132 (31%), Gaps = 20/132 (15%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +KLLL+G    GKS ++ +        + I      FK             +++D  GQ 
Sbjct: 3   VKLLLLGAGESGKSTIVKQMKIIHEAGTGIVETHFTFKDLHF---------KMFDVGGQR 53

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRN-----------WIRNIEQHASDNVNKI 124
             R      + G   I+    ++D                    +          + + I
Sbjct: 54  SERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSII 113

Query: 125 LVGNKADMDESK 136
           L  NK D+ E K
Sbjct: 114 LFLNKKDLFEEK 125

>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 = 68.1 bits (165), Expect = 1e-15
 Identities = 27/136 (19%), Positives = 54/136 (39%), Gaps = 6/136 (4%)

Query: 7   RARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKL 66
           + ++  D  +++LL+G    GK+ LL + +    +     T G + K        +  KL
Sbjct: 8   KLKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISH-ITPTQGFNIKSVQS----QGFKL 62

Query: 67  QIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKIL 125
            +WD  GQ + R    +Y+     ++ V D  D   F      +  + +      V  ++
Sbjct: 63  NVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLI 122

Query: 126 VGNKADMDESKREAPF 141
             NK D+  +   +  
Sbjct: 123 FANKQDLLTAAPASEI 138

>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 = 66.6 bits (161), Expect = 5e-15
 Identities = 27/124 (21%), Positives = 48/124 (38%), Gaps = 6/124 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            K++++G    GK+ +L +FS      +  T      +I          +  +WD  GQE
Sbjct: 16  HKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVEEIVIN-----NTRFLMWDIGGQE 70

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE 134
             R+    YY     +++V D TD    +  R  +  +  H        ++  NK D+ E
Sbjct: 71  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE 130

Query: 135 SKRE 138
               
Sbjct: 131 CMTV 134

>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 = 66.2 bits (160), Expect = 6e-15
 Identities = 39/116 (33%), Positives = 66/116 (56%), Gaps = 1/116 (0%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           KL+L+GD G GK+  + R   G F   ++ T+G++        +   IK  +WDTAGQE+
Sbjct: 5   KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEK 64

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM 132
           F  +   YY  A   ++++DVT   ++ N+ NW R++ +   +N+  +L GNK D+
Sbjct: 65  FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDI 119

>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 = 64.0 bits (154), Expect = 5e-14
 Identities = 38/118 (32%), Positives = 61/118 (51%), Gaps = 2/118 (1%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
            K+ ++G   VGKS L ++F +G F  S+  TI  +   + I ++G+   LQ+ DTAGQ+
Sbjct: 5   RKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTI-ENTFTKLITVNGQEYHLQLVDTAGQD 63

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKADM 132
            +      Y     G +LVY VT   SF  I+    + ++      +  +LVGNK D+
Sbjct: 64  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDL 121

>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 = 60.5 bits (145), Expect = 9e-13
 Identities = 29/131 (22%), Positives = 55/131 (41%), Gaps = 5/131 (3%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           ++L L+G    GK+  +   + G F    I T          ++    + +++WD  GQ 
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIPT----VGFNMRKITKGNVTIKLWDIGGQP 58

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE 134
           RFR++   Y RG   I+ + D  D+      +N + N+        +  +++GNK D+  
Sbjct: 59  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 118

Query: 135 SKREAPFCLHE 145
           +  E       
Sbjct: 119 ALDEKELIEKM 129

>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 = 59.7 bits (143), Expect = 2e-12
 Identities = 25/131 (19%), Positives = 48/131 (36%), Gaps = 6/131 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           +++L++G  G GK+ +L R   G        T           +  K +K Q+WD  G  
Sbjct: 6   MRILILGLDGAGKTTILYRLQVGEV-----VTTIPTIGFNVETVTYKNLKFQVWDLGGLT 60

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI-LVGNKADMDE 134
             R     YY     ++ V D  D       ++ +  + +        + +  NK DM++
Sbjct: 61  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ 120

Query: 135 SKREAPFCLHE 145
           +   +      
Sbjct: 121 AMTSSEMANSL 131

>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 = 59.2 bits (142), Expect = 3e-12
 Identities = 21/120 (17%), Positives = 48/120 (40%), Gaps = 4/120 (3%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQE 75
           ++L ++GD+  GKS L+ RF  GS+          +   + + +DG+   + I + AG  
Sbjct: 6   LRLGVLGDARSGKSSLIHRFLTGSYQVL--EKTESEQYKKEMLVDGQTHLVLIREEAGAP 63

Query: 76  RFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES 135
             +          + +  + D     + + +   + ++       +   LVG +  +  S
Sbjct: 64  DAKFSGW--ADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISAS 121

>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 = 58.6 bits (140), Expect = 7e-12
 Identities = 22/122 (18%), Positives = 38/122 (31%), Gaps = 6/122 (4%)

Query: 12  YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           Y    KL+ +G    GK+ LL    D            +      + + G          
Sbjct: 10  YKKTGKLVFLGLDNAGKTTLLHMLKDDRL---GQHVPTLHPTSEELTIAGMTFTTFDLGG 66

Query: 72  AGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWI-RNIEQHASDNVNKILVGNKA 130
               + R +   Y     GI+ + D  D       +  +   +      NV  +++GNK 
Sbjct: 67  --HIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKI 124

Query: 131 DM 132
           D 
Sbjct: 125 DR 126

>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 = 57.5 bits (137), Expect = 1e-11
 Identities = 33/136 (24%), Positives = 61/136 (44%), Gaps = 3/136 (2%)

Query: 13  DYLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDT 71
           +   +++LIG+ GVGKS L   F+    +  S    +G D   RT+ +DG+   + + D 
Sbjct: 1   NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDM 60

Query: 72  A-GQERFRTITTAYYRGAMGILLVYDVTDESSFNNIR-NWIRNIEQHASDNVNKILVGNK 129
              +     +     +     L+VY +TD +SF       I+      ++++  ILVGNK
Sbjct: 61  WENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 120

Query: 130 ADMDESKREAPFCLHE 145
           +D+   +  +      
Sbjct: 121 SDLVRCREVSVSEGRA 136

>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 = 55.9 bits (133), Expect = 4e-11
 Identities = 36/122 (29%), Positives = 55/122 (45%), Gaps = 3/122 (2%)

Query: 17  KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER 76
           K+LL+G  GVGKS L   F                   R+I +DG+   L ++D   Q+ 
Sbjct: 3   KVLLLGAPGVGKSALARIFGGVEDGPE--AEAAGHTYDRSIVVDGEEASLMVYDIWEQDG 60

Query: 77  FRTITTAYYRGAMGILLVYDVTDESSFNNIRNW-IRNIEQHASDNVNKILVGNKADMDES 135
            R +           ++VY VTD+ SF       ++      +D+V  ILVGNK+D+  S
Sbjct: 61  GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRS 120

Query: 136 KR 137
           + 
Sbjct: 121 RE 122

>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 = 51.9 bits (123), Expect = 2e-09
 Identities = 21/132 (15%), Positives = 47/132 (35%), Gaps = 15/132 (11%)

Query: 14  YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG 73
           Y   +++ G    GK+ LL   +  S       T+     +   + DG  +   + D  G
Sbjct: 2   YQPSIIIAGPQNSGKTSLLTLLTTDSVR----PTVVSQEPLSAADYDGSGV--TLVDFPG 55

Query: 74  QERFRTITTAYY-----RGAMGILLVYDVTDESSFNNIRNWIRNI----EQHASDNVNKI 124
             + R   + Y           I +V    D         ++ +I    E    + ++ +
Sbjct: 56  HVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDIL 115

Query: 125 LVGNKADMDESK 136
           +  NK+++  ++
Sbjct: 116 IACNKSELFTAR 127

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.8 bits (92), Expect = 6e-05
 Identities = 16/129 (12%), Positives = 29/129 (22%), Gaps = 7/129 (5%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTI--ELDGKRIKLQIWDTAG 73
           + + + G++G GKS  +                G+                 +  WD  G
Sbjct: 57  LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPG 116

Query: 74  QERFRTITTAYYR--GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKAD 131
                     Y              ++      N  +  + I            V  K D
Sbjct: 117 IGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIAKAISMM---KKEFYFVRTKVD 173

Query: 132 MDESKREAP 140
            D +     
Sbjct: 174 SDITNEADG 182

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]} Length = 257

class: 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]

 Score = 36.3 bits (83), Expect = 7e-04
 Identities = 17/134 (12%), Positives = 33/134 (24%), Gaps = 12/134 (8%)

Query: 16  IKLLLIGDSGVGKSCLLLRF--------SDGSFTTSFITTIGIDFKIRTIELDGKRIKLQ 67
           + +L++G  GVGKS  +           S           +       T+ +      L 
Sbjct: 33  LTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNI-IDTPGLI 91

Query: 68  IWDTAGQERFRTITTAYY-RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNK--I 124
                       I +    +    +L V  +      N  +   + I       +    I
Sbjct: 92  EGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAI 151

Query: 125 LVGNKADMDESKRE 138
           +    A        
Sbjct: 152 VALTHAQFSPPDGL 165

>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 = 35.5 bits (80), Expect = 0.001
 Identities = 17/141 (12%), Positives = 34/141 (24%), Gaps = 6/141 (4%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSD------GSFTTSFITTIGIDFKIRTIELDGKRIKLQIW 69
           +K+++ G    GKS LL   +            +    +     I  + L          
Sbjct: 2   MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLRE 61

Query: 70  DTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNK 129
            +   ER               +L       +   +               +   +V NK
Sbjct: 62  ASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNK 121

Query: 130 ADMDESKREAPFCLHETILLT 150
           AD+              ++  
Sbjct: 122 ADITGETLGMSEVNGHALIRL 142

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 33.4 bits (75), Expect = 0.004
 Identities = 28/132 (21%), Positives = 50/132 (37%), Gaps = 10/132 (7%)

Query: 16  IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAG-- 73
           ++++++G   VGKS LL R              G    + + E+  + I  +I DTAG  
Sbjct: 1   LRMVIVGKPNVGKSTLLNRLL-NEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVR 59

Query: 74  -------QERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILV 126
                  +      T      A  +L V D +      + +   R   +     +NK+ V
Sbjct: 60  SETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNKRYLVVINKVDV 119

Query: 127 GNKADMDESKRE 138
             K + +E K +
Sbjct: 120 VEKINEEEIKNK 131

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	160
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.98
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.98
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.98
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.98
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.98
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.98
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.98
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.97
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.97
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.97
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.97
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.96
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.96
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.96
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.96
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.95
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.94
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.94
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.93
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.93
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.92
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.89
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.87
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.86
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.85
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.83
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.83
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.82
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.81
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.81
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.81
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.81
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.78
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.77
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.77
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.76
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.76
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.75
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.74
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.74
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.73
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.73
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.7
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.68
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.67
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.62
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.62
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.61
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.6
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.59
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.59
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.59
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.57
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.55
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.5
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.48
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.47
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.41
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.18
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.14
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.09
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.05
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.96
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.67
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.52
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.33
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.24
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.2
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.08
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.02
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.02
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.87
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.83
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.76
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.73
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.72
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.69
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.69
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.65
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.6
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.59
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.55
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.55
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.55
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.53
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.47
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.46
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.45
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.45
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.44
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.4
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.35
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.32
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.32
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.31
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.31
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.3
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.29
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.28
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.28
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.26
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.25
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.24
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.24
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.23
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.23
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.23
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.22
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.22
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.19
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.19
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.18
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	97.18
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.16
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.16
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.15
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.15
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.15
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.13
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.12
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.1
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.09
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.09
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.09
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	97.08
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	97.08
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.08
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	97.07
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.06
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.04
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.99
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.97
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.96
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.94
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.93
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.93
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.91
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.9
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	96.89
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.88
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.84
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.83
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.83
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.81
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.8
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.75
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.73
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.71
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.62
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.61
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.6
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.59
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.59
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.59
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.58
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.58
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.57
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.51
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.51
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.49
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.49
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.46
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.46
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.42
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.4
d1okkd2	207	GTPase domain of the signal recognition particle r	96.38
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.37
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.33
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.28
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.19
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.18
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.1
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.02
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.99
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.99
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.95
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.93
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.91
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	95.89
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.85
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.84
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.83
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.81
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	95.78
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.76
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.75
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.74
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.74
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	95.68
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.66
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.66
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	95.62
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	95.62
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.59
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	95.54
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.49
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.39
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.38
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	95.38
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.34
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.27
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.23
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	95.21
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.21
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.2
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.09
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.07
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.86
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.68
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.47
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	94.44
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.43
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.34
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.25
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	94.13
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.01
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.8
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.7
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.44
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	93.38
d1y7ta1	154	Malate dehydrogenase {Thermus thermophilus [TaxId:	93.13
d1mlda1	144	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	92.49
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	92.4
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	91.95
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	91.88
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	91.82
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	91.65
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	91.37
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	91.37
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	91.22
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	91.2
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	90.15
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	90.05
d5mdha1	154	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	89.75
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	89.36
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	88.96
d1ldna1	148	Lactate dehydrogenase {Bacillus stearothermophilus	88.91
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.61
d1guza1	142	Malate dehydrogenase {Chlorobium vibrioforme [TaxI	87.55
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	87.25
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	87.15
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	87.07
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.02
d1pzga1	154	Lactate dehydrogenase {Toxoplasma gondii [TaxId: 5	86.95
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	86.68
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	86.43
d1t2da1	150	Lactate dehydrogenase {Malaria parasite (Plasmodiu	86.43
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	86.4
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	86.39
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.37
d1i0za1	160	Lactate dehydrogenase {Human (Homo sapiens), heart	85.73
d2cmda1	145	Malate dehydrogenase {Escherichia coli [TaxId: 562	85.62
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	85.51
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	84.86
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	84.09
d1hyha1	146	L-2-hydroxyisocapronate dehydrogenase, L-HICDH {La	83.38
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	83.08
d1o6za1	142	Malate dehydrogenase {Archaeon Haloarcula marismor	81.48
d1a5za1	140	Lactate dehydrogenase {Thermotoga maritima [TaxId:	81.14
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	80.62
d1y6ja1	142	Lactate dehydrogenase {Clostridium thermocellum [T	80.23

>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=100.00  E-value=3.9e-32  Score=181.35  Aligned_cols=146  Identities=50%  Similarity=0.892  Sum_probs=132.7

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      .+++.+||+++|++|||||||++++..+.+...+.++.+.+.....+...+..+.+.+||+||++.+..++..+++++|+
T Consensus         1 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~   80 (169)
T d3raba_           1 NFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMG   80 (169)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCE
T ss_pred             CCCeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCE
Confidence            36788999999999999999999999999888888888888888888889988999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|+|||++++++++.+..|+..+........|+++++||.|+. ....+..++++++++++++.++.
T Consensus        81 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~-~~~~v~~~~~~~~~~~~~~~~~e  146 (169)
T d3raba_          81 FILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDME-DERVVSSERGRQLADHLGFEFFE  146 (169)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             EEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccc-cccccchhhhHHHHHHcCCEEEE
Confidence            9999999999999999999988877777789999999999987 55678888999999998876654

>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=100.00  E-value=2.5e-32  Score=182.62  Aligned_cols=145  Identities=49%  Similarity=0.874  Sum_probs=133.3

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      ++++.+||+++|++|||||||++++..+.+...+.++.+.++....+..++..+++.+||++|++.+..++..+++++++
T Consensus         1 ~~~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~   80 (171)
T d2ew1a1           1 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANA   80 (171)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccce
Confidence            46788999999999999999999999999988888888888888889999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +++|||.+++.+++.+.+|+..+.+....+.|+++++||+|+. +..++..+++++++..+++.++
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~-~~~~v~~~~~~~~~~~~~~~~~  145 (171)
T d2ew1a1          81 LILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLA-ERREVSQQRAEEFSEAQDMYYL  145 (171)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCSSCHHHHHHHHHHHTCCEE
T ss_pred             EEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccc-cccchhhhHHHHHHHhCCCEEE
Confidence            9999999999999999999999988777789999999999987 5567888899999999887664

>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=100.00  E-value=2.8e-32  Score=181.18  Aligned_cols=141  Identities=35%  Similarity=0.636  Sum_probs=129.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|||||||++++..+.+...+.++.+.+........++..+.+.+||++|+.++..++..++++++++++|
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v   81 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLV   81 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEE
Confidence            47999999999999999999999999888889888888888888899999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||.+++++++.+..|+.++.+..+ ++|+++|+||+|+. ..+++..++++++++++++.++.
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~iilVgnK~Dl~-~~~~v~~~~~~~~~~~~~~~~~e  142 (164)
T d1z2aa1          82 FSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLL-DDSCIKNEEAEGLAKRLKLRFYR  142 (164)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHC-SCCEEEEEECGGGG-GGCSSCHHHHHHHHHHHTCEEEE
T ss_pred             EeccchhhhhhcccccccccccCC-CceEEEeeccCCcc-cceeeeehhhHHHHHHcCCEEEE
Confidence            999999999999999999988766 79999999999997 55678889999999999887663

>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=100.00  E-value=7e-32  Score=179.73  Aligned_cols=142  Identities=28%  Similarity=0.442  Sum_probs=127.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+|+|++|||||||++++.++.+...+.++.+.++ ...+..++..+.+.+||++|...+..++..++.++|+++
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~i   80 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYI   80 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEE
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccchhhhhhhhhh
Confidence            3568999999999999999999999998888888887664 467788999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +|||++++++|+.+..|+..+.+.. ..++|+++++||+|+. ..++++.++++++++++++.|+
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~-~~r~v~~~~~~~~a~~~~~~~~  144 (167)
T d1xtqa1          81 LVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLH-MERVISYEEGKALAESWNAAFL  144 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEE
T ss_pred             hhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccc-cccchhHHHHHHHHHHcCCEEE
Confidence            9999999999999999999997764 4579999999999996 5667889999999999998776

>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=100.00  E-value=4.1e-32  Score=180.90  Aligned_cols=143  Identities=37%  Similarity=0.746  Sum_probs=125.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      +.+||+|+|++|||||||++++..+.+...+.++.+.+........++..+.+.+||++|+..+..++..++.++|++++
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   81 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAIL   81 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEE
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEE
Confidence            57899999999999999999999999999999999888888888889989999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |||++++++|+.+..|+..+........|+++++||+|+. ..+++..++++++++++++.|+.
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~-~~~~v~~~e~~~~a~~~~~~~~e  144 (167)
T d1z08a1          82 VYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE-KERHVSIQEAESYAESVGAKHYH  144 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEeCCchhHHHhhhhhhhhcccccccccceeeeccccccc-cccccchHHHHHHHHHcCCeEEE
Confidence            9999999999999999998877666688999999999997 56778999999999999987764

>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=100.00  E-value=1.1e-31  Score=178.72  Aligned_cols=145  Identities=43%  Similarity=0.838  Sum_probs=132.6

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      +++.+||+++|++++|||||++++.++.+...+.++.+.+........++..+.+.+||++|++.+..++..+++++|++
T Consensus         1 ~~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~   80 (166)
T d1z0fa1           1 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA   80 (166)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEE
T ss_pred             CcEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEE
Confidence            46789999999999999999999999999888888888888888889999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++|||.+++++++.+..|+..+........|+++++||+|+. ....+..++++++++++++.++.
T Consensus        81 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e  145 (166)
T d1z0fa1          81 LMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE-AQRDVTYEEAKQFAEENGLLFLE  145 (166)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccch-hhcccHHHHHHHHHHHcCCEEEE
Confidence            999999999999999999999988777789999999999996 56677788999999999887653

>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=100.00  E-value=9.3e-32  Score=179.40  Aligned_cols=139  Identities=27%  Similarity=0.340  Sum_probs=109.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|||||||++++.+..+... .++. .+.+...+..++..+.+.+||++|++.+..++..+++++|++++|
T Consensus         1 ifKi~lvG~~~vGKTsLi~~~~~~~~~~~-~~~~-~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv   78 (168)
T d2gjsa1           1 VYKVLLLGAPGVGKSALARIFGGVEDGPE-AEAA-GHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   78 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHTC-----------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEE
T ss_pred             CeEEEEECCCCcCHHHHHHHHhCCccCCc-CCee-eeeecceeeccccccceeeeecccccccceecccchhhhhhhcee
Confidence            37999999999999999999998765443 3333 334556778899999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ||++++.+++.+..|+..+..... .++|+++++||+|+. ..+++..++++++++.+++.|+
T Consensus        79 ~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  140 (168)
T d2gjsa1          79 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV-RSREVSVDEGRACAVVFDCKFI  140 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCG-GGCCSCHHHHHHHHHHHTSEEE
T ss_pred             ccccccccccccccccchhhcccccccceEEEeecccchh-hhcchhHHHHHHHHHhcCCEEE
Confidence            999999999999999999977653 578999999999997 5667889999999999998776

>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=99.98  E-value=5.2e-31  Score=176.80  Aligned_cols=145  Identities=48%  Similarity=0.854  Sum_probs=127.7

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      +++.+||+|+|+++||||||++++.++.+...+.++.+.......+..++..+.+.+||++|++.+...+..++++++++
T Consensus         1 ~~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~   80 (175)
T d2f9la1           1 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGA   80 (175)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeE
Confidence            46789999999999999999999999999888888888777788888999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++|||.+++++|+.+.+|+..+.++...++|+++++||+|+. +......+....++..+++.++.
T Consensus        81 i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e  145 (175)
T d2f9la1          81 LLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR-HLRAVPTDEARAFAEKNNLSFIE  145 (175)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeeccc-ccccchHHHHHHhhcccCceEEE
Confidence            999999999999999999999988887789999999999997 44556667778888888776653

>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=99.98  E-value=2.5e-31  Score=176.51  Aligned_cols=140  Identities=38%  Similarity=0.710  Sum_probs=129.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|||||||++++.++.+...+.++.+..........++..+.+.+||++|++.+...+..++.+++++++||
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~   80 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVY   80 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEee
Confidence            58999999999999999999999999888888888888778888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |.+++.+++.+.+|+..+......+.|+++++||+|+. ....+..++++++++++++.|+
T Consensus        81 d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  140 (164)
T d1yzqa1          81 DITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLA-DKRQVSIEEGERKAKELNVMFI  140 (164)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCEEE
T ss_pred             ccccccchhhhHhhHHHHHHhcCCCceEEEEecccchh-hhhhhhHHHHHHHHHHcCCEEE
Confidence            99999999999999999988777789999999999997 5567788899999999998775

>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=99.98  E-value=8.4e-31  Score=174.48  Aligned_cols=143  Identities=36%  Similarity=0.672  Sum_probs=131.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      +.+||+++|+++||||||+++|..+.+...+.++.+..........++....+.+||++|++.+..++..++++++++++
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~   82 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAII   82 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEE
Confidence            46899999999999999999999999998888888888887888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +||++++++|+.+..|+..+......+.|+++|+||+|+. ..+.+..+++++++.++++.|+.
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-~~~~v~~~~~~~~~~~~~~~~~e  145 (167)
T d1z0ja1          83 VYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLT-DVREVMERDAKDYADSIHAIFVE  145 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhc-cccchhHHHHHHHHHHcCCEEEE
Confidence            9999999999999999999988877899999999999996 66778889999999999997663

>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=99.98  E-value=2.6e-31  Score=177.96  Aligned_cols=146  Identities=68%  Similarity=1.146  Sum_probs=107.2

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      .+++.+||+|+|.++||||||+++|..+.+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++++|+
T Consensus         2 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~   81 (173)
T d2fu5c1           2 TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   81 (173)
T ss_dssp             CCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSE
T ss_pred             cccEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCE
Confidence            46889999999999999999999999999888888998888888899999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +++|||++++.+++.+..|+..+......+.|+++++||.|+. .......+++.+++.++++.|+.
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~-~~~~~~~~~~~~~~~~~~~~~~e  147 (173)
T d2fu5c1          82 IMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVN-DKRQVSKERGEKLALDYGIKFME  147 (173)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CC-SCCCSCHHHHHHHHHHHTCEEEE
T ss_pred             EEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccch-hhcccHHHHHHHHHHhcCCEEEE
Confidence            9999999999999999999999987777789999999999997 44566677889999999887663

>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=99.98  E-value=2.3e-31  Score=180.03  Aligned_cols=148  Identities=22%  Similarity=0.412  Sum_probs=124.1

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      +....+||+++|++|||||||++++..+.+...+.++.+ +.....+..++..+.+.+||++|++.+..++..+++++|+
T Consensus         5 ~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~-~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~   83 (185)
T d2atxa1           5 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDV   83 (185)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSC-CCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSE
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCcee-eeeeEEEeeCCceEEeecccccccchhhhhhhhcccccce
Confidence            355679999999999999999999999998888888775 4556667778888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-----------CccCCChhHHHHHhhhcc-eEEE--
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE-----------SKREAPFCLHETILLTVQ-VHLV--  156 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~-----------~~~~~~~~~~~~~~~~~~-~~~~--  156 (160)
                      +++|||++++++|+++..|.....+....+.|+++++||+|+.+           ..+.+..+++++++++++ +.|+  
T Consensus        84 ~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E~  163 (185)
T d2atxa1          84 FLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVEC  163 (185)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEEC
T ss_pred             eeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEEe
Confidence            99999999999999876655544443345899999999999864           245788899999999987 5554  


Q ss_pred             Eee
Q 031411          157 ILK  159 (160)
Q Consensus       157 ~~k  159 (160)
                      |||
T Consensus       164 SAk  166 (185)
T d2atxa1         164 SAL  166 (185)
T ss_dssp             CTT
T ss_pred             cCC
Confidence            544

>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=99.98  E-value=5.9e-31  Score=175.63  Aligned_cols=140  Identities=31%  Similarity=0.488  Sum_probs=125.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++++|||||++++.++.+.+.+.++.+.. +...+..++..+.+.+||++|++.+..++..+++++|++++|
T Consensus         4 t~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv   82 (169)
T d1x1ra1           4 TYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDS-YLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIV   82 (169)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEE-EEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeec-cccccccccccccccccccccccccccchhhhhhhccEEEEe
Confidence            5899999999999999999999999888888877643 456678899999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ||++++++|+.+..|+..+.+.. ..++|+++++||+|+. ..+.+..++++++++++++.|+
T Consensus        83 ~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~-~~~~v~~e~~~~~~~~~~~~~~  144 (169)
T d1x1ra1          83 YSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLM-HLRKVTRDQGKEMATKYNIPYI  144 (169)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCS-TTCCSCHHHHHHHHHHHTCCEE
T ss_pred             cccccchhhhccchhhHHHHhhccccCccEEEEecccchh-hhceeehhhHHHHHHHcCCEEE
Confidence            99999999999999999987764 4689999999999997 5567888999999999988665

>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=99.98  E-value=1.5e-30  Score=177.29  Aligned_cols=147  Identities=57%  Similarity=1.026  Sum_probs=133.7

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      +++++.+||+|+|+++||||||++++..+.+...+.++.+.......+..++..+.+.+||++|++++..++..++++++
T Consensus         1 ~~~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~   80 (194)
T d2bcgy1           1 SEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSH   80 (194)
T ss_dssp             CCCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCS
T ss_pred             CCCCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCC
Confidence            36788999999999999999999999999988888888888888888889999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++++|||.+++++++.+..|...+.+....+.|+++++||+|+. ....+..++...++...++.|+.
T Consensus        81 ~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~e  147 (194)
T d2bcgy1          81 GIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK-DKRVVEYDVAKEFADANKMPFLE  147 (194)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCT-TTCCSCHHHHHHHHHHTTCCEEE
T ss_pred             EEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccc-cccchhHHHHhhhhhccCcceEE
Confidence            99999999999999999999999988777789999999999997 55677888899999988877663

>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=99.97  E-value=7.5e-31  Score=175.77  Aligned_cols=144  Identities=46%  Similarity=0.843  Sum_probs=131.9

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      +++.+||+|+|.+|||||||++++..+.+...+.++.+.......+..++....+.+||++|++++..++..++..++++
T Consensus         2 ~~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~   81 (174)
T d2bmea1           2 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGA   81 (174)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEE
Confidence            67889999999999999999999999999888888888877777788888899999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      ++|||.+++++++.+..|+..+......+.|+++++||+|+. ...+...+++.+++.++++.++
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~  145 (174)
T d2bmea1          82 LLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD-ADREVTFLEASRFAQENELMFL  145 (174)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEE
T ss_pred             EEEEecccchhHHHHhhhhcccccccCCceEEEEEEeccccc-chhchhhhHHHHHHHhCCCEEE
Confidence            999999999999999999999988877789999999999996 5667788889999999987665

>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=99.97  E-value=7.4e-31  Score=175.76  Aligned_cols=141  Identities=34%  Similarity=0.547  Sum_probs=125.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..+||+|+|+++||||||++++..+.+...+.++.. +.....+..++..+.+.+||++|++++...+..+++++|++++
T Consensus         5 ~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~   83 (173)
T d2fn4a1           5 ETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLL   83 (173)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEE
T ss_pred             CeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeEeccCCeeeeeeccccccccccccccchhhccceeeee
Confidence            459999999999999999999999998887777754 5556778889999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |||.+++.+|+.+.+|+..+.+.. ..+.|+++|+||+|+. ..+....+++++++.++++.|+
T Consensus        84 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  146 (173)
T d2fn4a1          84 VFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLE-SQRQVPRSEASAFGASHHVAYF  146 (173)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEE
T ss_pred             ecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechh-hccccchhhhhHHHHhcCCEEE
Confidence            999999999999999999987653 4688999999999997 5567788999999999998776

>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=99.97  E-value=1.5e-30  Score=174.29  Aligned_cols=143  Identities=48%  Similarity=0.869  Sum_probs=126.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      +.+||+|+|++|||||||++++.++.+...+.++.+..........++..+.+.+||++|++.+..++..++..+|++++
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALL   81 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEE
Confidence            56899999999999999999999999888888888777777888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |||++++++|+.+.+|+..+.+....++|++|++||+|+. .......++++++++++++.++.
T Consensus        82 v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~-~~~~~~~~~~~~~a~~~~~~~~e  144 (173)
T d2a5ja1          82 VYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE-SRRDVKREEGEAFAREHGLIFME  144 (173)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             EEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchh-hhhhhHHHHHHHHHHHcCCEEEE
Confidence            9999999999999999999988877789999999999997 55667888999999999887643

>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=99.97  E-value=4.7e-31  Score=175.97  Aligned_cols=141  Identities=32%  Similarity=0.539  Sum_probs=123.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+|+|+++||||||++++..+.+...+.++.+..+ ...+..++..+.+.+||++|+..+..++..+++++|++++|
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv   82 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCV   82 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccccccccccccccchhhhhhhcccccceeEEE
Confidence            47999999999999999999999999888888887554 45677899999999999999999998899999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||.+++++++.+..|+..+.+.. ..+.|+++++||+|+. ..+.+..+++++++++.++.|+.
T Consensus        83 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~-~~~~v~~~~~~~~~~~~~~~~~e  145 (168)
T d1u8za_          83 FSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-DKRQVSVEEAKNRADQWNVNYVE  145 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             eeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEecccccc-ccccccHHHHHHHHHHcCCeEEE
Confidence            99999999999999999997754 4588999999999996 55778899999999999987663

>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=99.97  E-value=9.4e-31  Score=175.78  Aligned_cols=138  Identities=29%  Similarity=0.478  Sum_probs=119.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      +.||+|+|+++||||||++++..+.+...+.++.+ +........++..+.+.+||++|++.+..++..+++++|++++|
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMC   80 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccchhcccchhhcccchhhhhh
Confidence            57999999999999999999999999888888776 44556677888899999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcce
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQV  153 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~~  153 (160)
                      ||++++++|+.+..|+.........++|++|++||+|+.+.           ...+..++++++++++++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~  150 (177)
T d1kmqa_          81 FSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA  150 (177)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTC
T ss_pred             cccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCC
Confidence            99999999999887665555544558999999999999642           346788999999999874

>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=99.97  E-value=1.7e-31  Score=178.51  Aligned_cols=139  Identities=29%  Similarity=0.572  Sum_probs=119.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|+++||||||++++.++.+...+.+|.+.++....+..++..+.+.+||++|+..+..++..++++++++++|
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIM   82 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhc
Confidence            58999999999999999999999999988899998888888888888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||++++++|+.+.+|+..+.+..+ ++|+++++||+|+....   ..+++.+++.++++.|+.
T Consensus        83 ~d~~~~~Sf~~~~~~~~~~~~~~~-~~piilvgnK~Dl~~~~---~~~~~~~~~~~~~~~~~e  141 (170)
T d1i2ma_          83 FDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRK---VKAKSIVFHRKKNLQYYD  141 (170)
T ss_dssp             EETTSGGGGTTHHHHHHHHHHHHC-SCCEEEEEECCCCSCSC---CTTTSHHHHSSCSSEEEE
T ss_pred             cccccccccchhHHHHHHHhhccC-CCceeeecchhhhhhhh---hhhHHHHHHHHcCCEEEE
Confidence            999999999999999999988765 89999999999996332   234566788888876653

>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=99.97  E-value=9.2e-31  Score=174.82  Aligned_cols=141  Identities=28%  Similarity=0.423  Sum_probs=123.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|||||||++++..+.+...+.++.+.. .......++..+.+.+||++|++.+...+..+++++|++++|
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~-~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv   80 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDT-YRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILV   80 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEE-EEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeec-cccceeeccccceeccccccccccccccccccccceeEEEEE
Confidence            5899999999999999999999999888888887744 345567788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA--SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~--~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||++++++++.+..|+..+.+..  ..++|+++|+||+|+. ..+++..++++++++++++.|+.
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~-~~~~v~~~e~~~~~~~~~~~~~e  144 (171)
T d2erxa1          81 YSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES-PSREVQSSEAEALARTWKCAFME  144 (171)
T ss_dssp             EETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             eecccccchhcccchhhhhhhhhccCCCCcEEEEeeccccc-ccccccHHHHHHHHHHcCCeEEE
Confidence            99999999999999998886643  3578999999999996 56678889999999999987763

>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=99.97  E-value=3.9e-30  Score=171.68  Aligned_cols=143  Identities=41%  Similarity=0.711  Sum_probs=131.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..+||+++|++|||||||+++|..+.+...+.++.+...........+..+.+.+||++|++.+..++..++++++++++
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   84 (170)
T d1r2qa_           5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIV   84 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEE
Confidence            45899999999999999999999999998888999888888888889989999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +||.+++++++.+..|...+.+....+.|+++++||+|+. ..+.++.+++++++...++.|+.
T Consensus        85 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-~~~~v~~e~~~~~~~~~~~~~~e  147 (170)
T d1r2qa_          85 VYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLA-NKRAVDFQEAQSYADDNSLLFME  147 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EeccchhhHHHHHHHHhhhhhhccCCCceEEeeccccccc-ccccccHHHHHHHHHhcCCEEEE
Confidence            9999999999999999999988777789999999999997 56778899999999998876643

>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=99.97  E-value=8.4e-31  Score=177.27  Aligned_cols=146  Identities=46%  Similarity=0.848  Sum_probs=126.8

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECC----------EEEEEEEecCCCccccccc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDG----------KRIKLQIWDTAGQERFRTI   80 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~D~~g~~~~~~~   80 (160)
                      ++++.+||+|+|+++||||||+++|.++.+...+.++.+.++....+..++          ..+++.+||++|++.+..+
T Consensus         1 ~~d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~   80 (186)
T d2f7sa1           1 DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSL   80 (186)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHH
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHH
Confidence            467889999999999999999999999999888888887777666665543          3468999999999999999


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           81 TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        81 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +..+++++|++++|||++++.+++.+..|+..+..+. ..+.|+++++||+|+. ..+++..++++++++++++.++.
T Consensus        81 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~-~~~~v~~~e~~~~~~~~~~~~~e  157 (186)
T d2f7sa1          81 TTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLP-DQREVNERQARELADKYGIPYFE  157 (186)
T ss_dssp             HHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCCEEE
T ss_pred             HHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccch-hhhcchHHHHHHHHHHcCCEEEE
Confidence            9999999999999999999999999999998886643 3578999999999997 56778899999999999885543

>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=99.97  E-value=5.8e-30  Score=171.00  Aligned_cols=142  Identities=35%  Similarity=0.542  Sum_probs=122.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      .++||+++|+++||||||++++..+.+...+.++.+ +.....+..++..+.+.+||++|+..+......+++.+|++++
T Consensus         4 ~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   82 (171)
T d2erya1           4 EKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLL   82 (171)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccccccccccceEEE
Confidence            348999999999999999999999998888777766 4566778889999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |||.+++++|+.+..|+..+.+.. ....|+++++||+|+. ..+.+..++++++++++++.|+.
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~-~~~~v~~~~~~~~~~~~~~~~~e  146 (171)
T d2erya1          83 VFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLD-HQRQVTQEEGQQLARQLKVTYME  146 (171)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCT-TSCSSCHHHHHHHHHHTTCEEEE
T ss_pred             eeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchh-hhccchHHHHHHHHHHcCCEEEE
Confidence            999999999999999999886654 4578999999999996 55778889999999999987763

>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=99.97  E-value=8.8e-30  Score=169.96  Aligned_cols=145  Identities=47%  Similarity=0.872  Sum_probs=121.3

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTT-SFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      ++..+||+++|+++||||||++++..+.+.. ...++.+.+.....+..++..+.+.+|||+|++.+..++..+++++|+
T Consensus         3 ~d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~   82 (170)
T d2g6ba1           3 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHA   82 (170)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSE
T ss_pred             CceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCce
Confidence            6788999999999999999999999988754 345555667777788889999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +++|||.+++++++.+..|+..+........|+++++||.|+. ....+..+++.++++.+++.|+.
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~-~~~~v~~~~~~~~~~~~~~~~~e  148 (170)
T d2g6ba1          83 LLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSA-HERVVKREDGEKLAKEYGLPFME  148 (170)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTT-SCCCSCHHHHHHHHHHHTCCEEE
T ss_pred             eEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechh-hcccccHHHHHHHHHHcCCEEEE
Confidence            9999999999999999999999888777788999999999997 66788889999999999887654

>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=99.97  E-value=4e-30  Score=171.12  Aligned_cols=141  Identities=33%  Similarity=0.539  Sum_probs=124.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      +.+||+++|++|||||||++++.++.+...+.++.+ +........++..+.+.+||++|++.+..++..+++++|++++
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   80 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceee
Confidence            468999999999999999999999998888777776 4556677889989999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      |||.+++.+|+.+..|+..+.... ..++|++|++||+|+. ..+.+..++++++++++++.++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  143 (167)
T d1kaoa_          81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLE-SEREVSSSEGRALAEEWGCPFM  143 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGG-GGCCSCHHHHHHHHHHHTSCEE
T ss_pred             eeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchh-hcccchHHHHHHHHHHcCCeEE
Confidence            999999999999999999987754 3578999999999997 5566778899999999887665

>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=99.97  E-value=5.9e-30  Score=169.89  Aligned_cols=142  Identities=43%  Similarity=0.822  Sum_probs=126.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccc-cchhhccCCcEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT-ITTAYYRGAMGIL   92 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~-~~~~~~~~~~~~i   92 (160)
                      +.+||+++|++|||||||++++..+.+...+.++.+...........+....+.+||++|...... .+..++.++|+++
T Consensus         1 r~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i   80 (165)
T d1z06a1           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (165)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceE
Confidence            368999999999999999999999999888888888888788888899899999999999876654 4677899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLV  156 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (160)
                      +|||.+++++|+.+..|+..+.++. ..++|++|+|||+|+. ..+++..++++++++++++.++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~-~~~~v~~~~~~~~~~~~~~~~~  144 (165)
T d1z06a1          81 FVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR-SAIQVPTDLAQKFADTHSMPLF  144 (165)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCCEE
T ss_pred             EEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccch-hccchhHHHHHHHHHHCCCEEE
Confidence            9999999999999999999997764 4589999999999997 5567899999999999988665

>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=99.97  E-value=1.2e-29  Score=169.30  Aligned_cols=143  Identities=37%  Similarity=0.643  Sum_probs=131.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++++|||||++++..+.+.+.+.++.+.++....+..++..+.+.+||++|++.+..++..++.++|++++|
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVV   82 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEE
Confidence            58999999999999999999999999988899988888888899999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC--CccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE--SKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||.+++.+++.+..|+..+........|+++++||+|+.+  ..+.+..++++++++++++.|+.
T Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e  147 (170)
T d1ek0a_          83 YDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFE  147 (170)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEE
T ss_pred             EeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEE
Confidence            9999999999999999988887777899999999999853  34678889999999999987764

>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=99.97  E-value=2.3e-30  Score=172.61  Aligned_cols=140  Identities=31%  Similarity=0.473  Sum_probs=120.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|||||||++++..+.+.+.+.+|.+.++. .....++..+.+.+||++|+..+. ....++++++++++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~-~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv   79 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLV   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceecccc-ccccccccceEEEEeecccccccc-cchhhhcccccceee
Confidence            489999999999999999999999998888888876654 455678888999999999988764 456688899999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||.+++++++.+..|+...... ...+.|+++++||+|+. ..+.++.++++++++++++.|+.
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~-~~r~V~~~e~~~~a~~~~~~~~e  142 (168)
T d2atva1          80 YDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLD-HSRQVSTEEGEKLATELACAFYE  142 (168)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGG-GGCCSCHHHHHHHHHHHTSEEEE
T ss_pred             cccCCccchhhhhhhcccccccccccCcceeeeccchhhh-hhccCcHHHHHHHHHHhCCeEEE
Confidence            9999999999999988776553 33589999999999996 55678999999999999998763

>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=99.97  E-value=4.7e-30  Score=172.74  Aligned_cols=141  Identities=21%  Similarity=0.444  Sum_probs=120.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      ++||+++|+++||||||++++..+.+.+.+.++.. +........++..+.+.+||++|++.+...+..+++++|++++|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVF-ENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLIC   80 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-ecccccccccceEEeeccccccccccccccccchhhhhhhhhee
Confidence            58999999999999999999999999888888765 44556677788899999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-----------CccCCChhHHHHHhhhcce-EEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE-----------SKREAPFCLHETILLTVQV-HLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~-----------~~~~~~~~~~~~~~~~~~~-~~~  156 (160)
                      ||++++++|+.+..|+.........+.|+++||||+|+..           ....++.+++++++++++. .|+
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~  154 (179)
T d1m7ba_          81 FDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYI  154 (179)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEE
T ss_pred             eecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEE
Confidence            9999999999998866555444444899999999999853           2456889999999999874 444

>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=99.97  E-value=5.9e-30  Score=170.37  Aligned_cols=141  Identities=30%  Similarity=0.511  Sum_probs=123.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      +.+||+++|+++||||||++++..+.+.+.+.++.+.. ....+..++..+.+.+||++|+..+..++..+++++|++++
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   80 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDS-YRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEE-EEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccc-cceeEEeeeeEEEeccccccCcccccccccccccccceeEE
Confidence            46899999999999999999999999988888887744 44566778888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc-ceEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDESKREAPFCLHETILLTV-QVHLV  156 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~-~~~~~  156 (160)
                      |||.+++.+|+.+..|+..+.+.. ..++|+++++||+|+. ....+..+++..+++++ ++.|+
T Consensus        81 v~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  144 (167)
T d1c1ya_          81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE-DERVVGKEQGQNLARQWCNCAFL  144 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHHTTSCEEE
T ss_pred             eeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcc-cccccchhHHHHHHHHhCCCEEE
Confidence            999999999999999999987754 4588999999999997 55677788889998874 55554

>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=99.97  E-value=1.3e-29  Score=170.94  Aligned_cols=146  Identities=28%  Similarity=0.525  Sum_probs=122.1

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      .+..+||+|+|++|||||||++++..+.+...+.++.+ +.....+..++..+.+.+||++|++.+..++..++.++|++
T Consensus         2 ~p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~   80 (183)
T d1mh1a_           2 SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVS   80 (183)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSC-CEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEE
T ss_pred             CceeEEEEEECCCCCCHHHHHHHHHhCCCCccccccee-eceeeeeeccCcceEEEeecccccccchhhhhhccccccee
Confidence            46789999999999999999999999999888888776 44556677899999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHH-HHHHHHHhcCCCCcEEEEEeCCCCCCC-----------ccCCChhHHHHHhhhcc-eEEE--
Q 031411           92 LLVYDVTDESSFNNIRN-WIRNIEQHASDNVNKILVGNKADMDES-----------KREAPFCLHETILLTVQ-VHLV--  156 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~-~~~~~~~~~~~~~pi~vv~~K~Dl~~~-----------~~~~~~~~~~~~~~~~~-~~~~--  156 (160)
                      ++|||++++++|+++.. |+..+..+ ..+.|+++|+||+|+.++           .......++..++++++ +.|+  
T Consensus        81 ilv~d~~~~~sf~~i~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~  159 (183)
T d1mh1a_          81 LICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  159 (183)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHH-STTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             eeeeccchHHHHHHHHHHHHHHHHHh-CCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEc
Confidence            99999999999999977 55545444 448999999999998532           34467778899998877 4454  


Q ss_pred             Eee
Q 031411          157 ILK  159 (160)
Q Consensus       157 ~~k  159 (160)
                      |||
T Consensus       160 SAk  162 (183)
T d1mh1a_         160 SAL  162 (183)
T ss_dssp             CTT
T ss_pred             CCC
Confidence            544

>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=99.97  E-value=1.6e-29  Score=171.70  Aligned_cols=141  Identities=26%  Similarity=0.456  Sum_probs=120.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|||||||++++..+.+...+.++.+ .........++..+.+.+||++|++++..++..+++++|++++|
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   81 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   81 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecc
Confidence            58999999999999999999999999888888877 44556677788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-----------CccCCChhHHHHHhhhcc-eEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE-----------SKREAPFCLHETILLTVQ-VHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~-----------~~~~~~~~~~~~~~~~~~-~~~~  156 (160)
                      ||++++++|+.+..|+.........+.|+++++||+|+.+           ....+..+++++++.+++ +.|+
T Consensus        82 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  155 (191)
T d2ngra_          82 FSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYV  155 (191)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEE
T ss_pred             cccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEE
Confidence            9999999999998766555444445899999999999853           234688899999999865 4443

>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=99.97  E-value=2.8e-29  Score=166.84  Aligned_cols=141  Identities=59%  Similarity=1.049  Sum_probs=122.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++++|||||++++..+.+...+.++.+.++....+..++..+++.+||+||++.+..++..++++++++++|
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEE
Confidence            58999999999999999999999999888889999888888999999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ||.+++++++.+..|+..+........|++++++|.|+.  ......+++++++.++++.++.
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~--~~~~~~~~~~~~~~~~~~~~~~  142 (166)
T d1g16a_          82 YDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKELGIPFIE  142 (166)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT--TCCSCHHHHHHHHHHHTCCEEE
T ss_pred             EECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhh--hhhhhHHHHHHHHHhcCCeEEE
Confidence            999999999999999998888877788999999999984  4556778899999998876653

>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=99.96  E-value=4.9e-29  Score=165.68  Aligned_cols=141  Identities=28%  Similarity=0.515  Sum_probs=123.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..+||+++|+++||||||+++|.++.+...+.++.+..+. ..+..++..+.+.+||++|++.+...+..++..++++++
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~ii   80 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   80 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeec-cceeeeceeeeeeeeeccCccccccchhhhhhcccccce
Confidence            3589999999999999999999999998888888876554 446678888999999999999999989999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      |||.+++.+|+.+.+|+..+.+... .++|+++++||+|+.  ...+..++++++++++++.|+.
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~e  143 (166)
T d1ctqa_          81 VFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA--ARTVESRQAQDLARSYGIPYIE  143 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCS--CCCSCHHHHHHHHHHHTCCEEE
T ss_pred             eecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccc--cccccHHHHHHHHHHhCCeEEE
Confidence            9999999999999999999977543 578999999999995  4566788999999999887653

>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=99.96  E-value=1.4e-28  Score=165.09  Aligned_cols=143  Identities=46%  Similarity=0.824  Sum_probs=128.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      ...+||+|+|++++|||||++++.++.+...+.++.+.......+..++..+.+.+||++|++.+..++..++.++|+++
T Consensus         5 ~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii   84 (177)
T d1x3sa1           5 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVI   84 (177)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEE
T ss_pred             cceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            45689999999999999999999999998888888888788888889999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQHAS-DNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      +|||++++.+++.+..|+..+.+... ...|+++++||.|..  ...+..++++++++++++.++.
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~--~~~v~~~~~~~~~~~~~~~~~e  148 (177)
T d1x3sa1          85 LVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE--NREVDRNEGLKFARKHSMLFIE  148 (177)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS--SCCSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEECCCccccccchhhhhhhcccccccceeeEEEeeccccc--cccccHHHHHHHHHHCCCEEEE
Confidence            99999999999999999999977543 468999999999974  4677888999999999987764

>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=99.96  E-value=2.8e-28  Score=163.13  Aligned_cols=144  Identities=36%  Similarity=0.652  Sum_probs=123.5

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   90 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~   90 (160)
                      +.+..+||+|+|+++||||||++++..+.+...+.++.+..........++..+.+.+||++|+......+...+..+++
T Consensus         2 ~~~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~   81 (174)
T d1wmsa_           2 GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDC   81 (174)
T ss_dssp             CCEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccce
Confidence            45677999999999999999999999999988888888888878888889999999999999999988889999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc-eEEE
Q 031411           91 ILLVYDVTDESSFNNIRNWIRNIEQHA----SDNVNKILVGNKADMDESKREAPFCLHETILLTVQ-VHLV  156 (160)
Q Consensus        91 ~i~v~d~~~~~~~~~~~~~~~~~~~~~----~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~-~~~~  156 (160)
                      ++++||.+++.+++.+..|+.++....    ..++|+++|+||+|+.  .+.+..+++++++++++ +.|+
T Consensus        82 ~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~--~~~v~~~~~~~~~~~~~~~~~~  150 (174)
T d1wmsa_          82 CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS--ERQVSTEEAQAWCRDNGDYPYF  150 (174)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS--SCSSCHHHHHHHHHHTTCCCEE
T ss_pred             EEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchh--hccCcHHHHHHHHHHcCCCeEE
Confidence            999999999999999999998886543    2468999999999995  35788899999999864 5544

>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=99.96  E-value=5e-29  Score=166.84  Aligned_cols=145  Identities=37%  Similarity=0.694  Sum_probs=109.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEE-CCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      .+||+++|+++||||||++++.++.+...+.++.+.......... +.....+.+||++|++.+...+..+++.++++++
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   81 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVL   81 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEE
Confidence            589999999999999999999999988877777765555444443 3445778999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc-eEE--EEee
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQHA----SDNVNKILVGNKADMDESKREAPFCLHETILLTVQ-VHL--VILK  159 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~~----~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~-~~~--~~~k  159 (160)
                      +||.+++.+|+.+..|+.++..+.    +.++|+++++||+|+.+....+..+++++++.+++ +.+  +|||
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~  154 (175)
T d1ky3a_          82 VYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAK  154 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTT
T ss_pred             EeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCC
Confidence            999999999999999999986643    24789999999999986666788889999998875 434  4443

>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=99.96  E-value=2.8e-28  Score=162.95  Aligned_cols=141  Identities=24%  Similarity=0.364  Sum_probs=116.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCC---cccccccchhhccCCc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAG---QERFRTITTAYYRGAM   89 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g---~~~~~~~~~~~~~~~~   89 (160)
                      ..+||+++|++++|||||++++....+. ....++.+.+.....+..++..+.+.+||+++   ++++  ++..+++++|
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~   79 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGD   79 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCS
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccc
Confidence            4589999999999999999999977654 33445566667778888899999999999765   4443  5667789999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEE
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVI  157 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (160)
                      ++++|||++++.+++.+..|+..+... ...++|+++++||+|+. ..+++..+++++++..+++.|+.
T Consensus        80 ~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~-~~~~v~~~~~~~~a~~~~~~~~e  147 (172)
T d2g3ya1          80 AYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLV-RCREVSVSEGRACAVVFDCKFIE  147 (172)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             eeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEecccccc-ccccccHHHHHHHHHHcCCeEEE
Confidence            999999999999999999999988764 34589999999999997 55678899999999999998763

>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=99.96  E-value=6.5e-28  Score=162.69  Aligned_cols=140  Identities=34%  Similarity=0.675  Sum_probs=122.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+|+|.+|||||||++++.++.+...+.++.+.+.........+..+.+.+||++|+..+...+...+..+++++++
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   81 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLV   81 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEe
Confidence            47999999999999999999999999988889888888888888888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhc-ceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA----SDNVNKILVGNKADMDESKREAPFCLHETILLTV-QVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~----~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~-~~~~~  156 (160)
                      ||.+++.+++.+..|+..+..+.    ..++|+++++||+|+.  ...+..++.++++.+. ++.++
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~~  146 (184)
T d1vg8a_          82 FDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE--NRQVATKRAQAWCYSKNNIPYF  146 (184)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS--CCCSCHHHHHHHHHHTTSCCEE
T ss_pred             ecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeeccc--ccchhHHHHHHHHHHhcCCeEE
Confidence            99999999999999999886653    2468999999999995  3557777788887654 45443

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.7e-26  Score=154.60  Aligned_cols=138  Identities=20%  Similarity=0.289  Sum_probs=111.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|+++||||||++++.++.+... .++.+ +.+...+..++..+.+.+||++|+..+     .+++.+|++|+|
T Consensus         5 ~~ki~vlG~~~vGKTsLi~~~~~~~f~~~-~~t~~-~~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilV   77 (175)
T d2bmja1           5 ELRLGVLGDARSGKSSLIHRFLTGSYQVL-EKTES-EQYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFV   77 (175)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHHHSCCCCC-CCSSC-EEEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCc-CCccc-eeEEEEeecCceEEEEEEeeccccccc-----ccccccceeEEE
Confidence            59999999999999999999999887654 34433 344566788999999999999998654     367889999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc---CCCCcEEEEEeCCCCCC-CccCCChhHHHHHhhh-cceEEE--Eee
Q 031411           95 YDVTDESSFNNIRNWIRNIEQHA---SDNVNKILVGNKADMDE-SKREAPFCLHETILLT-VQVHLV--ILK  159 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~~---~~~~pi~vv~~K~Dl~~-~~~~~~~~~~~~~~~~-~~~~~~--~~k  159 (160)
                      ||.+++++|+.+..|+..+....   ..++|+++|+||.|+.. ..+.+..+++++++.+ .++.|+  |||
T Consensus        78 fd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk  149 (175)
T d2bmja1          78 FSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCAT  149 (175)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTT
T ss_pred             eecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCC
Confidence            99999999999999998886543   35779999999999853 4456778889999765 466555  554

>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=99.94  E-value=1.6e-26  Score=153.08  Aligned_cols=117  Identities=26%  Similarity=0.548  Sum_probs=101.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++++|||||+++|..+.+...+.+|.+..+  ..+..++  +.+.+||+||+..+...+..++..++++++|
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~--~~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   77 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNM--RKITKGN--VTIKLWDIGGQPRFRSMWERYCRGVSAIVYM   77 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEE--EEEEETT--EEEEEEEECCSHHHHTTHHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeee--eeeeeee--EEEEEeeccccccccccccccccccchhhcc
Confidence            58999999999999999999999998888888777543  4556666  7899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCC
Q 031411           95 YDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDES  135 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ||++++++++....|+..+... ...+.|+++++||.|+.+.
T Consensus        78 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~  119 (164)
T d1zd9a1          78 VDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA  119 (164)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC
T ss_pred             cccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchh
Confidence            9999999999999988887554 3468999999999999643

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.94  E-value=2.4e-26  Score=153.67  Aligned_cols=122  Identities=24%  Similarity=0.463  Sum_probs=100.1

Q ss_pred             CCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCc
Q 031411           10 ADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   89 (160)
Q Consensus        10 ~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~   89 (160)
                      ...+..+||+++|++|||||||+++|.++.+... .++.+  +....+...+  +.+.+||++|++.+...+..++..+|
T Consensus        11 ~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~-~~~~~--~~~~~i~~~~--~~~~i~d~~g~~~~~~~~~~~~~~~~   85 (176)
T d1fzqa_          11 SAPDQEVRILLLGLDNAGKTTLLKQLASEDISHI-TPTQG--FNIKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTD   85 (176)
T ss_dssp             SCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEEE-EEETT--EEEEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCS
T ss_pred             CCCCCEEEEEEECCCCCCHHHHHHHHhcCCCCcc-eeeee--eeEEEeccCC--eeEeEeeccccccchhHHHHHhhccc
Confidence            4445679999999999999999999999887533 33333  3444555555  78999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCc
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESK  136 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~  136 (160)
                      ++++|||++++.+++.+..|+..+... ...++|+++++||+|+.+..
T Consensus        86 ~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~  133 (176)
T d1fzqa_          86 ILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA  133 (176)
T ss_dssp             EEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC
T ss_pred             eeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccc
Confidence            999999999999999999988877553 34678999999999997443

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.93  E-value=8.4e-26  Score=149.62  Aligned_cols=115  Identities=26%  Similarity=0.542  Sum_probs=95.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|||||||+++|.+..+. ...++.+  .....+..++  +.+.+||++|++.+...+..++..+++++++
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~~-~~~~t~~--~~~~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   76 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLG--FNIKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIWV   76 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCCS-SCCCCSS--EEEEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCCC-cccceEe--eeeeeccccc--cceeeeecCcchhhhhHHHhhhhhhhcceee
Confidence            589999999999999999999987654 4455555  3344555565  7899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCCC
Q 031411           95 YDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDE  134 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~-~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ||.++..++.....++..... ....+.|+++++||+|+.+
T Consensus        77 ~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~  117 (165)
T d1ksha_          77 VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG  117 (165)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             eecccchhHHHHHHhhhhhhhhcccCCCceEEEEecccccc
Confidence            999999999888777766543 3346899999999999973

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.93  E-value=1.1e-25  Score=150.17  Aligned_cols=137  Identities=22%  Similarity=0.456  Sum_probs=103.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..+||+++|+++||||||++++.++.+... .++.+.  .........  +.+.+||+||+..+...+..++.+++++++
T Consensus        11 k~~kIvlvG~~~vGKTSli~rl~~~~~~~~-~~t~~~--~~~~~~~~~--~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~   85 (173)
T d1e0sa_          11 KEMRILMLGLDAAGKTTILYKLKLGQSVTT-IPTVGF--NVETVTYKN--VKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   85 (173)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHTTCCCCEEE-EEETTE--EEEEEEETT--EEEEEEEESCCGGGHHHHGGGTTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCCc-cceeee--eEEEeeccc--eeeEEecCCCcchhhhHHHhhhcccceEEE
Confidence            358999999999999999999998876543 333332  333444444  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCccCCChhH--HHHHhhhcceEE
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKREAPFCL--HETILLTVQVHL  155 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~~~~~~~--~~~~~~~~~~~~  155 (160)
                      +||.++.+++..+.+|+....+. ...+.|+++++||+|+++........+  ..+.+..+++.+
T Consensus        86 v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~  150 (173)
T d1e0sa_          86 VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYV  150 (173)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEE
T ss_pred             EEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccccccHHHHHHHHHHHHHHhCCCEE
Confidence            99999999999999988877553 346899999999999974333222222  233344455554

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.92  E-value=1.9e-25  Score=150.14  Aligned_cols=118  Identities=25%  Similarity=0.479  Sum_probs=93.0

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEE
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   91 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~   91 (160)
                      ....+||+++|++|||||||++++..+.+.. ..++.+.  ........+  +.+.+||++|++.+..++..++.+++++
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~--~~~~~~~~~--~~~~i~D~~g~~~~~~~~~~~~~~~~~i   88 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGF--NVETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAV   88 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTC--CEEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccce--EEEEEeeCC--EEEEEEecccccccchhHHhhhccceeE
Confidence            4557999999999999999999998876643 3344443  333445555  7899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCC
Q 031411           92 LLVYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDE  134 (160)
Q Consensus        92 i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~  134 (160)
                      ++|||++++.++.....|+...... ...+.|+++++||+|+.+
T Consensus        89 i~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~  132 (182)
T d1moza_          89 IFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG  132 (182)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTT
T ss_pred             EEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeecccc
Confidence            9999999999999999988776543 346789999999999963

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.89  E-value=4e-23  Score=135.36  Aligned_cols=135  Identities=21%  Similarity=0.360  Sum_probs=102.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEE
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVY   95 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   95 (160)
                      +||+++|++|||||||++++.++.+.........   .  ....+...+.+.+||++|...+...+..++..+++++++|
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~---~--~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   75 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGF---N--VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSC---C--EEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceee---E--EEEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEE
Confidence            5899999999999999999998877654433332   1  1223334478999999999999888999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCcc--CCChhHHHHHhhhcceEE
Q 031411           96 DVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKR--EAPFCLHETILLTVQVHL  155 (160)
Q Consensus        96 d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~--~~~~~~~~~~~~~~~~~~  155 (160)
                      |..++.++..+..|+..+... .....|+++++||.|+.+...  ++..+...++++..++.+
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~  138 (160)
T d1r8sa_          76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYI  138 (160)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEE
T ss_pred             EecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEE
Confidence            999999999998888887653 345789999999999864322  223333344555556544

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.87  E-value=7.4e-22  Score=132.00  Aligned_cols=118  Identities=19%  Similarity=0.155  Sum_probs=80.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccc--------hh
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT--------TA   83 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~--------~~   83 (160)
                      .+.-.|+|+|.+|+|||||+++|++.... ....+..+...........+  ..+.+||+||........        ..
T Consensus         3 ~~~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~~~~   80 (178)
T d1wf3a1           3 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYE   80 (178)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHH
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeee--eeeeecccccccccccccchhccccccc
Confidence            44568999999999999999999986532 22223333334444455555  578999999975433222        34


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           84 YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+.++|++++|+|++++..... ..|...+... ..+.|+++|+||+|+.+
T Consensus        81 ~~~~ad~il~v~D~~~~~~~~~-~~i~~~l~~~-~~~~piilv~NK~Dl~~  129 (178)
T d1wf3a1          81 ALADVNAVVWVVDLRHPPTPED-ELVARALKPL-VGKVPILLVGNKLDAAK  129 (178)
T ss_dssp             HTSSCSEEEEEEETTSCCCHHH-HHHHHHHGGG-TTTSCEEEEEECGGGCS
T ss_pred             ccccccceeeeechhhhhcccc-cchhhheecc-ccchhhhhhhccccccc
Confidence            4678999999999987644322 3344444433 34789999999999963

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.86  E-value=2.4e-21  Score=128.99  Aligned_cols=119  Identities=24%  Similarity=0.433  Sum_probs=90.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      ..+||+|+|.+|||||||++++.++.+.... ++.+  .........+  ..+.+||+++++.....+...+..++++++
T Consensus        14 k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~-~~~~--~~~~~~~~~~--~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~   88 (177)
T d1zj6a1          14 QEHKVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIG--SNVEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIV   88 (177)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCEEEE-CCSC--SSCEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCccc-cccc--eeEEEEeecc--eEEEEeccccccccccchhhhhccceeeee
Confidence            4589999999999999999999998765332 2222  2223344455  688999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCcc
Q 031411           94 VYDVTDESSFNNIRNWIRNIEQH-ASDNVNKILVGNKADMDESKR  137 (160)
Q Consensus        94 v~d~~~~~~~~~~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~~~~  137 (160)
                      ++|.++..+++....+....... ...+.|+++++||+|++....
T Consensus        89 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~  133 (177)
T d1zj6a1          89 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT  133 (177)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC
T ss_pred             ecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCc
Confidence            99999999998887766655443 336889999999999974433

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.85  E-value=9.3e-21  Score=129.38  Aligned_cols=115  Identities=17%  Similarity=0.333  Sum_probs=86.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEE-CCEEEEEEEecCCCccccc-ccchhhccCCcEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQERFR-TITTAYYRGAMGILLV   94 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~~-~~~~~~~~~~~~~i~v   94 (160)
                      +|+++|+++||||||+++|.++.+... .++.+.+..  .... ++..+.+.+||++|++.+. ..+..++..++++++|
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~--~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v   78 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSA--IYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFV   78 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEE--EEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEE--EEEEeeeeeeeeeeeeccccccccchhhhhhhhhccccceE
Confidence            799999999999999999999887654 344443333  2333 3445789999999998774 4667788999999999


Q ss_pred             EECCChhh-HHHHHHHHHHHHH---hcCCCCcEEEEEeCCCCCC
Q 031411           95 YDVTDESS-FNNIRNWIRNIEQ---HASDNVNKILVGNKADMDE  134 (160)
Q Consensus        95 ~d~~~~~~-~~~~~~~~~~~~~---~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +|+++..+ +....+|+..+..   .....+|++|++||+|+++
T Consensus        79 ~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~  122 (207)
T d2fh5b1          79 VDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAM  122 (207)
T ss_dssp             EETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTT
T ss_pred             EEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCC
Confidence            99998765 4555556555532   2335689999999999974

>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=99.83  E-value=8.3e-21  Score=127.95  Aligned_cols=110  Identities=19%  Similarity=0.281  Sum_probs=87.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILL   93 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~   93 (160)
                      +.+||+++|+.|||||||++++..+.++..     +  .....+...+  ..+.+||++|++++...+..+++.++++++
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~t~-----~--~~~~~~~~~~--~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~   71 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEAGT-----G--IVETHFTFKD--LHFKMFDVGGQRSERKKWIHCFEGVTAIIF   71 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSCCC-----S--EEEEEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCCc-----c--EEEEEEEeee--eeeeeeccccccccccchhhcccCCceeee
Confidence            358999999999999999999987665432     2  2223444455  689999999999999999999999999999


Q ss_pred             EEECCChhhH-----------HHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           94 VYDVTDESSF-----------NNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        94 v~d~~~~~~~-----------~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ++|.++.+++           +....|...+......+.|+++++||.|+
T Consensus        72 v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~  121 (195)
T d1svsa1          72 CVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDL  121 (195)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHH
T ss_pred             EEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchh
Confidence            9999987765           33444555555555568899999999995

>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=99.83  E-value=2.6e-20  Score=125.92  Aligned_cols=113  Identities=21%  Similarity=0.206  Sum_probs=93.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|+.+||||||++++..+.+.  +.+|.+.+..  .+....  +.+.+||++|++.+...|..++.++++++++
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~~--~~pTiG~~~~--~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   75 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHGS--GVPTTGIIEY--PFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFL   75 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTSS--CCCCCSCEEE--EEECSS--CEEEEEECCCSTTGGGGGGGGCSSCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCC--CCceeeEEEE--EEeccc--eeeeeccccccccccccccccccccceeeEe
Confidence            589999999999999999999988763  5677775443  333443  6889999999999999999999999999999


Q ss_pred             EECCChh-----------hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           95 YDVTDES-----------SFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        95 ~d~~~~~-----------~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ||.++..           .++....|...+......+.|+++++||.|+.
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~  125 (200)
T d2bcjq2          76 VALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLL  125 (200)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHH
T ss_pred             eeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhh
Confidence            9998753           45667778877776666789999999999973

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.82  E-value=6.8e-21  Score=131.50  Aligned_cols=113  Identities=20%  Similarity=0.270  Sum_probs=86.7

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +...||+++|+.|||||||++++..+.+    .+|.|+  ....+..++  +.+.+||++|+..+...|..+++++++++
T Consensus         4 k~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~--~~~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii   75 (221)
T d1azta2           4 RATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGI--FETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAII   75 (221)
T ss_dssp             HHSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSC--EEEEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEEE
T ss_pred             hhcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCe--EEEEEEECc--EEEEEEecCccceeccchhhhcccccceE
Confidence            4568999999999999999999976543    356663  344566666  78999999999999999999999999999


Q ss_pred             EEEECCChh----------hHHHHHH-HHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           93 LVYDVTDES----------SFNNIRN-WIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        93 ~v~d~~~~~----------~~~~~~~-~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      +++|.++.+          ...+... |...+......++|++|++||+|+.
T Consensus        76 ~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~  127 (221)
T d1azta2          76 FVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLL  127 (221)
T ss_dssp             EEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHH
T ss_pred             EEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhh
Confidence            999998632          2233333 3333333334579999999999984

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.81  E-value=1.1e-20  Score=124.08  Aligned_cols=116  Identities=25%  Similarity=0.308  Sum_probs=84.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc--------chhhcc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI--------TTAYYR   86 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~--------~~~~~~   86 (160)
                      +||+++|.+|||||||+|+|++.... ....+....+.....+...+  ..+.+||++|.......        ...++.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   79 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEIE   79 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC--ceeeeccccccccccccchhHHHHHHHHHHH
Confidence            79999999999999999999976543 22333333344445566666  57889999995433221        234567


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+|++++++|..+..+++....|...+.... .+.|+++++||+|+.+
T Consensus        80 ~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~-~~~~iilv~NK~Dl~~  126 (161)
T d2gj8a1          80 QADRVLFMVDGTTTDAVDPAEIWPEFIARLP-AKLPITVVRNKADITG  126 (161)
T ss_dssp             TCSEEEEEEETTTCCCCSHHHHCHHHHHHSC-TTCCEEEEEECHHHHC
T ss_pred             hccccceeeccccccchhhhhhhhhhhhhcc-cccceeeccchhhhhh
Confidence            8999999999998887777766655555443 4789999999999853

>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=99.81  E-value=4.6e-20  Score=124.92  Aligned_cols=112  Identities=25%  Similarity=0.332  Sum_probs=81.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|||||||++++.   +...+.+|.+..  ...+...+  ..+.+||++|++.+...+..+++++++++++
T Consensus         2 ~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~--~~~~~~~~--~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~   74 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIH--EYDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFL   74 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEE--EEEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeE--EEEEeeee--eeeeeecccceeeecccccccccccceeEEE
Confidence            5899999999999999999994   345566777743  34555555  6789999999999999999999999999999


Q ss_pred             EECCChhh----------HHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCC
Q 031411           95 YDVTDESS----------FNNIRNWIRNIEQ-HASDNVNKILVGNKADMD  133 (160)
Q Consensus        95 ~d~~~~~~----------~~~~~~~~~~~~~-~~~~~~pi~vv~~K~Dl~  133 (160)
                      |+.++..+          ++....|+..+.. ....+.|+++++||+|+.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~  124 (200)
T d1zcba2          75 VSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLL  124 (200)
T ss_dssp             EETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             EEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhh
Confidence            99987433          3444445555433 334689999999999973

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.81  E-value=2.4e-19  Score=117.23  Aligned_cols=113  Identities=25%  Similarity=0.403  Sum_probs=92.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEE
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYD   96 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   96 (160)
                      ||+++|++|||||||+++|.++.+.. ..++.+  .........+  ..+.+||++|...+...+..++..++++++++|
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d   76 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLAT-LQPTWH--PTSEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVD   76 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCC-CCCCCS--CEEEEECCTT--CCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCe-eeceee--EeEEEeccCC--eeEEEEeeccchhhhhhHhhhhhheeeeeeecc
Confidence            89999999999999999999987653 344444  3333444444  578899999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCC
Q 031411           97 VTDESSFNNIRNWIRNIEQHA-SDNVNKILVGNKADMDE  134 (160)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~-~~~~pi~vv~~K~Dl~~  134 (160)
                      .++..++.....|+....... ..+.|++++++|.|+..
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~  115 (166)
T d2qtvb1          77 AADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN  115 (166)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSS
T ss_pred             ccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccc
Confidence            999999988888777776543 36789999999999863

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.81  E-value=7.3e-19  Score=115.49  Aligned_cols=137  Identities=23%  Similarity=0.432  Sum_probs=100.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEEEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLV   94 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   94 (160)
                      .+||+++|++|||||||++++.++.+... .++.+  ........++  +.+.+||.+|...+...+...+...++++++
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~~~~~~~~~-~~~~~--~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIYV   79 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSS--EEEEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCcce-ecccc--eeeeeeccCc--eEEEEeeccccccccccchhhhhhhhhhhhh
Confidence            48999999999999999999999887643 23333  3334445555  6788999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCCCCccC--CChhHHHHHhhhcceEEE
Q 031411           95 YDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDESKRE--APFCLHETILLTVQVHLV  156 (160)
Q Consensus        95 ~d~~~~~~~~~~~~~~~~~~~-~~~~~~pi~vv~~K~Dl~~~~~~--~~~~~~~~~~~~~~~~~~  156 (160)
                      +|..+..++.....++..... ......|+++++||.|+.+....  +..+.+..++...++.++
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~  144 (169)
T d1upta_          80 VDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIF  144 (169)
T ss_dssp             EETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEE
T ss_pred             hhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEE
Confidence            999998888877776555443 34457899999999999743332  222223345555555544

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.78  E-value=1.3e-19  Score=123.45  Aligned_cols=116  Identities=17%  Similarity=0.348  Sum_probs=82.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhh----ccCCc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY----YRGAM   89 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~----~~~~~   89 (160)
                      +..+|+++|++|||||||+|+|.++.+...    .+.......+..++  ..+.+||+||+..+...+...    ...++
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~~~----tt~~~~~~~~~~~~--~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~   75 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVRPT----VVSQEPLSAADYDG--SGVTLVDFPGHVKLRYKLSDYLKTRAKFVK   75 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCCB----CCCSSCEEETTGGG--SSCEEEECCCCGGGTHHHHHHHHHHGGGEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCe----EEecceEEEEEeCC--eEEEEEecccccchhhHHHHHHHHHhhhcc
Confidence            345899999999999999999998776432    22222222333333  568899999998776655444    34568


Q ss_pred             EEEEEEECCC-hhhHHHHHHHHHHH----HHhcCCCCcEEEEEeCCCCCCC
Q 031411           90 GILLVYDVTD-ESSFNNIRNWIRNI----EQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        90 ~~i~v~d~~~-~~~~~~~~~~~~~~----~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      .+++++|+.+ ..+++...+|+..+    ......++|+++++||+|+.+.
T Consensus        76 ~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~  126 (209)
T d1nrjb_          76 GLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA  126 (209)
T ss_dssp             EEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             ccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeeccccc
Confidence            8888999775 56666666666544    3445578999999999999643

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.77  E-value=1.4e-18  Score=115.78  Aligned_cols=117  Identities=21%  Similarity=0.366  Sum_probs=85.7

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhccCCcEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIL   92 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i   92 (160)
                      +...||+++|++|||||||+++|.++.+... .++.+.  ....+..++  ..+.+||+.++..+...+.......++++
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~--~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHP--TSEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   85 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCC--SCEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcce-eccccc--ceeEEEecc--cccccccccchhhhhhHHhhhhcccceee
Confidence            4568999999999999999999998876543 233332  233445566  46789999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCCC
Q 031411           93 LVYDVTDESSFNNIRNWIRNIEQ-HASDNVNKILVGNKADMDE  134 (160)
Q Consensus        93 ~v~d~~~~~~~~~~~~~~~~~~~-~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +++|.++...+.....++..... ....+.|+++++||.|++.
T Consensus        86 ~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~  128 (186)
T d1f6ba_          86 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE  128 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT
T ss_pred             eeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccc
Confidence            99999999888877765555543 3345789999999999863

>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=99.77  E-value=6.2e-19  Score=117.78  Aligned_cols=116  Identities=18%  Similarity=0.186  Sum_probs=76.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCcccc-------ceeeeEEEEEEEECCEEEEEEEecCCCcccccccchhhcc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFIT-------TIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYR   86 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~   86 (160)
                      ..++|.++|.+++|||||+|+|.+.........       ..+.......+..++  ..+.++|++|+..+.......+.
T Consensus         4 k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~l~   81 (179)
T d1wb1a4           4 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSAAD   81 (179)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCC--ccccccccccccccccchhhhhh
Confidence            467999999999999999999986432211111       111111112233344  57889999999988888888899


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      .+|++++++|+.+....+.. +.+..+..   .++|+++++||+|+.+.
T Consensus        82 ~~d~~ilv~d~~~g~~~~~~-~~~~~~~~---~~~p~iiv~NKiD~~~~  126 (179)
T d1wb1a4          82 IIDLALIVVDAKEGPKTQTG-EHMLILDH---FNIPIIVVITKSDNAGT  126 (179)
T ss_dssp             SCCEEEEEEETTTCSCHHHH-HHHHHHHH---TTCCBCEEEECTTSSCH
T ss_pred             hccccccccccccccchhhh-hhhhhhhh---cCCcceeccccccccCH
Confidence            99999999999875332222 11122222   37899999999999743

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.76  E-value=1.7e-18  Score=115.57  Aligned_cols=116  Identities=17%  Similarity=0.200  Sum_probs=73.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc----cccc---chhhccCCc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----FRTI---TTAYYRGAM   89 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----~~~~---~~~~~~~~~   89 (160)
                      +|+++|.+|||||||+|+|++...........+........... ....+.+||+||...    ...+   ....+..++
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVS-EEERFTLADIPGIIEGASEGKGLGLEFLRHIARTR   81 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECS-SSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeeec-CCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhh
Confidence            58999999999999999998765443322333333333222222 224688999999432    1111   234467899


Q ss_pred             EEEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           90 GILLVYDVTDE--SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        90 ~~i~v~d~~~~--~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ++++++|....  ..++....|+....... .+.|+++++||+|+.+
T Consensus        82 ~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~-~~~p~iiv~NK~D~~~  127 (180)
T d1udxa2          82 VLLYVLDAADEPLKTLETLRKEVGAYDPAL-LRRPSLVALNKVDLLE  127 (180)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHHHHHHCHHH-HHSCEEEEEECCTTSC
T ss_pred             hhhhhcccccccccchhhhhhhhhcccccc-chhhhhhhhhhhhhhh
Confidence            99999998653  33344444444332222 2569999999999963

>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=99.76  E-value=1.5e-18  Score=118.11  Aligned_cols=115  Identities=17%  Similarity=0.088  Sum_probs=83.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC-----------------CCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDG-----------------SFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER   76 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~-----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~   76 (160)
                      ..++|+++|..++|||||+++|+..                 ..+++..+..+++.....+..++  ..+.++|||||..
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~--~~i~iiDtPGh~d   79 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK--RHYSHVDCPGHAD   79 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSS--CEEEEEECCCSGG
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCC--eEEEEEeCCCchh
Confidence            4589999999999999999999621                 11122233444555555666666  4688999999999


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCC
Q 031411           77 FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVN-KILVGNKADMDE  134 (160)
Q Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-i~vv~~K~Dl~~  134 (160)
                      |.......+..+|++|+|+|+.+....+..+.|.....    .++| ++|+.||+|+.+
T Consensus        80 f~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~----~gi~~iiv~iNK~D~~~  134 (204)
T d2c78a3          80 YIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQ----VGVPYIVVFMNKVDMVD  134 (204)
T ss_dssp             GHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHH----TTCCCEEEEEECGGGCC
T ss_pred             hHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHH----cCCCeEEEEEEecccCC
Confidence            98888888999999999999987655444433333222    2555 778899999863

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.75  E-value=1.4e-18  Score=113.66  Aligned_cols=134  Identities=22%  Similarity=0.210  Sum_probs=86.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCcccc-----cc----cchhhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF-----RT----ITTAYY   85 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~-----~~----~~~~~~   85 (160)
                      +||+++|.+|+|||||+|+|++.... ....+..+.......+...+  ..+.+||+||....     +.    .....+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~   78 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEI   78 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC--eeEEeccccccccCCccHHHHHHHHHHHHHH
Confidence            68999999999999999999875432 22333333334444556666  57889999994211     11    112235


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcceEEEEee
Q 031411           86 RGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQVHLVILK  159 (160)
Q Consensus        86 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~k  159 (160)
                      ..+|++++++|++++...+...-+     ... ...++++++||.|+.+...  ..+-..++....++..+|||
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~~~~~-----~~~-~~~~~i~~~~k~d~~~~~~--~~~~~~~~~~~~~~~~vSA~  144 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEEDRKIL-----ERI-KNKRYLVVINKVDVVEKIN--EEEIKNKLGTDRHMVKISAL  144 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHHHH-----HHH-TTSSEEEEEEECSSCCCCC--HHHHHHHHTCSTTEEEEEGG
T ss_pred             HhCCEEEEEEeCCCCcchhhhhhh-----hhc-ccccceeeeeeccccchhh--hHHHHHHhCCCCcEEEEECC
Confidence            789999999999987665433211     111 2568999999999974332  22233455555677888875

>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=99.74  E-value=3e-18  Score=118.50  Aligned_cols=118  Identities=17%  Similarity=0.118  Sum_probs=75.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceee--eEEEEE--------------EEECCEEEEEEEecCCCccccccc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGI--DFKIRT--------------IELDGKRIKLQIWDTAGQERFRTI   80 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~--~~~~~~--------------~~~~~~~~~~~~~D~~g~~~~~~~   80 (160)
                      .|+++|.+++|||||+++|+............+.  ......              ..+.....++.++|||||..|...
T Consensus         7 ~IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~   86 (227)
T d1g7sa4           7 IVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTL   86 (227)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTS
T ss_pred             EEEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceeccccc
Confidence            3999999999999999999863211100000000  000000              011122247899999999999888


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccC
Q 031411           81 TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRE  138 (160)
Q Consensus        81 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~  138 (160)
                      ....+..+|++++|+|+.+.-..+. .+.+..+..   .++|+++++||+|+.+....
T Consensus        87 ~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~---~~~p~iivlNK~D~~~~~~~  140 (227)
T d1g7sa4          87 RKRGGALADLAILIVDINEGFKPQT-QEALNILRM---YRTPFVVAANKIDRIHGWRV  140 (227)
T ss_dssp             BCSSSBSCSEEEEEEETTTCCCHHH-HHHHHHHHH---TTCCEEEEEECGGGSTTCCC
T ss_pred             chhcccccceEEEEEecccCcccch-hHHHHHhhc---CCCeEEEEEECccCCCchhh
Confidence            8888899999999999986433222 222222222   37899999999998654443

>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=99.74  E-value=2.6e-18  Score=113.74  Aligned_cols=111  Identities=24%  Similarity=0.256  Sum_probs=68.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccc---------ccccchhhcc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER---------FRTITTAYYR   86 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~---------~~~~~~~~~~   86 (160)
                      +|+++|++|+|||||+++|++.... ....+..+.......+...+  ..+.+||++|...         +.......+.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~   79 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG--KTFKLVDTCGVFDNPQDIISQKMKEVTLNMIR   79 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETT--EEEEEEECTTTTSSGGGCCCHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccccc--cccccccccceeeeeccccccccccccccccc
Confidence            6999999999999999999975542 12222222222233344444  5789999999321         1222234567


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           87 GAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        87 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .+|+++++.+.+.....+ ...++..+...   +.|+++++||+|+.
T Consensus        80 ~ad~i~~~~~~~~~~~~~-~~~~~~~l~~~---~~pviiv~NK~Dl~  122 (171)
T d1mkya1          80 EADLVLFVVDGKRGITKE-DESLADFLRKS---TVDTILVANKAENL  122 (171)
T ss_dssp             TCSEEEEEEETTTCCCHH-HHHHHHHHHHH---TCCEEEEEESCCSH
T ss_pred             cCcEEEEeeccccccccc-ccccccccccc---cccccccchhhhhh
Confidence            899999999987644332 23344444432   67999999999986

>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=99.73  E-value=2.4e-17  Score=110.31  Aligned_cols=115  Identities=24%  Similarity=0.199  Sum_probs=73.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccccc------------ccc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFR------------TIT   81 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~------------~~~   81 (160)
                      .+||+++|.+++|||||+|+|++.... ....+..+.......+..++  ..+.++|+||.....            ...
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~   85 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDG--RKYVFVDTAGLRRKSRVEPRTVEKYSNYRV   85 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETT--EEEEESSCSCC-----------CCSCCHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCC--ceeeeeccCCccccccccccccccchhHHH
Confidence            589999999999999999999976532 12222222223333456666  467899999953221            223


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           82 TAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ...++.+|++++++|++.+.. +....++..+..   .+.|+++++||+|+...
T Consensus        86 ~~~~~~~dvii~v~d~~~~~~-~~~~~~~~~~~~---~~~~~i~v~nK~D~~~~  135 (186)
T d1mkya2          86 VDSIEKADVVVIVLDATQGIT-RQDQRMAGLMER---RGRASVVVFNKWDLVVH  135 (186)
T ss_dssp             HHHHHHCSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSTT
T ss_pred             HHHHhcCCEEEEeecccccch-hhHHHHHHHHHH---cCCceeeeccchhhhcc
Confidence            344678999999999976433 222333333333   36799999999998633

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.73  E-value=5.3e-18  Score=113.23  Aligned_cols=108  Identities=19%  Similarity=0.189  Sum_probs=68.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc---------------cccc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF---------------RTIT   81 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~---------------~~~~   81 (160)
                      .|+++|.+|+|||||+|+|.+........+..+.+.  ..+...+    +.+||+||....               ....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~~--~~~~~~~----~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~   75 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKI--IEIEWKN----HKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   75 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSC--EEEEETT----EEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeecc--ccccccc----ceecccCCceeccccccccccccchhhhhhh
Confidence            689999999999999999998765444333333222  2333343    578999994211               1112


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHH----------HHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           82 TAYYRGAMGILLVYDVTDESSFNNIR----------NWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~~~~~~~~~----------~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ....+.+|++++++|+..+.......          +.+..+.   ..+.|+++++||+|+.
T Consensus        76 ~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~---~~~~p~iiv~NK~D~~  134 (184)
T d2cxxa1          76 EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLR---ELDIPTIVAVNKLDKI  134 (184)
T ss_dssp             HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHH---HTTCCEEEEEECGGGC
T ss_pred             hhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHH---HcCCCEEEEEeeeehh
Confidence            33457899999999997543322111          1122222   2478999999999975

>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=99.70  E-value=3.3e-17  Score=110.69  Aligned_cols=116  Identities=16%  Similarity=0.071  Sum_probs=80.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC----------------CCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDG----------------SFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF   77 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~   77 (160)
                      ..++|+++|..++|||||+++|+..                ...++.....+++.....+..++  ..+.++|+||+..|
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~--~~~~~iDtPGh~~f   79 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAA--RHYAHTDCPGHADY   79 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSS--CEEEEEECSSHHHH
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEece--eeEEeecCcchHHH
Confidence            4589999999999999999999741                12233334444443333444444  57899999999999


Q ss_pred             cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           78 RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        78 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .....+.+..+|++++|+|+.+...- .-++.+..+...  ...|++|+.||+|+.+
T Consensus        80 ~~~~~~~~~~aD~allVVda~~G~~~-QT~~~~~~a~~~--~~~~iIv~iNK~D~~~  133 (196)
T d1d2ea3          80 VKNMITGTAPLDGCILVVAANDGPMP-QTREHLLLARQI--GVEHVVVYVNKADAVQ  133 (196)
T ss_dssp             HHHHHHTSSCCSEEEEEEETTTCSCH-HHHHHHHHHHHT--TCCCEEEEEECGGGCS
T ss_pred             HHHHHHHHhhcCeEEEEEEcCCCCch-hHHHHHHHHHHh--cCCcEEEEEecccccc
Confidence            88888889999999999999875332 222222222221  1347999999999863

>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=99.68  E-value=2.5e-16  Score=111.04  Aligned_cols=126  Identities=17%  Similarity=0.161  Sum_probs=90.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc--CCC----------------CCccccceeeeEEEEEEEECCEEEEEEEecCCCccc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD--GSF----------------TTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER   76 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~--~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~   76 (160)
                      .-+|.++|..++|||||+.+|+.  +..                +++..+..++......+.+++  .+++++||||+..
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~--~~~n~iDtPG~~d   83 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDAPGHVD   83 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETT--EEEEEECCCSSSS
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCC--eEEEEecCCchhh
Confidence            34899999999999999999963  111                112222333444455667777  5789999999999


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHH
Q 031411           77 FRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHET  146 (160)
Q Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~  146 (160)
                      |.......+..+|++|+|+|+.+.-.....+-|-..-    ..++|.+++.||+|..........+++++
T Consensus        84 F~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a~----~~~lP~i~fINKmDr~~ad~~~~l~ei~~  149 (276)
T d2bv3a2          84 FTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAE----KYKVPRIAFANKMDKTGADLWLVIRTMQE  149 (276)
T ss_dssp             CSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHHHH----TTTCCEEEEEECTTSTTCCHHHHHHHHHH
T ss_pred             hHHHHHHHHHhhhheEEeccccCCcchhHHHHHHHHH----HcCCCEEEEEecccccccccchhHHHHHH
Confidence            9999999999999999999998865555544443222    34899999999999976555555555554

>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=99.67  E-value=2.9e-18  Score=114.81  Aligned_cols=117  Identities=21%  Similarity=0.129  Sum_probs=69.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCccc----ccccch---hhccCCc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQER----FRTITT---AYYRGAM   89 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~----~~~~~~---~~~~~~~   89 (160)
                      +|+++|.+|||||||+|+|.+........+..+...........+. ..+.+|||||..+    ...+..   ..+..++
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~-~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTR   81 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCC-cEEEEecCCCcccCchHHHHHHHHHHHHHHHhh
Confidence            6899999999999999999876543222222222333333333321 3688999999522    111111   2345688


Q ss_pred             EEEEEEECCChhhHHHHHH--HHHHHHH---hcCCCCcEEEEEeCCCCCC
Q 031411           90 GILLVYDVTDESSFNNIRN--WIRNIEQ---HASDNVNKILVGNKADMDE  134 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~--~~~~~~~---~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .++++++....+.......  +......   ....+.|+++++||+|+.+
T Consensus        82 ~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~  131 (185)
T d1lnza2          82 VIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPE  131 (185)
T ss_dssp             EEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTT
T ss_pred             hhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHh
Confidence            8888888765433222211  1111111   1223679999999999973

>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=99.62  E-value=5.9e-15  Score=101.27  Aligned_cols=118  Identities=19%  Similarity=0.175  Sum_probs=78.2

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcC--CCC-------------------------------CccccceeeeEEEEEE
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDG--SFT-------------------------------TSFITTIGIDFKIRTI   57 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~--~~~-------------------------------~~~~~~~~~~~~~~~~   57 (160)
                      +.+..+||+++|..++|||||+++|+..  ...                               .+.....+.+......
T Consensus         5 ~~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~   84 (222)
T d1zunb3           5 ERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYF   84 (222)
T ss_dssp             TSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEE
T ss_pred             ccCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEE
Confidence            4567899999999999999999999631  110                               0111122222233333


Q ss_pred             EECCEEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC-cEEEEEeCCCCCC
Q 031411           58 ELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNV-NKILVGNKADMDE  134 (160)
Q Consensus        58 ~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~-pi~vv~~K~Dl~~  134 (160)
                      ..++  ..+.++|+|||..|.....+....+|++++|+|+.+...-+....+. .+..   .++ .++++.||+|+.+
T Consensus        85 ~~~~--~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~-~~~~---~gv~~iiv~vNK~D~~~  156 (222)
T d1zunb3          85 STAK--RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSY-IASL---LGIKHIVVAINKMDLNG  156 (222)
T ss_dssp             ECSS--EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHH-HHHH---TTCCEEEEEEECTTTTT
T ss_pred             eccc--eEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHHH-HHHH---cCCCEEEEEEEcccccc
Confidence            4444  47899999999999888888899999999999998743322222222 1111   244 4888999999974

>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=99.62  E-value=1e-15  Score=107.54  Aligned_cols=112  Identities=15%  Similarity=0.202  Sum_probs=83.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC--CC----------------CccccceeeeEEEEEEEECCEEEEEEEecCCCcccc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS--FT----------------TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF   77 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~--~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~   77 (160)
                      -+|+++|..++|||||+.+|+...  ..                ++.....++......+.+++  .+++++||||+..|
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~--~~~n~iDtPGh~dF   80 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG--HRVFLLDAPGYGDF   80 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT--EEEEEEECCCSGGG
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccc--cceeEEccCchhhh
Confidence            479999999999999999996311  10                11222334445556677777  56899999999999


Q ss_pred             cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           78 RTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        78 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      .......+..+|++|+|+|+.+.-......-|.....    .++|.+++.||+|..
T Consensus        81 ~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~~----~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          81 VGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAER----LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHH----TTCCEEEEEECGGGC
T ss_pred             hhhhhhhhcccCceEEEeeccCCccchhHHHHHhhhh----ccccccccccccccc
Confidence            9988999999999999999987655544444433322    378999999999974

>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=99.61  E-value=1.7e-15  Score=102.06  Aligned_cols=136  Identities=16%  Similarity=0.162  Sum_probs=83.1

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCC---cccccee--eeEEEEEEEE-------------------CCEEEEEEE
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTT---SFITTIG--IDFKIRTIEL-------------------DGKRIKLQI   68 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~---~~~~~~~--~~~~~~~~~~-------------------~~~~~~~~~   68 (160)
                      ...++|+++|..++|||||+++|++.....   ......+  ..+.......                   ......+.+
T Consensus         3 ~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (195)
T d1kk1a3           3 QAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSF   82 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEE
T ss_pred             CCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEee
Confidence            456899999999999999999998632211   1111111  1111111111                   112356899


Q ss_pred             ecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcc-CCChhHHHHH
Q 031411           69 WDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKR-EAPFCLHETI  147 (160)
Q Consensus        69 ~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~-~~~~~~~~~~  147 (160)
                      +|+|||..|.......+..+|++++++|+.+....+...+-+..+... . ..+++++.||+|+.+... ....++..++
T Consensus        83 iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~-~-~~~iiv~inK~D~~d~~~~~~~~~~~~~~  160 (195)
T d1kk1a3          83 IDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII-G-QKNIIIAQNKIELVDKEKALENYRQIKEF  160 (195)
T ss_dssp             EECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH-T-CCCEEEEEECGGGSCHHHHHHHHHHHHHH
T ss_pred             eccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHh-c-CccceeeeecccchhhHHHHHHHHHHHHH
Confidence            999999999888888889999999999998753222222222223222 1 246888899999864322 2223445555


Q ss_pred             hhh
Q 031411          148 LLT  150 (160)
Q Consensus       148 ~~~  150 (160)
                      ...
T Consensus       161 ~~~  163 (195)
T d1kk1a3         161 IEG  163 (195)
T ss_dssp             HTT
T ss_pred             hcc
Confidence            544

>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=99.60  E-value=2.4e-15  Score=108.97  Aligned_cols=128  Identities=19%  Similarity=0.176  Sum_probs=86.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc--CCC--------------CCccccceeeeEEEEEEEE--------------CCEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD--GSF--------------TTSFITTIGIDFKIRTIEL--------------DGKR   63 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~--~~~--------------~~~~~~~~~~~~~~~~~~~--------------~~~~   63 (160)
                      ..-+|+++|..++|||||+++|+.  +..              ..+..+..++......+.+              ++..
T Consensus        16 ~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~   95 (341)
T d1n0ua2          16 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNS   95 (341)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSE
T ss_pred             cCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccc
Confidence            334699999999999999999972  110              1111122222222222222              3346


Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhH
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCL  143 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~  143 (160)
                      +.++++|||||..|.......++-+|++++|+|+.+.-..+...-|.....    .++|++++.||+|....+.....++
T Consensus        96 ~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~----~~~p~i~viNKiDr~~~el~~~~~~  171 (341)
T d1n0ua2          96 FLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRALLELQVSKED  171 (341)
T ss_dssp             EEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHHHHTSCCCHHH
T ss_pred             eEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHH----cCCCeEEEEECcccccccHHhhHHH
Confidence            789999999999999999999999999999999998665555544444333    3789999999999754444555555


Q ss_pred             HH
Q 031411          144 HE  145 (160)
Q Consensus       144 ~~  145 (160)
                      +.
T Consensus       172 ~~  173 (341)
T d1n0ua2         172 LY  173 (341)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=99.59  E-value=4.9e-15  Score=100.59  Aligned_cols=120  Identities=16%  Similarity=0.143  Sum_probs=73.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCc---cccceee--eEEEEEEEE------------------------CCEEE
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTS---FITTIGI--DFKIRTIEL------------------------DGKRI   64 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~---~~~~~~~--~~~~~~~~~------------------------~~~~~   64 (160)
                      ..++|+++|..++|||||+++|++......   .......  .........                        .....
T Consensus         7 p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r   86 (205)
T d2qn6a3           7 PEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLR   86 (205)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEE
T ss_pred             CCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccceE
Confidence            448999999999999999999986322100   0000000  001111111                        01124


Q ss_pred             EEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411           65 KLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus        65 ~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      .+.+.|+|||..|.......+..+|++|+++|+.+.-.-...++-+..+...  .-.|++|+.||+|+.+.
T Consensus        87 ~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~--~i~~iIV~vNK~Dl~~~  155 (205)
T d2qn6a3          87 RISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII--GVKNLIIVQNKVDVVSK  155 (205)
T ss_dssp             EEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT--TCCCEEEEEECGGGSCH
T ss_pred             EEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc--CCceeeeccccCCCccc
Confidence            6899999999999887788889999999999998742111212222222221  13488999999999643

>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=99.59  E-value=3.5e-16  Score=108.58  Aligned_cols=115  Identities=19%  Similarity=0.159  Sum_probs=80.2

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc--CC-----------------------------CCCccccceeeeEEEEEEEECC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD--GS-----------------------------FTTSFITTIGIDFKIRTIELDG   61 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~--~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~   61 (160)
                      +..++|+++|..++|||||+.+|+.  +.                             ...+..+..+++.....+..++
T Consensus         4 k~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~   83 (239)
T d1f60a3           4 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   83 (239)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS
T ss_pred             CCccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCC
Confidence            4568999999999999999999962  11                             0112333444444445556666


Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHH--------HHHHHHHHHHHhcCCCC-cEEEEEeCCCC
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFN--------NIRNWIRNIEQHASDNV-NKILVGNKADM  132 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~--------~~~~~~~~~~~~~~~~~-pi~vv~~K~Dl  132 (160)
                        .++++.|+|||..|.....+.+..+|++|+|+|+.... ++        ....|+. ...   -++ +++++.||+|+
T Consensus        84 --~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~-~e~g~~~~~QT~eh~~~-~~~---~gv~~iiv~iNKmD~  156 (239)
T d1f60a3          84 --YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGE-FEAGISKDGQTREHALL-AFT---LGVRQLIVAVNKMDS  156 (239)
T ss_dssp             --EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHH-HHHHTCTTSHHHHHHHH-HHH---TTCCEEEEEEECGGG
T ss_pred             --EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCc-cccccCchHhHHHHHHH-HHH---cCCCeEEEEEECCCC
Confidence              68999999999999998888999999999999997531 21        2222221 111   255 48889999998


Q ss_pred             CC
Q 031411          133 DE  134 (160)
Q Consensus       133 ~~  134 (160)
                      .+
T Consensus       157 ~~  158 (239)
T d1f60a3         157 VK  158 (239)
T ss_dssp             GT
T ss_pred             CC
Confidence            64

>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=99.59  E-value=5.1e-15  Score=99.56  Aligned_cols=113  Identities=17%  Similarity=0.150  Sum_probs=62.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCEEEEEEEecCCCcccc-------------ccc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERF-------------RTI   80 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~-------------~~~   80 (160)
                      ...+|+|+|.+|+|||||+|+|++...........+............   .+.+.|++|-...             ...
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~d~~~~~~~~~~~~~~~~~~~~~~~   98 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIET   98 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccccc---cceEEEEEeeccccccccccchhhhHHhh
Confidence            345899999999999999999997543211111111111112222222   2334555552111             111


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 031411           81 TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMD  133 (160)
Q Consensus        81 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~  133 (160)
                      ....+..++++++++|+..+.. +...+++..+..   .+.|+++++||+|+.
T Consensus        99 ~~~~~~~~~~vi~viD~~~~~~-~~~~~~~~~l~~---~~~piivv~NK~D~~  147 (195)
T d1svia_          99 YITTREELKAVVQIVDLRHAPS-NDDVQMYEFLKY---YGIPVIVIATKADKI  147 (195)
T ss_dssp             HHHHCTTEEEEEEEEETTSCCC-HHHHHHHHHHHH---TTCCEEEEEECGGGS
T ss_pred             hhccccchhhhhhhhhcccccc-cccccccccccc---ccCcceechhhcccc
Confidence            2234567899999999976432 122233444433   367999999999985

>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=99.57  E-value=3.8e-14  Score=99.31  Aligned_cols=120  Identities=18%  Similarity=0.125  Sum_probs=74.3

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCccccccc-------chh-
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI-------TTA-   83 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~-------~~~-   83 (160)
                      ...++|+++|.+|+|||||+|.|++.... ....+..+..........++  ..+.++||||-......       ... 
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g--~~i~viDTPGl~~~~~~~~~~~~~i~~~  107 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSF  107 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEecc--EEEEEEeeecccCCcchHHHHHHHHHHH
Confidence            45799999999999999999999986543 22222333334445556677  57899999994322111       111 


Q ss_pred             -hccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCC--CcEEEEEeCCCCCC
Q 031411           84 -YYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDN--VNKILVGNKADMDE  134 (160)
Q Consensus        84 -~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~--~pi~vv~~K~Dl~~  134 (160)
                       .....|++++|++.+...--+.....+..+...++.+  .+++++.||.|..+
T Consensus       108 ~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~  161 (257)
T d1h65a_         108 LLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSP  161 (257)
T ss_dssp             TTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCC
T ss_pred             HhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCC
Confidence             1235688899988865321112222333333333322  37899999999863

>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=99.55  E-value=2.5e-15  Score=103.43  Aligned_cols=118  Identities=19%  Similarity=0.153  Sum_probs=73.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCC--C-----------------------------CCccccceeeeEEEEEEEECCEE
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGS--F-----------------------------TTSFITTIGIDFKIRTIELDGKR   63 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~   63 (160)
                      .++|+++|.-++|||||+.+|+...  .                             ..+.....+.......+..++  
T Consensus         3 ~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~--   80 (224)
T d1jnya3           3 HLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKK--   80 (224)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSS--
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEecCC--
Confidence            6899999999999999999886310  0                             011112222222323334444  


Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHH---HHHHHHHHHHh-cCCCCcEEEEEeCCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNN---IRNWIRNIEQH-ASDNVNKILVGNKADMDE  134 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~---~~~~~~~~~~~-~~~~~pi~vv~~K~Dl~~  134 (160)
                      ..+.+.|+|||..|.....+.+.-+|++|+|+|+.+...-..   ..+....+... .....+++++.||+|+..
T Consensus        81 ~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~~~  155 (224)
T d1jnya3          81 YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTE  155 (224)
T ss_dssp             CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSS
T ss_pred             ceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEcccCCC
Confidence            679999999999999999999999999999999987422111   11111111111 112346888999999864

>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=99.50  E-value=3.4e-14  Score=98.86  Aligned_cols=117  Identities=16%  Similarity=0.120  Sum_probs=62.8

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCC--C-----------------------------CCccccceeeeEEEEEEEECC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGS--F-----------------------------TTSFITTIGIDFKIRTIELDG   61 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~~   61 (160)
                      +..++|+++|..++|||||+.+|+...  .                             ..+..+...++.....+..++
T Consensus        22 k~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~  101 (245)
T d1r5ba3          22 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH  101 (245)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS
T ss_pred             CCceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccccccc
Confidence            356899999999999999999995311  0                             011111111222222333344


Q ss_pred             EEEEEEEecCCCcccccccchhhccCCcEEEEEEECCChhh---HH---HHHHHHHHHHHhcCCCC-cEEEEEeCCCCCC
Q 031411           62 KRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESS---FN---NIRNWIRNIEQHASDNV-NKILVGNKADMDE  134 (160)
Q Consensus        62 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~---~~---~~~~~~~~~~~~~~~~~-pi~vv~~K~Dl~~  134 (160)
                        ..+.+.|+|||..|..........+|++++|+|+.+...   ++   ...+-+..+..   .++ +++++.||+|+++
T Consensus       102 --~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~---~~i~~iiv~iNKmD~~~  176 (245)
T d1r5ba3         102 --RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLART---QGINHLVVVINKMDEPS  176 (245)
T ss_dssp             --EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHH---TTCSSEEEEEECTTSTT
T ss_pred             --ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHH---cCCCeEEEEEEcCCCCc
Confidence              478999999999999888888999999999999976321   11   11111111111   244 4888999999964

>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=99.48  E-value=2.9e-14  Score=105.68  Aligned_cols=109  Identities=11%  Similarity=0.119  Sum_probs=65.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCCCCcccc-----ceeeeEEEEEEEECCEEEEEEEecCCCccccccc-----chhh
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSFTTSFIT-----TIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI-----TTAY   84 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~-----~~~~   84 (160)
                      .++|+++|.+|+|||||+|.|.+.........     ..+.+..  .+...+ ...+.+|||||-......     ....
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~--~~~~~~-~~~~~l~DtPG~~~~~~~~~~~~~~~~  132 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERH--PYKHPN-IPNVVFWDLPGIGSTNFPPDTYLEKMK  132 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCE--EEECSS-CTTEEEEECCCGGGSSCCHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeee--eeeccC-CCeEEEEeCCCcccccccHHHHHHHhh
Confidence            58999999999999999999997543221111     1111111  222222 125789999995433221     2233


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           85 YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        85 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      +..+|+++++.|..-...-.   +.+..+..   .+.|+++|.||+|.
T Consensus       133 ~~~~d~~l~~~~~~~~~~d~---~l~~~l~~---~~k~~~~V~nK~D~  174 (400)
T d1tq4a_         133 FYEYDFFIIISATRFKKNDI---DIAKAISM---MKKEFYFVRTKVDS  174 (400)
T ss_dssp             GGGCSEEEEEESSCCCHHHH---HHHHHHHH---TTCEEEEEECCHHH
T ss_pred             hhcceEEEEecCCCCCHHHH---HHHHHHHH---cCCCEEEEEeCccc
Confidence            56788888887754322222   23333333   36799999999995

>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=99.47  E-value=3.6e-13  Score=88.93  Aligned_cols=132  Identities=14%  Similarity=0.114  Sum_probs=76.0

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcCCCCCc-cccceeeeEEEEEEEECCEEEEEEEecCCCccc---------ccccch
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDGSFTTS-FITTIGIDFKIRTIELDGKRIKLQIWDTAGQER---------FRTITT   82 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~---------~~~~~~   82 (160)
                      .+.-.|+|+|.+|||||||+|+|++...... ................+.  ..+..||++|...         ......
T Consensus         3 ~~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (179)
T d1egaa1           3 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAAS   80 (179)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTT
T ss_pred             ccccEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCC--ceeEeecCCCceecchhhhhhhhhhccc
Confidence            3556799999999999999999998654322 122222222223333344  3567788888421         111222


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccCCChhHHHHHhhhcc
Q 031411           83 AYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKREAPFCLHETILLTVQ  152 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~~~~~~~~~~~~~~~~~~~  152 (160)
                      .....+++++++.|..+...  ....+...+.   ....|++++.||.|+.....+ ...+.+.+..+++
T Consensus        81 ~~~~~~~~~l~~~d~~~~~~--~~~~~~~~l~---~~~~~~i~v~~k~d~~~~~~~-~~~~~~~~~~~~~  144 (179)
T d1egaa1          81 SSIGDVELVIFVVEGTRWTP--DDEMVLNKLR---EGKAPVILAVNKVDNVQEKAD-LLPHLQFLASQMN  144 (179)
T ss_dssp             SCCCCEEEEEEEEETTCCCH--HHHHHHHHHH---SSSSCEEEEEESTTTCCCHHH-HHHHHHHHHTTSC
T ss_pred             cchhhcceeEEEEecCccch--hHHHHHHHhh---hccCceeeeeeeeeccchhhh-hhhHhhhhhhhcC
Confidence            33456888888898765322  2222222222   246689999999998643322 3344555555554

>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=99.41  E-value=7.1e-14  Score=92.69  Aligned_cols=122  Identities=17%  Similarity=0.118  Sum_probs=58.7

Q ss_pred             CCCCCCeeEEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEE-EEECCEEEEEEEecCCCccccccc------
Q 031411            8 ARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRT-IELDGKRIKLQIWDTAGQERFRTI------   80 (160)
Q Consensus         8 ~~~~~~~~~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~D~~g~~~~~~~------   80 (160)
                      ..-+.+..++|+++|.+|+|||||+|+|.+...........+....... ....+ ...+..++.++.......      
T Consensus         9 ~~~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   87 (188)
T d1puia_           9 RHLPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADG-KRLVDLPGYGYAEVPEEMKRKWQR   87 (188)
T ss_dssp             GGSSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETT-EEEEECCCCC------CCHHHHHH
T ss_pred             hHCCCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccc-cceeeeecccccchhhhhhhhhhh
Confidence            3455677899999999999999999999986643222111111111112 22233 122222222221111111      


Q ss_pred             ----chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           81 ----TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        81 ----~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                          ........+.++.+.+...... .....++..+..   ...++++++||+|+.+
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~---~~~~~~~v~~k~D~~~  141 (188)
T d1puia_          88 ALGEYLEKRQSLQGLVVLMDIRHPLK-DLDQQMIEWAVD---SNIAVLVLLTKADKLA  141 (188)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCC-HHHHHHHHHHHH---TTCCEEEEEECGGGSC
T ss_pred             hhhhhhhhhhheeEEEEeecccccch-hHHHHHHHHhhh---ccccccchhhhhhccC
Confidence                1111234445556666554322 222334433333   3668999999999864

>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=99.18  E-value=4.7e-11  Score=84.20  Aligned_cols=83  Identities=19%  Similarity=0.156  Sum_probs=55.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEEECCE------------E---EEEEEecCCCcc----c
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGK------------R---IKLQIWDTAGQE----R   76 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~---~~~~~~D~~g~~----~   76 (160)
                      +||.++|.|+||||||++.+++........+..+++.+...+.+.+.            +   .++.+.|+||--    +
T Consensus         3 ~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~~   82 (278)
T d1jala1           3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASK   82 (278)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCccc
Confidence            69999999999999999999987655444455555555445544332            1   258899999932    1


Q ss_pred             ccc---cchhhccCCcEEEEEEECC
Q 031411           77 FRT---ITTAYYRGAMGILLVYDVT   98 (160)
Q Consensus        77 ~~~---~~~~~~~~~~~~i~v~d~~   98 (160)
                      -..   ..-..++++|+++.|+|+.
T Consensus        83 g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          83 GEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             CCCccHHHHHHHHhccceEEEeecc
Confidence            122   2344578999999999874

>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=99.14  E-value=5.3e-11  Score=85.37  Aligned_cols=84  Identities=19%  Similarity=0.145  Sum_probs=45.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeEEEEEEE---E-------------------CCEEEEEEEecCCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIE---L-------------------DGKRIKLQIWDTAG   73 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~---~-------------------~~~~~~~~~~D~~g   73 (160)
                      ++|.++|.|+||||||+|.|++........+.++++.+.....   .                   .....+++++|+||
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            4899999999999999999998765544444444433222111   0                   01235799999999


Q ss_pred             ccc----cccc---chhhccCCcEEEEEEECCC
Q 031411           74 QER----FRTI---TTAYYRGAMGILLVYDVTD   99 (160)
Q Consensus        74 ~~~----~~~~---~~~~~~~~~~~i~v~d~~~   99 (160)
                      --.    -..+   .-..++++|++++|+|+.+
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTC
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            421    1111   2234578999999999863

>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=99.09  E-value=3.7e-10  Score=80.11  Aligned_cols=117  Identities=16%  Similarity=0.218  Sum_probs=69.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEE------------------------------------
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTI------------------------------------   57 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~------------------------------------   57 (160)
                      ..+|+|+|..++|||||+|.|++..+ +....+++.........                                    
T Consensus        26 ~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (299)
T d2akab1          26 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVTG  105 (299)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHCS
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhhC
Confidence            35899999999999999999998775 33322222211111100                                    


Q ss_pred             --------------EECCEEEEEEEecCCCccc-------------ccccchhhccCCc-EEEEEEECCChhhHHHHHHH
Q 031411           58 --------------ELDGKRIKLQIWDTAGQER-------------FRTITTAYYRGAM-GILLVYDVTDESSFNNIRNW  109 (160)
Q Consensus        58 --------------~~~~~~~~~~~~D~~g~~~-------------~~~~~~~~~~~~~-~~i~v~d~~~~~~~~~~~~~  109 (160)
                                    .... ...+.++|+||-..             ...+...++...+ +++++.++....+-.....+
T Consensus       106 ~~~~~~~~~i~l~~~~p~-~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~  184 (299)
T d2akab1         106 TNKGISPVPINLRVYSPH-VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKI  184 (299)
T ss_dssp             STTCCCSCCEEEEEEETT-CCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHH
T ss_pred             CCcCcCCccEEEEEcCCC-CCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHH
Confidence                          0000 01478999999421             1123344556666 45566666555444455555


Q ss_pred             HHHHHHhcCCCCcEEEEEeCCCCCCC
Q 031411          110 IRNIEQHASDNVNKILVGNKADMDES  135 (160)
Q Consensus       110 ~~~~~~~~~~~~pi~vv~~K~Dl~~~  135 (160)
                      ...+.   +...++++|.||.|+.+.
T Consensus       185 ~~~~~---~~~~r~i~Vltk~D~~~~  207 (299)
T d2akab1         185 AKEVD---PQGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHHC---TTCSSEEEEEECGGGSCT
T ss_pred             HHHhC---cCCCceeeEEeccccccc
Confidence            55443   345689999999998643

>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=99.05  E-value=4.1e-10  Score=79.98  Aligned_cols=86  Identities=19%  Similarity=0.173  Sum_probs=59.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeEEEEEEEECCE---------------EEEEEEecCCCccc-
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSF-TTSFITTIGIDFKIRTIELDGK---------------RIKLQIWDTAGQER-   76 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~D~~g~~~-   76 (160)
                      ..++|.++|.|+||||||++.+++... .....|.++++++...+.+.+.               ...+.+.|.||... 
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~g   88 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKG   88 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccc
Confidence            348999999999999999999997643 2334455555555445554432               14788999998432 


Q ss_pred             ---ccc---cchhhccCCcEEEEEEECCC
Q 031411           77 ---FRT---ITTAYYRGAMGILLVYDVTD   99 (160)
Q Consensus        77 ---~~~---~~~~~~~~~~~~i~v~d~~~   99 (160)
                         -..   ..-..++.+|++++|+|+.+
T Consensus        89 A~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          89 ASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cccccccHHHHHHHhhccceeEEEEeccC
Confidence               111   23345689999999999865

>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=98.96  E-value=9.8e-10  Score=78.18  Aligned_cols=67  Identities=16%  Similarity=0.274  Sum_probs=40.6

Q ss_pred             EEEEecCCCccc-------------ccccchhhccCCcEEEEEE-ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 031411           65 KLQIWDTAGQER-------------FRTITTAYYRGAMGILLVY-DVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKA  130 (160)
Q Consensus        65 ~~~~~D~~g~~~-------------~~~~~~~~~~~~~~~i~v~-d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~  130 (160)
                      .+.++|+||-..             ...+...++..++.+++++ +......-.....+...+   .+...++++|.||.
T Consensus       132 ~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~---~~~~~r~i~Vitk~  208 (306)
T d1jwyb_         132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEV---DPEGKRTIGVITKL  208 (306)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHH---CSSCSSEEEEEECT
T ss_pred             CceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHh---CcCCCeEEEEEecc
Confidence            567999999321             2234556778888766665 443332222333344444   33456899999999


Q ss_pred             CCCC
Q 031411          131 DMDE  134 (160)
Q Consensus       131 Dl~~  134 (160)
                      |..+
T Consensus       209 D~~~  212 (306)
T d1jwyb_         209 DLMD  212 (306)
T ss_dssp             TSSC
T ss_pred             cccc
Confidence            9863

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.67  E-value=1.2e-08  Score=71.43  Aligned_cols=59  Identities=27%  Similarity=0.328  Sum_probs=37.4

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeEEEEEEEECCEEEEEEEecCCCc
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDGSFT-TSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQ   74 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   74 (160)
                      .....++++|+|.||||||||+|+|.+.... ....+..+  .....+..+.   .+.+.||||.
T Consensus       108 ~~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~pG~T--r~~~~i~~~~---~~~l~DTPGi  167 (273)
T d1puja_         108 VKPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGIT--TSQQWVKVGK---ELELLDTPGI  167 (273)
T ss_dssp             CCCCCEEEEEEESTTSSHHHHHHHHHTSCCC--------------CCEEETT---TEEEEECCCC
T ss_pred             CCCCceEEEEEecCccchhhhhhhhhccceEEECCccccc--ccceEEECCC---CeEEecCCCc
Confidence            3456699999999999999999999986543 22333333  2222333433   4889999995

>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=98.52  E-value=4e-09  Score=72.09  Aligned_cols=68  Identities=15%  Similarity=0.020  Sum_probs=39.1

Q ss_pred             EEEEecCCCcccccccchh---hc--cCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           65 KLQIWDTAGQERFRTITTA---YY--RGAMGILLVYDVTD---ESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        65 ~~~~~D~~g~~~~~~~~~~---~~--~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+.+.|+||+.........   ..  ...+.+++++|+..   +..+.....  ...........|.+++.||+|+..
T Consensus        96 ~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l--~~~~~~~~~~~~~ivvinK~D~~~  171 (244)
T d1yrba1          96 DYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRF--FALLIDLRLGATTIPALNKVDLLS  171 (244)
T ss_dssp             SEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHH--HHHHHHHHHTSCEEEEECCGGGCC
T ss_pred             ceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHH--HHHHHHHHhCCCceeeeecccccc
Confidence            4788999998654332221   11  24568888898754   333222211  111111123679999999999863

>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=98.33  E-value=2.3e-07  Score=66.33  Aligned_cols=24  Identities=33%  Similarity=0.498  Sum_probs=21.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +.++|.|.|+||+|||||+++|..
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHH
Confidence            468999999999999999999973

>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=98.24  E-value=5.6e-07  Score=64.16  Aligned_cols=60  Identities=18%  Similarity=0.158  Sum_probs=34.5

Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      +.+.|++|.|.-...   .....-+|.++++......+..+.++.-+-++        +-+++.||+|+.+
T Consensus       144 ~d~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ~~k~gilE~--------aDi~vvNKaD~~~  203 (323)
T d2qm8a1         144 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKGIFEL--------ADMIAVNKADDGD  203 (323)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTTHHHH--------CSEEEEECCSTTC
T ss_pred             CCeEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhhhhhhhHhhh--------hheeeEecccccc
Confidence            356777887753222   23345699999999988776554433322222        3488889999863

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.20  E-value=3.3e-07  Score=61.91  Aligned_cols=22  Identities=45%  Similarity=0.540  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ..+++|++|||||||+|.|...
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTT
T ss_pred             eEEEECCCCCCHHHHHHhhcch
Confidence            6789999999999999999864

>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=98.08  E-value=2.1e-05  Score=52.92  Aligned_cols=23  Identities=35%  Similarity=0.404  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .=.+|.|.-|||||||+++++..
T Consensus         4 Pv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           4 AVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CEEEEeeCCCCCHHHHHHHHHhc
Confidence            34788999999999999999874

>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=98.02  E-value=7.9e-07  Score=60.21  Aligned_cols=22  Identities=45%  Similarity=0.602  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ..+++|++|+|||||+|.|...
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            5679999999999999999864

>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=98.02  E-value=1.4e-06  Score=56.32  Aligned_cols=23  Identities=30%  Similarity=0.755  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +||+++|++|+|||||++.+.+.
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHhc
Confidence            48999999999999999999873

>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=97.87  E-value=4.1e-06  Score=53.69  Aligned_cols=26  Identities=23%  Similarity=0.371  Sum_probs=22.9

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+..++|++.|++||||||+.+.|..
T Consensus         2 ~pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           2 QPKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            34568999999999999999999975

>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=97.83  E-value=4.3e-06  Score=53.92  Aligned_cols=22  Identities=23%  Similarity=0.468  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -+|+|.|++|+|||||++.|..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999975

>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=97.76  E-value=5.8e-06  Score=52.76  Aligned_cols=23  Identities=39%  Similarity=0.605  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..+|+++|++||||||+.+.|..
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            35899999999999999999964

>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=97.73  E-value=9.3e-06  Score=53.04  Aligned_cols=24  Identities=21%  Similarity=0.426  Sum_probs=21.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..++|+++|+|||||||....|..
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999874

>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=97.72  E-value=8.5e-06  Score=51.85  Aligned_cols=21  Identities=33%  Similarity=0.397  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -++|+|.+|||||||++.|..
T Consensus         4 vi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            489999999999999999975

>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=97.69  E-value=1e-05  Score=50.66  Aligned_cols=20  Identities=40%  Similarity=0.527  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      |++.|++||||||+++.|..
T Consensus         5 Iii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78899999999999999865

>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=97.69  E-value=1.5e-05  Score=52.28  Aligned_cols=24  Identities=25%  Similarity=0.527  Sum_probs=21.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +.++|+|+|+|||||||+...|..
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999975

>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=97.65  E-value=1.4e-05  Score=51.64  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +||+|+|+|||||||+.+.|..
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            4799999999999999998854

>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=97.60  E-value=1.8e-05  Score=51.34  Aligned_cols=22  Identities=27%  Similarity=0.522  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ++|+|+|+|||||||+++.|..
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            4799999999999999998875

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.59  E-value=1.9e-05  Score=51.10  Aligned_cols=22  Identities=27%  Similarity=0.727  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +||+++|++||||||+.+.|..
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            4899999999999999999875

>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=97.55  E-value=2.2e-05  Score=49.85  Aligned_cols=21  Identities=33%  Similarity=0.540  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -|++.|++||||||+++.|..
T Consensus         4 lI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            388999999999999999975

>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=97.55  E-value=2.2e-05  Score=50.69  Aligned_cols=22  Identities=18%  Similarity=0.388  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +||+|+|++||||||..+.|..
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            4899999999999999988853

>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=97.55  E-value=2.4e-05  Score=50.65  Aligned_cols=22  Identities=32%  Similarity=0.638  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ++|+|+|++||||||+.+.|..
T Consensus         3 mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           3 IRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999975

>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=97.53  E-value=1.8e-05  Score=51.62  Aligned_cols=22  Identities=18%  Similarity=0.312  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ++|+|+|++||||||+++.|..
T Consensus         4 m~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998864

>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=97.47  E-value=3.2e-05  Score=49.27  Aligned_cols=20  Identities=20%  Similarity=0.400  Sum_probs=17.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      +.|+|.+|||||||+++|..
T Consensus         4 i~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            35999999999999998864

>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=97.46  E-value=6.2e-05  Score=48.47  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .=|+++|.+||||||++..+..
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            5789999999999999999864

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.45  E-value=3.5e-05  Score=50.70  Aligned_cols=22  Identities=14%  Similarity=0.374  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .=|+++|.|||||||+++.|..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3488999999999999999975

>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=97.45  E-value=3.1e-05  Score=48.57  Aligned_cols=22  Identities=27%  Similarity=0.548  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +|+++|++||||||+.+.|...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998753

>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=97.44  E-value=4.8e-05  Score=49.62  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|+++|++||||||++++|..
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            4789999999999999999975

>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=97.40  E-value=3.7e-05  Score=49.21  Aligned_cols=21  Identities=38%  Similarity=0.716  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      +|++.|++|+|||||+..+..
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            589999999999999998874

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=97.35  E-value=6.8e-05  Score=49.51  Aligned_cols=23  Identities=30%  Similarity=0.393  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|+.|+|||||++.+.+-.
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            47899999999999999998754

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.32  E-value=0.00011  Score=50.96  Aligned_cols=60  Identities=20%  Similarity=0.187  Sum_probs=39.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCCCCC-----ccccceeeeEEEEEEEE-CCEEEEEEEecCCCcc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDGSFTT-----SFITTIGIDFKIRTIEL-DGKRIKLQIWDTAGQE   75 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~~~~~-----~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~   75 (160)
                      ...=|.++|+.++|||+|+|.|.+....-     ....|.|+  +...... ++....+.++||.|-.
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Gi--w~~~~~~~~~~~~~~~~lDteG~~   96 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGI--WMWCVPHPKKPGHILVLLDTEGLG   96 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSE--EEEEEECSSSTTCEEEEEEECCBC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCce--EEEEeeccCCCCceEEEEeccccc
Confidence            45678999999999999999999755321     12334443  3333333 3334578899999953

>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=97.32  E-value=6.2e-05  Score=47.77  Aligned_cols=20  Identities=35%  Similarity=0.547  Sum_probs=17.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      ++++|++||||||+.+.|..
T Consensus         9 ivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           9 YVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEECSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56799999999999999875

>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=97.31  E-value=0.00011  Score=48.03  Aligned_cols=23  Identities=17%  Similarity=0.429  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .--|+++|++||||||++..|..
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999999975

>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=97.31  E-value=7.8e-05  Score=48.53  Aligned_cols=22  Identities=23%  Similarity=0.548  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +.|+|+|++||||||.+..|..
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            5899999999999999998864

>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=97.30  E-value=6.7e-05  Score=48.81  Aligned_cols=21  Identities=38%  Similarity=0.612  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      |+|+|++|||||||+++|...
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            899999999999999999753

>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=5.6e-05  Score=48.12  Aligned_cols=21  Identities=38%  Similarity=0.564  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      +|+++|++||||||+.+.|..
T Consensus         3 ~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999988864

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.28  E-value=7.5e-05  Score=50.74  Aligned_cols=23  Identities=30%  Similarity=0.297  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      +++++|++|||||||++.+.+-.
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            68999999999999999998843

>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=97.28  E-value=0.00011  Score=46.70  Aligned_cols=23  Identities=17%  Similarity=0.228  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -+-|.++|.+||||||+.+.|..
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36789999999999999988764

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.26  E-value=0.00011  Score=49.64  Aligned_cols=22  Identities=36%  Similarity=0.508  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -++++|++|||||||++.+.+-
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            5789999999999999998764

>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=97.25  E-value=7.1e-05  Score=47.51  Aligned_cols=21  Identities=33%  Similarity=0.521  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      +|+++|++||||||+.+.|..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988854

>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=97.24  E-value=8.7e-05  Score=47.54  Aligned_cols=20  Identities=20%  Similarity=0.222  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 031411           17 KLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~   36 (160)
                      -|+|.|++||||||+++.|.
T Consensus         3 iI~i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           3 VVVVTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            37888999999999999885

>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=97.24  E-value=8.3e-05  Score=48.08  Aligned_cols=21  Identities=33%  Similarity=0.509  Sum_probs=18.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      |+|+||+||||||+++.|...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            689999999999999999753

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=97.23  E-value=9.2e-05  Score=50.32  Aligned_cols=22  Identities=27%  Similarity=0.317  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .++++|++|||||||++.+.+-
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            7899999999999999999874

>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=97.23  E-value=8.9e-05  Score=47.07  Aligned_cols=21  Identities=29%  Similarity=0.411  Sum_probs=18.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      |+|.|++||||||+.+.|...
T Consensus         6 I~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            566699999999999999863

>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=97.23  E-value=9.7e-05  Score=46.96  Aligned_cols=21  Identities=38%  Similarity=0.537  Sum_probs=18.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      |++.|++||||||+.+.|...
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            778999999999999998753

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.22  E-value=9.4e-05  Score=50.10  Aligned_cols=23  Identities=30%  Similarity=0.418  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|||||||++.+.+-.
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            35789999999999999999854

>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=97.22  E-value=0.00014  Score=49.59  Aligned_cols=22  Identities=32%  Similarity=0.446  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .-|++.|+||+|||||+..+.+
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~   54 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFE   54 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999999975

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.19  E-value=0.00012  Score=49.27  Aligned_cols=23  Identities=30%  Similarity=0.329  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -+.++|++|||||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCcchhhHhccCCC
Confidence            57899999999999999877743

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.19  E-value=0.0001  Score=50.38  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +++++|++|||||||++.+.+-
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCChHHHHHHHHhcc
Confidence            7899999999999999999874

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.18  E-value=0.00011  Score=50.22  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|||||||++.+.+-.
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            78999999999999999998743

>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=97.18  E-value=0.00027  Score=44.67  Aligned_cols=57  Identities=23%  Similarity=0.278  Sum_probs=33.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCCCCc--cccceeeeEEEEEEEECC-EEEEEEEecCCCcc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSFTTS--FITTIGIDFKIRTIELDG-KRIKLQIWDTAGQE   75 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~~~D~~g~~   75 (160)
                      .-|++-|+=|+|||||++.+...-....  ..||-.+-   ......+ .-+++-+|-+.+.+
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~lg~~~~V~SPTF~l~---~~Y~~~~~~i~H~DlYRl~~~~   93 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQGIGHQGNVKSPTYTLV---EEYNIAGKMIYHFDLYRLADPE   93 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTCCSCCCCCTTTCE---EEEEETTEEEEEEECTTCSCTT
T ss_pred             eEEEEecCCCccHHHHHHHHHhhcccccccCCCceEEE---EeeccCCceEEEEEEeccCChh
Confidence            4688899999999999999886433322  23333221   1222333 23466666665543

>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=97.16  E-value=0.00015  Score=49.06  Aligned_cols=23  Identities=35%  Similarity=0.459  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -+.++|++|||||||++.+.+-.
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            57999999999999999998754

>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=97.16  E-value=0.00012  Score=47.32  Aligned_cols=20  Identities=30%  Similarity=0.571  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      |+++||+|+||+||+++|..
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            89999999999999999985

>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=97.15  E-value=0.00012  Score=47.68  Aligned_cols=20  Identities=45%  Similarity=0.680  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      |+|+||+||||||++++|..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999864

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.15  E-value=0.00012  Score=50.79  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .++++|++|+|||||++.+.+-.
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            68999999999999999998743

>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=97.15  E-value=0.00017  Score=46.65  Aligned_cols=24  Identities=29%  Similarity=0.189  Sum_probs=20.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..+=|.|.|++|||||||++.|..
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            456688999999999999999864

>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=97.13  E-value=0.00013  Score=49.07  Aligned_cols=22  Identities=36%  Similarity=0.573  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..+++.||||+||||+++.+.+
T Consensus        36 ~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999876

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.12  E-value=0.00012  Score=47.66  Aligned_cols=21  Identities=19%  Similarity=0.441  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -|+|+|+|||||||+...|..
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            488999999999999999975

>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=97.10  E-value=0.00013  Score=48.92  Aligned_cols=21  Identities=33%  Similarity=0.575  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+++.||||+||||+++.+..
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHh
Confidence            689999999999999999875

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=97.09  E-value=0.00018  Score=48.82  Aligned_cols=23  Identities=30%  Similarity=0.406  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -+.++|++|+|||||++.+.+-.
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999999854

>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=97.09  E-value=0.00015  Score=47.95  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      =|+|+||+|||||||+++|...
T Consensus         4 livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            3789999999999999999853

>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=97.09  E-value=0.00018  Score=48.67  Aligned_cols=23  Identities=35%  Similarity=0.333  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -+.++|+.|+|||||++.+.+-.
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999999854

>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=97.08  E-value=0.00014  Score=49.35  Aligned_cols=23  Identities=35%  Similarity=0.309  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -+.++|++|||||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHcCCc
Confidence            57899999999999999998743

>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=97.08  E-value=0.00012  Score=49.19  Aligned_cols=23  Identities=22%  Similarity=0.421  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -++++|++|||||||++.+.+-.
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            47899999999999999999854

>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=97.08  E-value=0.0002  Score=48.47  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .+.++|++|||||||++.+.+-.
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            58999999999999999998754

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=97.07  E-value=0.00011  Score=49.58  Aligned_cols=22  Identities=45%  Similarity=0.650  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -+.++|+.|+|||||++.+.+-
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999999873

>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=97.06  E-value=0.00016  Score=46.06  Aligned_cols=21  Identities=14%  Similarity=0.436  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .|+++|++||||||+.+.|..
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998853

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.04  E-value=9.5e-05  Score=47.85  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..|.++|.+||||||+.+.|..
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            4688999999999999999964

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.99  E-value=0.00019  Score=46.03  Aligned_cols=20  Identities=40%  Similarity=0.704  Sum_probs=17.0

Q ss_pred             EE-EEEcCCCCCHHHHHHHHh
Q 031411           17 KL-LLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        17 ~i-~v~G~~~~GKstli~~l~   36 (160)
                      || +|.|.+||||||+++.|.
T Consensus         2 kiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            55 457999999999998885

>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=96.97  E-value=0.00026  Score=48.37  Aligned_cols=23  Identities=35%  Similarity=0.419  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      -+.++|+.|+|||||++.+.+-.
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHCCC
Confidence            37899999999999999999854

>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=96.96  E-value=0.00013  Score=49.93  Aligned_cols=22  Identities=32%  Similarity=0.363  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +++++|++|||||||++.+.+-
T Consensus        46 ~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHhc
Confidence            7899999999999999988763

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.94  E-value=0.00027  Score=46.24  Aligned_cols=22  Identities=32%  Similarity=0.634  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -+++++|++|+|||++++.|..
T Consensus        44 ~n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          44 NNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEecCCcccHHHHHHHHH
Confidence            3799999999999999987764

>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=96.93  E-value=0.00029  Score=45.75  Aligned_cols=28  Identities=25%  Similarity=0.363  Sum_probs=23.1

Q ss_pred             CCCeeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           11 DYDYLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        11 ~~~~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .....+-|+|-|..||||||+++.|...
T Consensus         5 ~~~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           5 EGTQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            3344478999999999999999999763

>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=96.93  E-value=0.00027  Score=47.19  Aligned_cols=22  Identities=36%  Similarity=0.605  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .+++.|++|+||||+++.+...
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            6999999999999999988763

>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=96.91  E-value=0.00025  Score=48.53  Aligned_cols=23  Identities=35%  Similarity=0.392  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .+.++|+.|||||||++.+.+-.
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            58999999999999999998743

>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=96.90  E-value=0.00025  Score=49.80  Aligned_cols=23  Identities=35%  Similarity=0.599  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.++++||||+|||.|++.+...
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhhc
Confidence            46899999999999999999863

>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=96.89  E-value=0.00039  Score=47.91  Aligned_cols=48  Identities=25%  Similarity=0.143  Sum_probs=34.2

Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           81 TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        81 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      ....++.+|+++.|+|+.+|.+...  ..   +.+... +.|.++|.||+|+.+
T Consensus         9 i~~~i~~~DvIl~V~DaR~P~ss~~--~~---l~~~~~-~Kp~IlVlNK~DLv~   56 (273)
T d1puja_           9 VTEKLKLIDIVYELVDARIPMSSRN--PM---IEDILK-NKPRIMLLNKADKAD   56 (273)
T ss_dssp             HHHHGGGCSEEEEEEETTSTTTTSC--HH---HHHHCS-SSCEEEEEECGGGSC
T ss_pred             HHHHHHhCCEEEEEEECCCCCCCCC--HH---HHHHHc-CCCeEEEEECccCCc
Confidence            4557889999999999988755432  11   222222 679999999999963

>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=96.88  E-value=0.00024  Score=50.29  Aligned_cols=24  Identities=17%  Similarity=0.340  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .+|+|.|++|||||||++.|...-
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCEEEEeeccccchHHHHHHhhhc
Confidence            469999999999999999998743

>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=96.84  E-value=0.00019  Score=48.66  Aligned_cols=23  Identities=22%  Similarity=0.436  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .+.++|++|||||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            68999999999999999999854

>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=96.83  E-value=0.00047  Score=46.77  Aligned_cols=23  Identities=30%  Similarity=0.567  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...|++.|++|+|||++++.+.+
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHhh
Confidence            35799999999999999999975

>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=96.83  E-value=0.00055  Score=46.10  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.+++.||+|+||||++..+...
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999864

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.81  E-value=0.00037  Score=47.91  Aligned_cols=22  Identities=36%  Similarity=0.543  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -+++++|++|+|||++++.+..
T Consensus        40 ~n~lLVG~~GvGKTalv~~la~   61 (268)
T d1r6bx2          40 NNPLLVGESGVGKTAIAEGLAW   61 (268)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEECCCCCcHHHHHHHHHH
Confidence            3899999999999999887764

>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=96.80  E-value=0.00038  Score=46.01  Aligned_cols=23  Identities=22%  Similarity=0.312  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+.|++-|++||||||....|..
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            36788889999999999999975

>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=96.75  E-value=0.00044  Score=46.74  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.+++.|++|+|||++++.+...
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999988864

>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=96.73  E-value=0.00056  Score=45.02  Aligned_cols=22  Identities=18%  Similarity=0.302  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +-|+|.|++|||||||.+.|..
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999998853

>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=96.71  E-value=0.00047  Score=46.89  Aligned_cols=22  Identities=27%  Similarity=0.229  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -+++.|++|+|||++++.+...
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHH
Confidence            3456799999999999998864

>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=96.62  E-value=0.00057  Score=45.38  Aligned_cols=22  Identities=18%  Similarity=0.456  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ++++.|++|+||||+++.+...
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHHH
Confidence            5899999999999999988753

>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=96.61  E-value=0.0012  Score=43.47  Aligned_cols=19  Identities=26%  Similarity=0.522  Sum_probs=16.9

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 031411           18 LLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~   36 (160)
                      |+++|++||||||.+-+|.
T Consensus        13 i~lvGp~GvGKTTTiaKLA   31 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLA   31 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6789999999999988775

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.60  E-value=0.00094  Score=43.10  Aligned_cols=25  Identities=24%  Similarity=0.271  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .+=|++.|..||||||+++.|....
T Consensus         3 p~IIgitG~~gSGKstva~~l~~~g   27 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRSWG   27 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHCC
Confidence            4678899999999999999887643

>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=96.59  E-value=0.00061  Score=46.24  Aligned_cols=22  Identities=36%  Similarity=0.566  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.+++.|++|+|||++++.+..
T Consensus        43 ~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHH
Confidence            3599999999999999999986

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.59  E-value=0.00058  Score=46.18  Aligned_cols=21  Identities=24%  Similarity=0.240  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .++|.|++|+|||||+..+..
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            578999999999999998864

>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=96.59  E-value=0.0007  Score=45.26  Aligned_cols=48  Identities=21%  Similarity=0.256  Sum_probs=35.0

Q ss_pred             hccCCcEEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           84 YYRGAMGILLVYDVTDE-SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+.+.|.+++|+.+.+| -+...+.+++-....   .+++.+|++||+||.+
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~---~~i~pvIvlnK~DL~~   55 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAEK---NELETVMVINKMDLYD   55 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCC
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---cCCCEEEEEeCcccCC
Confidence            35688999999988775 344556666644433   3789999999999963

>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=96.58  E-value=0.0005  Score=50.64  Aligned_cols=22  Identities=36%  Similarity=0.693  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -+|+++||+|||||-|+++|..
T Consensus        50 sNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999964

>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=96.58  E-value=0.00062  Score=45.34  Aligned_cols=22  Identities=27%  Similarity=0.623  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .+++.|++|+||||+++.+.+.
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHHH
Confidence            4899999999999999998763

>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=96.57  E-value=0.00064  Score=44.69  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      =|++.|++||||+|....|..
T Consensus         5 iI~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467779999999999999975

>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=96.51  E-value=0.00057  Score=45.95  Aligned_cols=22  Identities=32%  Similarity=0.549  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ++++.|++|+||||++..+...
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            6999999999999999988753

>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=96.51  E-value=0.00075  Score=44.06  Aligned_cols=21  Identities=29%  Similarity=0.471  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -|+|-|..||||||+++.|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999988874

>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=96.49  E-value=0.00076  Score=45.98  Aligned_cols=23  Identities=26%  Similarity=0.446  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      --+++.|++|+|||++++.+...
T Consensus        39 ~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceeEEecCCCCCchHHHHHHHHH
Confidence            36999999999999999999873

>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=96.49  E-value=0.00074  Score=44.78  Aligned_cols=22  Identities=27%  Similarity=0.590  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ++++.|++|+||||++..+...
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            5899999999999999999763

>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=96.46  E-value=0.00087  Score=44.23  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..-|.|.|.+||||||+.+.|..
T Consensus        24 g~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998874

>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=96.46  E-value=0.00082  Score=45.85  Aligned_cols=22  Identities=27%  Similarity=0.508  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.+++.|++|+|||++++.+..
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHH
Confidence            4689999999999999999985

>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=96.42  E-value=0.0019  Score=42.72  Aligned_cols=21  Identities=19%  Similarity=0.471  Sum_probs=18.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHh
Q 031411           16 IKLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~   36 (160)
                      .-|+++|++|+||||.+-+|.
T Consensus        12 ~vi~lvGptGvGKTTTiAKLA   32 (213)
T d1vmaa2          12 FVIMVVGVNGTGKTTSCGKLA   32 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            578899999999999877665

>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=96.38  E-value=0.00099  Score=43.97  Aligned_cols=20  Identities=30%  Similarity=0.664  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 031411           17 KLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~   36 (160)
                      -|+++|++||||||.+-+|.
T Consensus         8 vi~lvGptGvGKTTTiaKLA   27 (207)
T d1okkd2           8 VVLVVGVNGVGKTTTIAKLG   27 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            57889999999999987775

>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=96.37  E-value=0.001  Score=43.99  Aligned_cols=21  Identities=29%  Similarity=0.640  Sum_probs=18.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHh
Q 031411           16 IKLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~   36 (160)
                      .-|+++|++||||||.+-+|.
T Consensus        10 ~vi~lvGptGvGKTTTiAKLA   30 (211)
T d2qy9a2          10 FVILMVGVNGVGKTTTIGKLA   30 (211)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            357889999999999998875

>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=96.33  E-value=0.0017  Score=45.47  Aligned_cols=26  Identities=19%  Similarity=0.151  Sum_probs=21.7

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ....+=|+|.|++|||||||.+.|..
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            34558899999999999999887753

>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=96.28  E-value=0.00096  Score=44.16  Aligned_cols=21  Identities=24%  Similarity=0.479  Sum_probs=13.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHh
Q 031411           16 IKLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~   36 (160)
                      .-|+++|++|+||||.+-+|.
T Consensus        13 ~vi~lvGptGvGKTTTiAKLA   33 (211)
T d1j8yf2          13 YVIMLVGVQGTGKATTAGKLA   33 (211)
T ss_dssp             EEEEEECSCCC----HHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            457789999999999987775

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.19  E-value=0.0012  Score=45.13  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ..|++.|++|+|||+|++.+...
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcchhHHHHHHHH
Confidence            46999999999999999999764

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.18  E-value=0.0014  Score=42.97  Aligned_cols=20  Identities=20%  Similarity=0.308  Sum_probs=17.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      |+|-|.+||||||+++.|..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77889999999999988864

>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=96.10  E-value=0.0014  Score=47.00  Aligned_cols=23  Identities=30%  Similarity=0.550  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .-+++++||+|||||-++++|..
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcceeeeCCCCccHHHHHHHHHh
Confidence            35799999999999999999864

>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=96.02  E-value=0.00081  Score=47.40  Aligned_cols=21  Identities=33%  Similarity=0.593  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      +++++|++|+|||+|++++..
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            699999999999999998853

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.99  E-value=0.0022  Score=41.51  Aligned_cols=22  Identities=14%  Similarity=0.158  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      =+.|.|++|+|||+|+..+...
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4789999999999999888753

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=95.99  E-value=0.0012  Score=47.65  Aligned_cols=20  Identities=35%  Similarity=0.728  Sum_probs=17.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 031411           17 KLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~   36 (160)
                      +++++|++|+|||++++.|.
T Consensus        45 n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          45 NPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             CCEEEECTTSCHHHHHHHHH
T ss_pred             CCeEECCCCCCHHHHHHHHH
Confidence            67999999999999886544

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.95  E-value=0.0021  Score=42.34  Aligned_cols=20  Identities=25%  Similarity=0.355  Sum_probs=16.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      |+|-|..||||||+++.|..
T Consensus         6 I~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            66779999999998877653

>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=95.93  E-value=0.00037  Score=44.95  Aligned_cols=18  Identities=39%  Similarity=0.601  Sum_probs=16.1

Q ss_pred             EEEcCCCCCHHHHHHHHh
Q 031411           19 LLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        19 ~v~G~~~~GKstli~~l~   36 (160)
                      +|+|+.|+||||+++.|.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            468999999999999885

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=95.91  E-value=0.0026  Score=45.51  Aligned_cols=22  Identities=23%  Similarity=0.249  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.+++.||||+|||+|+..+.+
T Consensus       155 ~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998875

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.85  E-value=0.0028  Score=41.51  Aligned_cols=25  Identities=32%  Similarity=0.401  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGSF   40 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~~   40 (160)
                      +=|+|.|..||||||+.+.|....+
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~G~   28 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADLGI   28 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEECCCcCCHHHHHHHHHHCCC
Confidence            4578999999999999998875443

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.84  E-value=0.0034  Score=40.98  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +=|++.|..||||||+++.|...
T Consensus         3 ~iIgITG~igSGKStv~~~l~~~   25 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTDL   25 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
Confidence            45889999999999999988653

>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=95.81  E-value=0.004  Score=43.57  Aligned_cols=23  Identities=30%  Similarity=0.563  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      .-.++++||+|+|||.|+..|..
T Consensus        52 ~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          52 VGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCcchhHHHHHHHHh
Confidence            34689999999999999999875

>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=95.78  E-value=0.0018  Score=44.77  Aligned_cols=18  Identities=28%  Similarity=0.545  Sum_probs=16.3

Q ss_pred             EEEcCCCCCHHHHHHHHh
Q 031411           19 LLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        19 ~v~G~~~~GKstli~~l~   36 (160)
                      +++|+.|+||||+++.+.
T Consensus        28 vlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EEECCTTTCSTHHHHHHH
T ss_pred             EEECCCCCcHHHHHHHHH
Confidence            689999999999998773

>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=95.76  E-value=0.0021  Score=42.69  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -.|+|-|+.||||||+++.|..
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998876

>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=95.75  E-value=0.0038  Score=39.98  Aligned_cols=23  Identities=43%  Similarity=0.618  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      =|++.|++|+||||+.-.+....
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            48999999999999998887654

>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=95.74  E-value=0.0027  Score=42.01  Aligned_cols=22  Identities=27%  Similarity=0.205  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -++|.|++|+|||+|+..+...
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            5789999999999999888753

>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=95.74  E-value=0.0037  Score=40.03  Aligned_cols=24  Identities=38%  Similarity=0.534  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDGSF   40 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~~~   40 (160)
                      =+++.|++|+||||+.-.|....+
T Consensus        17 gvli~G~sG~GKS~lal~l~~~G~   40 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINKNH   40 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTTTC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHcCC
Confidence            479999999999999988886543

>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=95.68  E-value=0.0039  Score=43.93  Aligned_cols=24  Identities=21%  Similarity=0.382  Sum_probs=21.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ..++|.|=|+.|+||||+++.|..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            568899999999999999999975

>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=95.66  E-value=0.0056  Score=42.23  Aligned_cols=25  Identities=20%  Similarity=0.317  Sum_probs=20.1

Q ss_pred             CCeeEEEEEEcCCCCCHHHHHHHHh
Q 031411           12 YDYLIKLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        12 ~~~~~~i~v~G~~~~GKstli~~l~   36 (160)
                      ....+=|.|.|.+|||||||...|.
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHH
Confidence            3345788999999999999987663

>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=95.66  E-value=0.0032  Score=43.17  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      .-|.|.|..|+|||||+..+.+.
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999988753

>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=95.62  E-value=0.0091  Score=39.83  Aligned_cols=48  Identities=17%  Similarity=0.218  Sum_probs=35.0

Q ss_pred             hccCCcEEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 031411           84 YYRGAMGILLVYDVTDE-SSFNNIRNWIRNIEQHASDNVNKILVGNKADMDE  134 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl~~  134 (160)
                      .+.+.|.+++|+++.+| -+...+.+++-...   ..+++.+|++||+||.+
T Consensus         7 ~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~---~~~i~pvIvlnK~DL~~   55 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSFSTALLDRFLVLVE---ANDIQPIICITKMDLIE   55 (231)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHHHHHHHHHH---TTTCEEEEEEECGGGCC
T ss_pred             CccccCEEEEEEECCCCCCCHHHHHHHHHHHH---HcCCCEEEEEecccccc
Confidence            35689999999998775 44556665654433   24788999999999963

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=95.62  E-value=0.0032  Score=45.57  Aligned_cols=22  Identities=32%  Similarity=0.385  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      =|+|.|++||||||.++.+++.
T Consensus       160 liLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         160 IILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEcCCCCCccHHHHHHhhh
Confidence            4899999999999999998864

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.59  E-value=0.0036  Score=41.71  Aligned_cols=22  Identities=23%  Similarity=0.270  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      --++|.|++|+|||+|.-.+..
T Consensus        37 ~~~li~G~pGsGKT~~~lq~~~   58 (254)
T d1pzna2          37 AITEVFGEFGSGKTQLAHTLAV   58 (254)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            3578999999999999987764

>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=95.54  E-value=0.0056  Score=43.17  Aligned_cols=25  Identities=24%  Similarity=0.355  Sum_probs=22.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ..++|.|=|..|+||||+++.|.+.
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHH
Confidence            5689999999999999999999874

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.49  E-value=0.004  Score=41.42  Aligned_cols=21  Identities=29%  Similarity=0.487  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -|+|=|..||||||+++.|..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            588899999999999999975

>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=95.39  E-value=0.0047  Score=40.97  Aligned_cols=23  Identities=35%  Similarity=0.621  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      --++|.|++|+|||+|+..+...
T Consensus        27 sl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          27 SIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            45789999999999999888753

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.38  E-value=0.0021  Score=44.50  Aligned_cols=20  Identities=30%  Similarity=0.489  Sum_probs=15.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 031411           17 KLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~   36 (160)
                      =|.|.|.+||||||+.+.|.
T Consensus         6 IIgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             EEEEESCC---CCTHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            48999999999999998775

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=95.38  E-value=0.0045  Score=43.67  Aligned_cols=25  Identities=24%  Similarity=0.405  Sum_probs=22.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           14 YLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        14 ~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      ..++|.|=|..|+||||+++.|...
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            5689999999999999999999874

>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=95.34  E-value=0.0052  Score=40.25  Aligned_cols=20  Identities=30%  Similarity=0.537  Sum_probs=18.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      +++.|++|+||||++..+..
T Consensus        27 lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          27 LLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            89999999999999997765

>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=95.27  E-value=0.0066  Score=38.56  Aligned_cols=24  Identities=38%  Similarity=0.614  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDGS   39 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~~   39 (160)
                      .=+++.|++|+||||+.-.+....
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            358999999999999998777654

>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=95.23  E-value=0.0054  Score=40.34  Aligned_cols=20  Identities=20%  Similarity=0.200  Sum_probs=18.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      |++-|..||||||+++.|..
T Consensus         6 I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            78999999999999988864

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.21  E-value=0.005  Score=44.07  Aligned_cols=20  Identities=35%  Similarity=0.544  Sum_probs=17.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHh
Q 031411           16 IKLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~   36 (160)
                      ++ +++|+.|+|||+++..+.
T Consensus        27 l~-~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          27 FT-SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EE-EEECSTTSSHHHHHHHHH
T ss_pred             EE-EEECCCCCCHHHHHHHHH
Confidence            54 477999999999999874

>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=0.0058  Score=40.80  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      .+++.|++|+|||+++..+..
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            378999999999999988754

>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=95.20  E-value=0.0061  Score=42.75  Aligned_cols=20  Identities=20%  Similarity=0.489  Sum_probs=17.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 031411           18 LLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~   37 (160)
                      +++.|+||+|||.+++.+..
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            55579999999999999875

>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=95.09  E-value=0.0071  Score=40.13  Aligned_cols=23  Identities=17%  Similarity=0.133  Sum_probs=19.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ---++|.|++|+|||+|...+..
T Consensus        37 G~~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          37 MAITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34688999999999999988874

>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=95.07  E-value=0.0067  Score=40.02  Aligned_cols=21  Identities=19%  Similarity=0.167  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -++|.|++|+|||+|...+..
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~   56 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCV   56 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            478999999999999988874

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=94.86  E-value=0.0065  Score=39.64  Aligned_cols=26  Identities=23%  Similarity=0.203  Sum_probs=21.6

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhcC
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      +.+-.+++.|++++|||.|+..|..-
T Consensus        51 PKkn~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          51 PKKNCLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             TTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCccHHHHHHHHHHH
Confidence            34458999999999999999988753

>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=94.68  E-value=0.0098  Score=38.90  Aligned_cols=21  Identities=33%  Similarity=0.551  Sum_probs=17.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHh
Q 031411           16 IKLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~   36 (160)
                      --++|.|++|+|||+|+..+.
T Consensus        27 ~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          27 RSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             SEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHH
Confidence            357889999999999986654

>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=94.47  E-value=0.012  Score=39.82  Aligned_cols=19  Identities=26%  Similarity=0.541  Sum_probs=16.7

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 031411           18 LLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~   36 (160)
                      +++.|++|+|||+|+..+.
T Consensus        38 ~vi~G~~G~GKT~~~~~la   56 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQA   56 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHH
Confidence            6799999999999987665

>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=94.44  E-value=0.012  Score=38.64  Aligned_cols=21  Identities=29%  Similarity=0.555  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      +.+.|++|+|||-|++.+.+.
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            789999999999999988763

>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=94.43  E-value=0.012  Score=38.94  Aligned_cols=21  Identities=19%  Similarity=0.112  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -|++.|..||||||+.+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999964

>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=94.34  E-value=0.016  Score=40.34  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -.++++|++|+|||.+++.|...
T Consensus        54 ~~~lf~Gp~G~GKt~lak~la~~   76 (315)
T d1qvra3          54 GSFLFLGPTGVGKTELAKTLAAT   76 (315)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCcchHHHHHHHHHHH
Confidence            36889999999999999988753

>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=94.25  E-value=0.011  Score=42.59  Aligned_cols=22  Identities=41%  Similarity=0.578  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -+++|+|.+|+|||+++..++.
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~   72 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAY   72 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHH
Confidence            4699999999999999877764

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=94.13  E-value=0.02  Score=38.98  Aligned_cols=25  Identities=16%  Similarity=0.219  Sum_probs=21.4

Q ss_pred             CeeEEEEEEcCCCCCHHHHHHHHhc
Q 031411           13 DYLIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        13 ~~~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      +..-.+.+.|++++|||+|++.+..
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHH
Confidence            3456889999999999999998876

>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=94.01  E-value=0.011  Score=40.41  Aligned_cols=18  Identities=22%  Similarity=0.534  Sum_probs=14.6

Q ss_pred             EEEEcCCCCCHHHHH-HHH
Q 031411           18 LLLIGDSGVGKSCLL-LRF   35 (160)
Q Consensus        18 i~v~G~~~~GKstli-~~l   35 (160)
                      ++|.|.+|+||||.+ +++
T Consensus        17 ~lI~g~aGTGKTt~l~~rv   35 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVITNKI   35 (306)
T ss_dssp             EEECCCTTSCHHHHHHHHH
T ss_pred             EEEEeeCCccHHHHHHHHH
Confidence            789999999999764 543

>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=93.80  E-value=0.014  Score=40.19  Aligned_cols=18  Identities=39%  Similarity=0.728  Sum_probs=14.7

Q ss_pred             EEEEcCCCCCHHHHH-HHH
Q 031411           18 LLLIGDSGVGKSCLL-LRF   35 (160)
Q Consensus        18 i~v~G~~~~GKstli-~~l   35 (160)
                      ++|.|.+|+||||.+ +++
T Consensus        27 ~lV~g~aGSGKTt~l~~ri   45 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLTHRI   45 (318)
T ss_dssp             EEEEECTTSCHHHHHHHHH
T ss_pred             EEEEecCCccHHHHHHHHH
Confidence            789999999999764 543

>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=93.70  E-value=0.02  Score=38.54  Aligned_cols=19  Identities=37%  Similarity=0.541  Sum_probs=16.4

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 031411           18 LLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~   36 (160)
                      .+|.|++|+|||+|+-.+.
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            5689999999999987664

>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=93.44  E-value=0.025  Score=38.87  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      |++++|+.|+|||+|+..+..+
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            8999999999999999888763

>d7mdha1 c.2.1.5 (A:23-197) Malate dehydrogenase {Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]

Probab=93.38  E-value=0.17  Score=31.94  Aligned_cols=51  Identities=18%  Similarity=0.152  Sum_probs=33.0

Q ss_pred             hhhccCCcEEEEEEECCCh--hh-HH-------HHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           82 TAYYRGAMGILLVYDVTDE--SS-FN-------NIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~~--~~-~~-------~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ...++++|+++++-.....  .+ .+       -+++....+.++.+.+..+++++|..|.
T Consensus        95 ~~~~~~aDvVvi~ag~~rkpg~tR~Dll~~N~~I~k~~~~~i~~~a~~~~~vlvv~NPvd~  155 (175)
T d7mdha1          95 YEVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASKNVKVLVVGNPCNT  155 (175)
T ss_dssp             HHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHHH
T ss_pred             hhhccCCceEEEeeccCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCcEEEEecCcHHH
Confidence            3457889999987655431  11 11       2344555666777767788888898874

>d1y7ta1 c.2.1.5 (A:0-153) Malate dehydrogenase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Thermus thermophilus [TaxId: 274]

Probab=93.13  E-value=0.18  Score=30.99  Aligned_cols=51  Identities=22%  Similarity=0.214  Sum_probs=33.3

Q ss_pred             hhhccCCcEEEEEEECCCh---hh-------HHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           82 TAYYRGAMGILLVYDVTDE---SS-------FNNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~~---~~-------~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ...++++|++++.-.....   +.       .+-++++...+.++.+++.-++++.|..|.
T Consensus        75 ~~~~~~advViitaG~~~~pg~~r~dl~~~N~~i~~~~~~~i~k~a~~~~~vivvsNPvDv  135 (154)
T d1y7ta1          75 KVAFKDADYALLVGAAPRKAGMERRDLLQVNGKIFTEQGRALAEVAKKDVKVLVVGNPANT  135 (154)
T ss_dssp             HHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHHH
T ss_pred             hhhcccccEEEeecCcCCCCCCcHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEecCcHHH
Confidence            4568899999987765431   11       233455666667776656677778888874

>d1mlda1 c.2.1.5 (A:1-144) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=92.49  E-value=0.47  Score=28.72  Aligned_cols=48  Identities=10%  Similarity=0.191  Sum_probs=30.9

Q ss_pred             hhccCCcEEEEEEECCC------hh----hHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 031411           83 AYYRGAMGILLVYDVTD------ES----SFNNIRNWIRNIEQHASDNVNKILVGNKAD  131 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~------~~----~~~~~~~~~~~~~~~~~~~~pi~vv~~K~D  131 (160)
                      ..++++|++++..-...      .+    ..+-+++....+.++.+ +.-++++.|..|
T Consensus        64 ~~~~~aDivVitag~~~~~g~sR~~ll~~N~~i~~~i~~~i~~~~p-~~iiivvtNPvD  121 (144)
T d1mlda1          64 DCLKGCDVVVIPAGVPRKPGMTRDDLFNTNATIVATLTAACAQHCP-DAMICIISNPVN  121 (144)
T ss_dssp             HHHTTCSEEEECCSCCCCTTCCGGGGHHHHHHHHHHHHHHHHHHCT-TSEEEECSSCHH
T ss_pred             HHhCCCCEEEECCCcCCCCCCCcchHHHHHHHHHHHHHHHHHhcCC-CeEEEEecCchh
Confidence            45788999988755322      11    12344556666777766 667777788888

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=92.40  E-value=0.042  Score=38.93  Aligned_cols=19  Identities=21%  Similarity=0.476  Sum_probs=15.8

Q ss_pred             EEEEEcCCCCCHHHHHHHH
Q 031411           17 KLLLIGDSGVGKSCLLLRF   35 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l   35 (160)
                      -.+|.|++|+|||+++..+
T Consensus       165 ~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEEECCTTSTHHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHHH
Confidence            4788999999999987543

>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=91.95  E-value=0.051  Score=36.36  Aligned_cols=21  Identities=33%  Similarity=0.578  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      -|+|.|++|+||+.+++.+..
T Consensus        25 pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          25 PVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCcCHHHHHHHHHH
Confidence            589999999999999998865

>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=91.88  E-value=0.055  Score=35.95  Aligned_cols=19  Identities=26%  Similarity=0.378  Sum_probs=17.2

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 031411           18 LLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~   36 (160)
                      +++.|+..+||||+++.+.
T Consensus        44 ~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHH
Confidence            6899999999999998874

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.82  E-value=0.072  Score=31.58  Aligned_cols=23  Identities=13%  Similarity=0.108  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -+.|.+-|..++||+++.+.|..
T Consensus         6 gf~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           6 GFSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             CEEEEECTTCCSCHHHHHHHHHH
T ss_pred             ceEEEEeCCCCCCHHHHHHHHHH
Confidence            47999999999999999998865

>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=91.65  E-value=0.059  Score=35.56  Aligned_cols=19  Identities=32%  Similarity=0.476  Sum_probs=17.3

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 031411           18 LLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~   36 (160)
                      +++.|+..+||||+++.+.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            7899999999999998774

>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=91.37  E-value=0.77  Score=29.38  Aligned_cols=64  Identities=11%  Similarity=0.038  Sum_probs=43.9

Q ss_pred             EEEEEecCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKI-LVGNKADMD  133 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi~-vv~~K~Dl~  133 (160)
                      +.+.++|+++...  ......+..+|.++++.... ..++..+.+.+..+.+   .++|++ ++.|+.+..
T Consensus       112 ~d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~---~~~~~~giv~N~~~~~  176 (237)
T d1g3qa_         112 FDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKK---AGLAILGFVLNRYGRS  176 (237)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHH---TTCEEEEEEEEEETSC
T ss_pred             CCEEEEccccccc--ccchhhhhhhhccccccccc-ceecchhhHHHHHHhh---hhhhhhhhhhcccccc
Confidence            4678889887542  23444567899999988764 6666676666655554   356665 788999865

>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=91.37  E-value=0.068  Score=36.15  Aligned_cols=21  Identities=24%  Similarity=0.343  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      =+.+.|++++|||+|+-.+..
T Consensus        56 itei~G~~gsGKTtl~l~~~~   76 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIA   76 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCcHHHHHHHHHHH
Confidence            467899999999999876654

>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=91.22  E-value=0.073  Score=36.25  Aligned_cols=22  Identities=36%  Similarity=0.735  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      |++++|+.++|||+|+..+..+
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            7999999999999998887653

>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=91.20  E-value=0.07  Score=31.79  Aligned_cols=20  Identities=25%  Similarity=0.135  Sum_probs=16.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 031411           17 KLLLIGDSGVGKSCLLLRFS   36 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~   36 (160)
                      ..++.+++|+|||.++-.+.
T Consensus        10 ~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            56889999999999886544

>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=90.15  E-value=0.13  Score=32.74  Aligned_cols=21  Identities=24%  Similarity=0.279  Sum_probs=18.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 031411           18 LLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l~~~   38 (160)
                      ++|+|...||||.++..+...
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            689999999999999998753

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=90.05  E-value=0.1  Score=34.82  Aligned_cols=86  Identities=14%  Similarity=0.154  Sum_probs=47.9

Q ss_pred             EEEEEecCCCccccccc-chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCc-EEEEEeCCCCCCCccCCC
Q 031411           64 IKLQIWDTAGQERFRTI-TTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHAS-DNVN-KILVGNKADMDESKREAP  140 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~-~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~p-i~vv~~K~Dl~~~~~~~~  140 (160)
                      +.+.+.|+|+.-..... .......+|.++++.+. +..++..+...+..+..... .+.+ .-++.|+.+...     .
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~-----~  189 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVAN-----E  189 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSC-----C
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHHHHHHHHHhhccccceeccceEEeeecCCC-----c
Confidence            35778888764332222 22223457887777765 56667666665555554332 2333 346789877642     2


Q ss_pred             hhHHHHHhhhcceEE
Q 031411          141 FCLHETILLTVQVHL  155 (160)
Q Consensus       141 ~~~~~~~~~~~~~~~  155 (160)
                      .+..++++...+..+
T Consensus       190 ~~~~~~~~~~~~~~~  204 (269)
T d1cp2a_         190 YELLDAFAKELGSQL  204 (269)
T ss_dssp             HHHHHHHHHHHTCCE
T ss_pred             cchhhhhHhhcCCeE
Confidence            344566666666543

>d5mdha1 c.2.1.5 (A:1-154) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=89.75  E-value=0.31  Score=29.82  Aligned_cols=50  Identities=18%  Similarity=0.217  Sum_probs=30.3

Q ss_pred             hhccCCcEEEEEEECCC------hhhH----HHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           83 AYYRGAMGILLVYDVTD------ESSF----NNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~------~~~~----~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ..++++|++++.-....      .+-+    .-++++...+.++++.+.-++++.|.+|.
T Consensus        75 ~~~~~~dvVVitag~~~~~g~sr~dll~~N~~i~k~~~~~i~k~a~~~~~iivvsNPvD~  134 (154)
T d5mdha1          75 IAFKDLDVAILVGSMPRRDGMERKDLLKANVKIFKCQGAALDKYAKKSVKVIVVGNPANT  134 (154)
T ss_dssp             HHTTTCSEEEECCSCCCCTTCCTTTTHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHHH
T ss_pred             cccCCceEEEEecccCCCCCCchhHHHHHhHHHHHHHHHHHHhhCCCceEEEEecCcHHH
Confidence            45778888887654322      1222    33444556666777755556777888873

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=89.36  E-value=0.12  Score=31.32  Aligned_cols=19  Identities=26%  Similarity=0.461  Sum_probs=14.4

Q ss_pred             EEEcCCCCCHHH-HHHHHhc
Q 031411           19 LLIGDSGVGKSC-LLLRFSD   37 (160)
Q Consensus        19 ~v~G~~~~GKst-li~~l~~   37 (160)
                      +++|+-.||||| |++++.+
T Consensus         6 ~i~GpMfsGKTteLi~~~~~   25 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRLHR   25 (139)
T ss_dssp             EEECSTTSCHHHHHHHHHHH
T ss_pred             EEEccccCHHHHHHHHHHHH
Confidence            467999999999 5565543

>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=88.96  E-value=0.12  Score=33.19  Aligned_cols=23  Identities=17%  Similarity=0.180  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 031411           15 LIKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        15 ~~~i~v~G~~~~GKstli~~l~~   37 (160)
                      ...+++.|++|+|||+++..+.+
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            46899999999999999988775

>d1ldna1 c.2.1.5 (A:15-162) Lactate dehydrogenase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=88.91  E-value=0.74  Score=27.87  Aligned_cols=49  Identities=10%  Similarity=0.095  Sum_probs=30.2

Q ss_pred             hhccCCcEEEEEEECCCh------hh----HHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           83 AYYRGAMGILLVYDVTDE------SS----FNNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~------~~----~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ..+.++|++++..-....      +.    .+-+++..+.+.++.+ +.-++++-|.+|.
T Consensus        70 ~~l~daDvvvitag~~~~~~~~R~dl~~~N~~i~~~i~~~i~~~~p-~a~~ivvtNPvd~  128 (148)
T d1ldna1          70 DDCRDADLVVICAGANQKPGETRLDLVDKNIAIFRSIVESVMASGF-QGLFLVATNPVDI  128 (148)
T ss_dssp             GGTTTCSEEEECCSCCCCTTTCSGGGHHHHHHHHHHHHHHHHHHTC-CSEEEECSSSHHH
T ss_pred             HHhccceeEEEecccccccCcchhHHHHHHHHHHHHHHHHHHhhCC-CceEEEecCccHH
Confidence            457789999987655331      11    2233456666677776 4556777777774

>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=87.61  E-value=0.12  Score=35.69  Aligned_cols=14  Identities=43%  Similarity=0.688  Sum_probs=12.9

Q ss_pred             EEEcCCCCCHHHHH
Q 031411           19 LLIGDSGVGKSCLL   32 (160)
Q Consensus        19 ~v~G~~~~GKstli   32 (160)
                      +++|.+|+|||||-
T Consensus        18 lfFGLSGTGKTTLs   31 (313)
T d2olra1          18 VFFGLSGTGKTTLS   31 (313)
T ss_dssp             EEECSTTSSHHHHH
T ss_pred             EEEccCCCCcccce
Confidence            79999999999975

>d1guza1 c.2.1.5 (A:1-142) Malate dehydrogenase {Chlorobium vibrioforme [TaxId: 1098]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Chlorobium vibrioforme [TaxId: 1098]

Probab=87.55  E-value=1.3  Score=26.45  Aligned_cols=49  Identities=16%  Similarity=0.179  Sum_probs=28.1

Q ss_pred             hhccCCcEEEEEEECCC---hhhHH-------HHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           83 AYYRGAMGILLVYDVTD---ESSFN-------NIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~---~~~~~-------~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ..+.++|+++++.-...   ....+       -+.++...+.++++. .-++++-|.+|.
T Consensus        65 ~~~~dadvvvitag~~~~~g~~r~~l~~~N~~i~~~i~~~i~~~~p~-aivivvtNPvd~  123 (142)
T d1guza1          65 ADTANSDIVIITAGLPRKPGMTREDLLMKNAGIVKEVTDNIMKHSKN-PIIIVVSNPLDI  123 (142)
T ss_dssp             GGGTTCSEEEECCSCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHCSS-CEEEECCSSHHH
T ss_pred             HHhcCCeEEEEEEecCCCCCCchHHHHHHHHHHHHHHHHHhhccCCC-eEEEEecCChHH
Confidence            45788999888765422   12222       234455666666663 346666677764

>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=87.25  E-value=0.2  Score=33.50  Aligned_cols=18  Identities=33%  Similarity=0.763  Sum_probs=13.6

Q ss_pred             EEEEcCCCCCHHHHHHHH
Q 031411           18 LLLIGDSGVGKSCLLLRF   35 (160)
Q Consensus        18 i~v~G~~~~GKstli~~l   35 (160)
                      |++.|..|+||||+.-.|
T Consensus        23 ii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          23 IMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            455599999999975444

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=87.15  E-value=0.2  Score=33.65  Aligned_cols=37  Identities=16%  Similarity=0.224  Sum_probs=22.6

Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEeCC
Q 031411           90 GILLVYDVTDESSFNNIRNWIRNIEQHASDNVNK-ILVGNKA  130 (160)
Q Consensus        90 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~pi-~vv~~K~  130 (160)
                      .+++|-.. ++.+.....+.+..+...   ++|+ -+|.|+.
T Consensus       200 ~~~lVt~p-e~~~~~~~~r~~~~l~~~---gi~~~~vVvN~v  237 (296)
T d1ihua1         200 RLVLVARL-QKSTLQEVARTHLELAAI---GLKNQYLVINGV  237 (296)
T ss_dssp             EEEEEEES-CHHHHHHHHHHHHHHHHH---TCCCEEEEEEEE
T ss_pred             eeeEecCc-chhHHHHHHHHHHHHHhc---CCCceEEEEcCC
Confidence            45555444 466677777777766654   4444 5667886

>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=87.07  E-value=0.21  Score=33.77  Aligned_cols=21  Identities=24%  Similarity=0.253  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      =..+.|++++|||+|+..+..
T Consensus        59 itei~G~~~sGKT~l~l~~~~   79 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIVA   79 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEecCCccchHHHHHHHHH
Confidence            457899999999999877764

>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=87.02  E-value=0.13  Score=35.62  Aligned_cols=15  Identities=40%  Similarity=0.616  Sum_probs=13.4

Q ss_pred             EEEEcCCCCCHHHHH
Q 031411           18 LLLIGDSGVGKSCLL   32 (160)
Q Consensus        18 i~v~G~~~~GKstli   32 (160)
                      -+++|.+|+|||||-
T Consensus        17 alffGLSGTGKTTLs   31 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLS   31 (318)
T ss_dssp             EEEEECTTSCHHHHT
T ss_pred             EEEEccCCCCccccc
Confidence            489999999999964

>d1pzga1 c.2.1.5 (A:14-163) Lactate dehydrogenase {Toxoplasma gondii [TaxId: 5811]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Toxoplasma gondii [TaxId: 5811]

Probab=86.95  E-value=0.75  Score=28.05  Aligned_cols=50  Identities=24%  Similarity=0.237  Sum_probs=30.5

Q ss_pred             hhhccCCcEEEEEEECCC-----------hh----hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           82 TAYYRGAMGILLVYDVTD-----------ES----SFNNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~-----------~~----~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ...++++|++++..-...           .+    ..+-+.++...+.++++ +--++++-|.+|.
T Consensus        71 ~~~~~~adiVvitag~~~~~g~~~~~~tR~~l~~~n~~iv~~i~~~i~~~~p-~aiviivsNPvd~  135 (154)
T d1pzga1          71 EAALTGADCVIVTAGLTKVPGKPDSEWSRNDLLPFNSKIIREIGQNIKKYCP-KTFIIVVTNPLDC  135 (154)
T ss_dssp             HHHHTTCSEEEECCSCSSCTTCCGGGCCGGGGHHHHHHHHHHHHHHHHHHCT-TCEEEECCSSHHH
T ss_pred             hhhhcCCCeEEEecccccCCCCCCcccchhhhhhhhHHHHHHHHHHHHhcCC-CcEEEEeCCcHHH
Confidence            345788999998774321           11    12345567777777777 4446666777764

>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=86.68  E-value=0.23  Score=33.54  Aligned_cols=22  Identities=18%  Similarity=0.243  Sum_probs=17.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~   37 (160)
                      -=..+.|++++|||+|+-.+..
T Consensus        61 ~i~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          61 RVIEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHH
T ss_pred             eeEEEecCCCcHHHHHHHHHHH
Confidence            3467899999999999866653

>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=86.43  E-value=0.25  Score=33.33  Aligned_cols=86  Identities=16%  Similarity=0.147  Sum_probs=44.3

Q ss_pred             EEEEEecCCCcccccccchhh-ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcE-EEEEeCCCCCCCccCCC
Q 031411           64 IKLQIWDTAGQERFRTITTAY-YRGAMGILLVYDVTDESSFNNIRNWIRNIEQHA-SDNVNK-ILVGNKADMDESKREAP  140 (160)
Q Consensus        64 ~~~~~~D~~g~~~~~~~~~~~-~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~pi-~vv~~K~Dl~~~~~~~~  140 (160)
                      +.+.++|+|+.-......... ...++.++++.. .+..++..+...+..+.+.. ..+.++ -++.|+.+...     .
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~-~~~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~-----~  192 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCS-GEMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDR-----E  192 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEEC-SSHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTT-----H
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccc-hhHHHHHHHHHHHHHHHhhhhcccccccceeehhhcchh-----h
Confidence            456778877654322222222 234566665544 45566666666665554432 234454 36788876431     1


Q ss_pred             hhHHHHHhhhcceEE
Q 031411          141 FCLHETILLTVQVHL  155 (160)
Q Consensus       141 ~~~~~~~~~~~~~~~  155 (160)
                      .+..++++..++..+
T Consensus       193 ~~~~~~~~~~~g~~v  207 (289)
T d2afhe1         193 DELIIALANKLGTQM  207 (289)
T ss_dssp             HHHHHHHHHHHTSCE
T ss_pred             HHHHHHHHHHcCCeE
Confidence            233555666655543

>d1t2da1 c.2.1.5 (A:1-150) Lactate dehydrogenase {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=86.43  E-value=1.2  Score=26.94  Aligned_cols=50  Identities=18%  Similarity=0.176  Sum_probs=32.2

Q ss_pred             hhhccCCcEEEEEEECCChh--------h---H----HHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           82 TAYYRGAMGILLVYDVTDES--------S---F----NNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        82 ~~~~~~~~~~i~v~d~~~~~--------~---~----~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ...++++|+++++.......        .   +    .-++++...+.++++ +.-++++-|.+|.
T Consensus        66 ~~~~~~advvvitag~~~~~g~~~~~~~R~~l~~~N~~iv~~i~~~i~~~~p-~aivivvtNPvD~  130 (150)
T d1t2da1          66 YDDLAGADVVIVTAGFTKAPGKSDKEWNRDDLLPLNNKIMIEIGGHIKKNCP-NAFIIVVTNPVDV  130 (150)
T ss_dssp             GGGGTTCSEEEECCSCSSCTTCCSTTCCGGGGHHHHHHHHHHHHHHHHHHCT-TSEEEECSSSHHH
T ss_pred             ccccCCCcEEEEecccccCCCCCccccchhHHHHHHHHHHHHHHHHHHhcCC-CeEEEEecCchHH
Confidence            45678899999887754311        1   2    244556667777776 5566777777774

>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=86.40  E-value=0.16  Score=34.64  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 031411           17 KLLLIGDSGVGKSCLLLRFSD   37 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~   37 (160)
                      |++++|++++|||+|+..+..
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            789999999999999876654

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=86.37  E-value=0.16  Score=35.23  Aligned_cols=15  Identities=40%  Similarity=0.614  Sum_probs=13.5

Q ss_pred             EEEEcCCCCCHHHHH
Q 031411           18 LLLIGDSGVGKSCLL   32 (160)
Q Consensus        18 i~v~G~~~~GKstli   32 (160)
                      -+++|.+|+|||||-
T Consensus        17 alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          17 TVFFGLSGTGKTTLS   31 (323)
T ss_dssp             EEEECCTTSSHHHHH
T ss_pred             EEEEccCCCCcccce
Confidence            369999999999986

>d1i0za1 c.2.1.5 (A:1-160) Lactate dehydrogenase {Human (Homo sapiens), heart isoform (H chain) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Human (Homo sapiens), heart isoform (H chain) [TaxId: 9606]

Probab=85.73  E-value=2.5  Score=25.81  Aligned_cols=49  Identities=16%  Similarity=0.185  Sum_probs=30.6

Q ss_pred             hhccCCcEEEEEEECCCh------hhH----HHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           83 AYYRGAMGILLVYDVTDE------SSF----NNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~~------~~~----~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ..+.++|++++.......      +.+    +-++++...+....+ +--++++-|.+|.
T Consensus        84 ~~~~~adiVVitAg~~~~~g~tR~~l~~~N~~i~~~i~~~i~~~~p-~aiiivvtNPvDv  142 (160)
T d1i0za1          84 SVTANSKIVVVTAGVRQQEGESRLNLVQRNVNVFKFIIPQIVKYSP-DCIIIVVSNPVDI  142 (160)
T ss_dssp             GGGTTCSEEEECCSCCCCTTCCGGGGHHHHHHHHHHHHHHHHHHCT-TCEEEECSSSHHH
T ss_pred             hhcccccEEEEecCCccccCcchHHHHHHHHHHHHHHHHHHHhcCC-CcEEEEeCCchHH
Confidence            346789998887665431      112    244556677777766 3347777888874

>d2cmda1 c.2.1.5 (A:1-145) Malate dehydrogenase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Escherichia coli [TaxId: 562]

Probab=85.62  E-value=1.2  Score=26.90  Aligned_cols=48  Identities=15%  Similarity=0.248  Sum_probs=29.8

Q ss_pred             hccCCcEEEEEEECCC------hhhH----HHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           84 YYRGAMGILLVYDVTD------ESSF----NNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~------~~~~----~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      .++++|+++++--...      .+-+    +-+++..+.+.++.+ +.-++++.|.+|.
T Consensus        66 ~~~~aDvvvitaG~~~k~g~~R~dl~~~N~~i~~~v~~~i~~~~p-~aivivvtNPvD~  123 (145)
T d2cmda1          66 ALEGADVVLISAGVRRKPGMDRSDLFNVNAGIVKNLVQQVAKTCP-KACIGIITNPVNT  123 (145)
T ss_dssp             HHTTCSEEEECCSCCCCTTCCGGGGHHHHHHHHHHHHHHHHHHCT-TSEEEECSSSHHH
T ss_pred             ccCCCCEEEECCCccCCCCcchhhHHHHHHHHHHHHHHHHHhhCC-CcEEEEccCCchH
Confidence            4678999998765432      1112    233445566666776 4458888888883

>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=85.51  E-value=0.27  Score=31.02  Aligned_cols=16  Identities=25%  Similarity=0.530  Sum_probs=13.3

Q ss_pred             EEEEEcCCCCCHHHHH
Q 031411           17 KLLLIGDSGVGKSCLL   32 (160)
Q Consensus        17 ~i~v~G~~~~GKstli   32 (160)
                      ++++++++|+|||..+
T Consensus        25 n~lv~~pTGsGKT~i~   40 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIA   40 (200)
T ss_dssp             CEEEECCTTSCHHHHH
T ss_pred             CeEEEeCCCCcHHHHH
Confidence            4789999999999743

>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=84.86  E-value=0.21  Score=33.88  Aligned_cols=22  Identities=27%  Similarity=0.365  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 031411           17 KLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        17 ~i~v~G~~~~GKstli~~l~~~   38 (160)
                      |++++|++++|||+|+..+...
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            7899999999999998766544

>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=84.09  E-value=0.37  Score=30.55  Aligned_cols=21  Identities=19%  Similarity=0.308  Sum_probs=16.9

Q ss_pred             EEEEEEcCC-CCCHHHHHHHHh
Q 031411           16 IKLLLIGDS-GVGKSCLLLRFS   36 (160)
Q Consensus        16 ~~i~v~G~~-~~GKstli~~l~   36 (160)
                      -|+.|.|-. ||||||+.-.|.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHH
Confidence            378999996 999999875553

>d1hyha1 c.2.1.5 (A:21-166) L-2-hydroxyisocapronate dehydrogenase, L-HICDH {Lactobacillus confusus [TaxId: 1583]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: L-2-hydroxyisocapronate dehydrogenase, L-HICDH
species: Lactobacillus confusus [TaxId: 1583]

Probab=83.38  E-value=0.9  Score=27.44  Aligned_cols=49  Identities=10%  Similarity=0.085  Sum_probs=28.5

Q ss_pred             hhccCCcEEEEEEECCC-----h-----h----hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           83 AYYRGAMGILLVYDVTD-----E-----S----SFNNIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~-----~-----~----~~~~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ..++++|+++++.....     +     +    ...-++++...+.++.+ +.-++++-|.+|.
T Consensus        65 ~~l~~adiVVitaG~~~~~~~~~g~~R~~l~~~N~~i~~~i~~~i~~~~p-~aivivvtNPvD~  127 (146)
T d1hyha1          65 AALADADVVISTLGNIKLQQDNPTGDRFAELKFTSSMVQSVGTNLKESGF-HGVLVVISNPVDV  127 (146)
T ss_dssp             GGGTTCSEEEECCSCGGGTC-------CTTHHHHHHHHHHHHHHHHHTTC-CSEEEECSSSHHH
T ss_pred             HHhccccEEEEeccccccccccCCccHHHHHHHHHHHHHHHHHHHhhcCC-CeEEEEecCcHHH
Confidence            45788999988754321     0     1    11234445566666666 4447777787774

>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=83.08  E-value=0.19  Score=29.39  Aligned_cols=16  Identities=25%  Similarity=0.262  Sum_probs=13.2

Q ss_pred             EEEEEEcCCCCCHHHH
Q 031411           16 IKLLLIGDSGVGKSCL   31 (160)
Q Consensus        16 ~~i~v~G~~~~GKstl   31 (160)
                      -++++.+++|+|||..
T Consensus         8 ~~~il~~~tGsGKT~~   23 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRR   23 (140)
T ss_dssp             CEEEECCCTTSSTTTT
T ss_pred             CcEEEEcCCCCChhHH
Confidence            4678889999999943

>d1o6za1 c.2.1.5 (A:22-162) Malate dehydrogenase {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=81.48  E-value=3.1  Score=24.78  Aligned_cols=48  Identities=8%  Similarity=0.242  Sum_probs=27.0

Q ss_pred             hccCCcEEEEEEECCC---hhhHH-------HHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           84 YYRGAMGILLVYDVTD---ESSFN-------NIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        84 ~~~~~~~~i~v~d~~~---~~~~~-------~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      .+.++|++++......   .+..+       -++++...+.++.+ +.-++++-|.+|.
T Consensus        67 ~~~~aDiVvitaG~~~~~g~~R~dl~~~N~~I~~~i~~~i~~~~p-~~i~ivvtNPvDv  124 (142)
T d1o6za1          67 DTAGSDVVVITAGIPRQPGQTRIDLAGDNAPIMEDIQSSLDEHND-DYISLTTSNPVDL  124 (142)
T ss_dssp             GGTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHTTCS-CCEEEECCSSHHH
T ss_pred             HhhhcCEEEEecccccccCCchhhHHHHHHHHHHHHHHHHHhcCC-CceEEEecChHHH
Confidence            4678999998765433   12222       22335555555555 3345666677773

>d1a5za1 c.2.1.5 (A:22-163) Lactate dehydrogenase {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Thermotoga maritima [TaxId: 2336]

Probab=81.14  E-value=3  Score=24.71  Aligned_cols=49  Identities=22%  Similarity=0.348  Sum_probs=28.9

Q ss_pred             hhccCCcEEEEEEECCC---hhhHH-------HHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 031411           83 AYYRGAMGILLVYDVTD---ESSFN-------NIRNWIRNIEQHASDNVNKILVGNKADM  132 (160)
Q Consensus        83 ~~~~~~~~~i~v~d~~~---~~~~~-------~~~~~~~~~~~~~~~~~pi~vv~~K~Dl  132 (160)
                      ..++++|+++++.-...   ....+       -++++...+.++++ +.-++++-|.+|.
T Consensus        63 ~~~~~adivvitag~~~~~g~~r~dl~~~N~~I~~~i~~~i~~~~p-~aivivvtNPvd~  121 (140)
T d1a5za1          63 ADLKGSDVVIVAAGVPQKPGETRLQLLGRNARVMKEIARNVSKYAP-DSIVIVVTNPVDV  121 (140)
T ss_dssp             GGGTTCSEEEECCCCCCCSSCCHHHHHHHHHHHHHHHHHHHHHHCT-TCEEEECSSSHHH
T ss_pred             HHhcCCCEEEEecccccCCCcchhhhhccccchHHHHHHHHHhcCC-CcEEEEeCCcHHH
Confidence            35788999888764432   12222       23445666677776 4446666777664

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=80.62  E-value=0.17  Score=32.26  Aligned_cols=16  Identities=38%  Similarity=0.470  Sum_probs=14.0

Q ss_pred             EEEEEcCCCCCHHHHH
Q 031411           17 KLLLIGDSGVGKSCLL   32 (160)
Q Consensus        17 ~i~v~G~~~~GKstli   32 (160)
                      ++++.+++|+|||...
T Consensus        42 ~~il~apTGsGKT~~a   57 (202)
T d2p6ra3          42 NLLLAMPTAAGKTLLA   57 (202)
T ss_dssp             CEEEECSSHHHHHHHH
T ss_pred             CEEEEcCCCCchhHHH
Confidence            6899999999999764

>d1y6ja1 c.2.1.5 (A:7-148) Lactate dehydrogenase {Clostridium thermocellum [TaxId: 1515]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Clostridium thermocellum [TaxId: 1515]

Probab=80.23  E-value=3.1  Score=24.73  Aligned_cols=23  Identities=26%  Similarity=0.215  Sum_probs=16.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 031411           16 IKLLLIGDSGVGKSCLLLRFSDG   38 (160)
Q Consensus        16 ~~i~v~G~~~~GKstli~~l~~~   38 (160)
                      -||.++|-.++|.+.-...+..+
T Consensus         2 ~KI~IIGaG~VG~~~a~~l~~~~   24 (142)
T d1y6ja1           2 SKVAIIGAGFVGASAAFTMALRQ   24 (142)
T ss_dssp             CCEEEECCSHHHHHHHHHHHHTT
T ss_pred             CeEEEECCCHHHHHHHHHHHhcC
Confidence            38999998778877765555543