Citrus Sinensis ID: 041690

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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-------170-------180-------190-------200-------210-------220-------230---
Protein Sequence
MIESFFDGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITDDNEQ
Secondary Structure (PSIPRED)
ccccccccccccccccccccEEEEEccccccHHHHHHHHHHHHHHHccccEEEEEcccccccccccccccccccHHHHHEEEEEEcccHHHHHHHHHHcccccccccEEEEcccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccEEEEEEccccccHHHHHHHHHHHHccEEEEEcccccEEEEEccccccccccccccEEEEEEEEEEEEEcccccccc
Secondary Structure Prediction (SSPRO)
ccHHHcccccccccccccccEEEEEccccccHHHHHHHHHHHHHHcccccEEEEEccHHHcccccccccccccccHHHHHEEEEEEccHHHHHHHHHHHHHccccccEEEEEccHHHHccccHHHHcccccHHHHHHHHHHHHHHHHHHHHccccccEEEEEccccccccHHHHHHHHHHHcEEEEEcccccEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
miesffdgnqVEILEThvdpitllsgppccgktsLLFQFAYncasqsnaNVVFMCNrsrlqskrpylsqsidpssHVFKLIQMKYVEDDEEIKKYFAAFhqhdkiptavvvddfgdlfddrtcqerytnprgrdLAMVRTLALCYNAIthankkspcklllsdthlgnstRLLYIYKRWISSIftvkgdgpgsfllrnknysrscglgktRIAKYSIALKDLVFegitddneq
Flexible Loop (DISEMBL)
MIESFFDGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPylsqsidpsshVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRtcqerytnprgrdlaMVRTLALCYNAIThankkspcklllSDTHLGNSTRLLYIYKRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVfegitddneq
Low Complexity Region (SEG)
MIESFFDGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAvvvddfgdlfddRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITDDNEQ
Disordered region (IsUnstruct)
****FFDGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRL*************SSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGI******
Disordered Region (DISOPRED)
**ESF**GNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQ**********DPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQE***NPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGDGPGSFLL****************AKYSIALKDLVF**I******
Disordered Region (DISEMBL)
MIESFFDGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITDDNEQ
Disordered Region (DISPRO)
*I***F*GNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITD****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIESFFDGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITDDNEQ
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

No hits with e-value below 0.001 by BLAST

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	233
296088178	236	unnamed protein product [Vitis vinifera]	0.995	0.983	0.655	1e-81
255543194	239	conserved hypothetical protein [Ricinus	0.995	0.970	0.622	2e-81
224075461	260	predicted protein [Populus trichocarpa]	0.995	0.892	0.586	2e-77
225425244	231	PREDICTED: uncharacterized protein LOC10	0.974	0.982	0.638	8e-77
307135831	231	hypothetical protein [Cucumis melo subsp	0.982	0.991	0.562	4e-72
449526253	290	PREDICTED: uncharacterized LOC101205665	0.961	0.772	0.561	3e-71
195609370	231	hypothetical protein [Zea mays] gi|41393	0.875	0.883	0.602	1e-67
449445786	305	PREDICTED: uncharacterized protein LOC10	0.909	0.695	0.528	2e-61
334185561	225	uncharacterized protein [Arabidopsis tha	0.948	0.982	0.540	2e-59
297831066	224	hypothetical protein ARALYDRAFT_479840 [	0.909	0.946	0.543	5e-58

>gi|296088178|emb|CBI35670.3| unnamed protein product [Vitis vinifera]

 Score =  308 bits (788), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 154/235 (65%), Positives = 179/235 (76%), Gaps = 3/235 (1%)

Query: 1   MIESFFDGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQS---NANVVFMCNR 57
           M+E FF G   E         TLLSGPP CGKTSLLFQFA+N A +    N +VVF+C R
Sbjct: 1   MVERFFSGKITETAGEDAGNFTLLSGPPSCGKTSLLFQFAFNAAVEGHSGNRDVVFICTR 60

Query: 58  SRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDL 117
            RL+SK PYLSQ +DPSS +F+ IQMKYVEDDE IKKYFAAFH H K P AV++DDFGD 
Sbjct: 61  RRLESKPPYLSQGVDPSSDMFQHIQMKYVEDDEAIKKYFAAFHLHHKFPVAVIIDDFGDF 120

Query: 118 FDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYK 177
           FD+RTCQERY +PRGRDLAMVRTLALC +AI HANK +PCK+LLSDTH G+S RLL+IYK
Sbjct: 121 FDERTCQERYNSPRGRDLAMVRTLALCRSAILHANKTAPCKVLLSDTHHGDSPRLLFIYK 180

Query: 178 RWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITDDNE 232
           RWI SIFT+KGDG GSFLL N   S S   G+ R AKYSIAL+ L  E +T+D++
Sbjct: 181 RWIPSIFTIKGDGSGSFLLTNGINSGSGSSGRRRTAKYSIALQYLFLEDVTEDDD 235

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255543194|ref|XP_002512660.1| conserved hypothetical protein [Ricinus communis] gi|223548621|gb|EEF50112.1| conserved hypothetical protein [Ricinus communis]

 Score =  307 bits (787), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 147/236 (62%), Positives = 182/236 (77%), Gaps = 4/236 (1%)

Query: 1   MIESFFDGNQVEILETHV--DPITLLSGPPCCGKTSLLFQFAYNCA--SQSNANVVFMCN 56
           M+E FF G Q+++   H    PI LLSGPP CGKTSLLFQFAYN A   + + +VVF+CN
Sbjct: 1   MVEQFFPGGQLDLSRQHSLPTPIMLLSGPPSCGKTSLLFQFAYNAAIDERGSNSVVFICN 60

Query: 57  RSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGD 116
           R +L +K P+LSQ IDPSS  F+ IQMKYV+DDE +KKYFAAFH +D  P+AV++DDFGD
Sbjct: 61  RRKLDTKPPFLSQGIDPSSGTFQRIQMKYVDDDEGVKKYFAAFHMYDAFPSAVIIDDFGD 120

Query: 117 LFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY 176
            F+ R+CQERY NPRGRDLAMVR LALC+NA+ HAN+K  CKLLLSDTH G+S RLL+IY
Sbjct: 121 FFNQRSCQERYENPRGRDLAMVRILALCHNAVMHANEKGHCKLLLSDTHHGDSPRLLFIY 180

Query: 177 KRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITDDNE 232
           KRW+S+IFT+KGDG GSFLLR  +   S    ++R AKYS+AL+ L  E I +D+E
Sbjct: 181 KRWVSAIFTIKGDGQGSFLLRRNSNLASENSERSRSAKYSVALQFLYLERIFEDDE 236

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224075461|ref|XP_002304643.1| predicted protein [Populus trichocarpa] gi|222842075|gb|EEE79622.1| predicted protein [Populus trichocarpa]

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 142/242 (58%), Positives = 178/242 (73%), Gaps = 10/242 (4%)

Query: 1   MIESFFDGNQVE--------ILETHVDPITLLSGPPCCGKTSLLFQFAYNCA--SQSNAN 50
           M+E+FF   Q++        + ++   P  LLSGPP CGKTSLLFQFAYN A  ++ +  
Sbjct: 1   MVEAFFSTTQMDFDFAHHHSLSQSQSHPFMLLSGPPSCGKTSLLFQFAYNVALEAEDDRK 60

Query: 51  VVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVV 110
           VVF+C+RSR++S  P+LSQ I PSS +FK IQMKYVEDDE IKKYFAAFH HD  P +VV
Sbjct: 61  VVFICHRSRIESAPPFLSQGIQPSSDIFKRIQMKYVEDDEGIKKYFAAFHLHDTFPLSVV 120

Query: 111 VDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNST 170
           VDDFGD F +R CQERY NPRGRDLA+VR LALC+NA+  +N K  CKLL+SDTH G+S 
Sbjct: 121 VDDFGDFFYERKCQERYGNPRGRDLALVRILALCHNAVMSSNDKGHCKLLISDTHHGDSP 180

Query: 171 RLLYIYKRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITDD 230
           RLL++YKRW+ SIFT+KGDG GSFLL++ +   S    K +IAKYS+  + L+ EGI +D
Sbjct: 181 RLLFLYKRWVPSIFTIKGDGNGSFLLKSYSNVGSDSTEKMKIAKYSLVYQRLLLEGIIED 240

Query: 231 NE 232
            E
Sbjct: 241 EE 242

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225425244|ref|XP_002267301.1| PREDICTED: uncharacterized protein LOC100257492 [Vitis vinifera]

 Score =  292 bits (747), Expect = 8e-77,   Method: Compositional matrix adjust.
 Identities = 150/235 (63%), Positives = 174/235 (74%), Gaps = 8/235 (3%)

Query: 1   MIESFFDGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQS---NANVVFMCNR 57
           M+E FF G   E         TLLSGPP CGKTSLLFQFA+N A +    N +VVF+C R
Sbjct: 1   MVERFFSGKITETAGEDAGNFTLLSGPPSCGKTSLLFQFAFNAAVEGHSGNRDVVFICTR 60

Query: 58  SRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDL 117
            RL+SK PYLSQ +DPSS +F+ IQMKYVEDDE IKKYFAAFH H K P AV++DDFGD 
Sbjct: 61  RRLESKPPYLSQGVDPSSDMFQHIQMKYVEDDEAIKKYFAAFHLHHKFPVAVIIDDFGDF 120

Query: 118 FDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYK 177
           FD     ERY +PRGRDLAMVRTLALC +AI HANK +PCK+LLSDTH G+S RLL+IYK
Sbjct: 121 FD-----ERYNSPRGRDLAMVRTLALCRSAILHANKTAPCKVLLSDTHHGDSPRLLFIYK 175

Query: 178 RWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITDDNE 232
           RWI SIFT+KGDG GSFLL N   S S   G+ R AKYSIAL+ L  E +T+D++
Sbjct: 176 RWIPSIFTIKGDGSGSFLLTNGINSGSGSSGRRRTAKYSIALQYLFLEDVTEDDD 230

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307135831|gb|ADN33703.1| hypothetical protein [Cucumis melo subsp. melo]

 Score =  276 bits (707), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 131/233 (56%), Positives = 173/233 (74%), Gaps = 4/233 (1%)

Query: 2   IESFFDGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQ 61
           +E FF   Q+         I L+SGPP CGKTSLLFQFA+N   +   NV F+CNR +L+
Sbjct: 1   MEKFFSVQQIHTRCESSHSIKLVSGPPSCGKTSLLFQFAFNLGLE--GNVTFICNRRKLE 58

Query: 62  SKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDR 121
           +K PYLSQ +DP+S  F+ IQMKY+EDD+ IKKYF+AFH H  +P AVV+DDFGD F++R
Sbjct: 59  NKPPYLSQGVDPTSETFRRIQMKYLEDDDGIKKYFSAFHLHSTLPVAVVIDDFGDFFEER 118

Query: 122 TCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWIS 181
            CQ +Y NPRGRD+AMVRTLALC+NA++ AN+  PC+L+LSDTH G S RL++IYKRW+ 
Sbjct: 119 RCQAKYANPRGRDIAMVRTLALCHNAVSLANQCRPCQLVLSDTHHGESPRLIFIYKRWVP 178

Query: 182 SIFTVKGDGPGSFLLRN-KNYSRSCGLGKTRIAKYSIALKDLVFEGITDDNEQ 233
           +IFT++GDG G F+LR+  N    C L +T+ AKYSIAL+ L  E I++D+ +
Sbjct: 179 TIFTIRGDGAGWFILRSINNCGNDCCL-RTKRAKYSIALQFLSLEEISEDSRE 230

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449526253|ref|XP_004170128.1| PREDICTED: uncharacterized LOC101205665 [Cucumis sativus]

 Score =  273 bits (699), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 132/235 (56%), Positives = 173/235 (73%), Gaps = 11/235 (4%)

Query: 2   IESFFDGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQ 61
           +E FF   Q+         I L+SGPP CGKTSLLFQFA+N   +   NV F+CNR +L+
Sbjct: 63  MEKFFSVQQIHTHCESSHSIKLVSGPPSCGKTSLLFQFAFNLGLE--GNVTFICNRRKLE 120

Query: 62  SKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDR 121
           +K PYLSQ +DP+S  F+ IQMKY+EDD+ IKKYF+AFH H  +P AVV+DDFGD F++R
Sbjct: 121 NKPPYLSQGVDPTSETFQRIQMKYLEDDDGIKKYFSAFHLHSTLPVAVVIDDFGDFFEER 180

Query: 122 TCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWIS 181
            CQE+Y NPRGRDLAMVRTLALC NA++ A    PC+L+LSDTH G S RL++IYKRW+ 
Sbjct: 181 RCQEKYANPRGRDLAMVRTLALCQNAVSLAK---PCQLVLSDTHHGESPRLIFIYKRWVP 237

Query: 182 SIFTVKGDGPGSFLLRNKNYSRSCGLG---KTRIAKYSIALKDLVFEGITDDNEQ 233
           +IFT++GDG G F+LR+ N   +CG+    +T+ AKYSIAL+ L  E I++D+ +
Sbjct: 238 TIFTIRGDGAGWFILRSIN---NCGIDCCLRTKRAKYSIALQFLSLEEISEDSRE 289

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|195609370|gb|ACG26515.1| hypothetical protein [Zea mays] gi|413934089|gb|AFW68640.1| hypothetical protein ZEAMMB73_583692 [Zea mays]

 Score =  261 bits (668), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 126/209 (60%), Positives = 158/209 (75%), Gaps = 5/209 (2%)

Query: 21  ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKL 80
           ITL+SGPPCCGKTSLLFQFA N A++S   VVF+C++ RL+S  P+LSQ +DPS  + + 
Sbjct: 20  ITLISGPPCCGKTSLLFQFAVNRAAESGRGVVFICSKGRLESNPPFLSQGVDPSMSLLQR 79

Query: 81  IQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRT 140
           IQ+KY+ED +EI+KYFAAFH  D  P AV+VDDF D F DR+CQ+RY   R RDLAMVR 
Sbjct: 80  IQIKYIEDGDEIRKYFAAFHLLDDFPAAVIVDDFADFFSDRSCQQRYGIARARDLAMVRA 139

Query: 141 LALCYNAITHANKK----SPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGDGPGSFLL 196
           LALC+NAI HAN K      C LLLSD H G++ RLL+IY+RWI+SI+T++GDG GS++L
Sbjct: 140 LALCHNAIGHANAKLGTLGYCNLLLSDVHQGDTPRLLFIYQRWINSIYTIRGDGNGSYIL 199

Query: 197 RNKNYSRSCGLGKTRIAKYSIALKDLVFE 225
           +N   S + G  K R AKYSIAL+ LV E
Sbjct: 200 QNLGSSET-GSKKARKAKYSIALQYLVLE 227

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445786|ref|XP_004140653.1| PREDICTED: uncharacterized protein LOC101205665 [Cucumis sativus]

 Score =  241 bits (614), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 120/227 (52%), Positives = 164/227 (72%), Gaps = 15/227 (6%)

Query: 12  EILETHVDPITLLSGP--PCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQ 69
           ++L +  +P +L   P    C + S LF  A+N   +   NV F+CNR +L++K PYLSQ
Sbjct: 88  KVLLSAANPHSLRIFPLNQACFRASFLF--AFNLGLE--GNVTFICNRRKLENKPPYLSQ 143

Query: 70  SIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTN 129
            +DP+S  F+ IQMKY+EDD+ IKKYF+AFH H  +P AVV+DDFGD F++R CQE+Y N
Sbjct: 144 GVDPTSETFQRIQMKYLEDDDGIKKYFSAFHLHSTLPVAVVIDDFGDFFEERRCQEKYAN 203

Query: 130 PRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGD 189
           PRGRDLAMVRTLALC NA++ A    PC+L+LSDTH G S RL++IYKRW+ +IFT++GD
Sbjct: 204 PRGRDLAMVRTLALCQNAVSLAK---PCQLVLSDTHHGESPRLIFIYKRWVPTIFTIRGD 260

Query: 190 GPGSFLLRNKNYSRSCGLG---KTRIAKYSIALKDLVFEGITDDNEQ 233
           G G F+LR+ N   +CG+    +T+ AKYSIAL+ L  E I++D+ +
Sbjct: 261 GAGWFILRSIN---NCGIDCCLRTKRAKYSIALQFLSLEEISEDSRE 304

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334185561|ref|NP_001189953.1| uncharacterized protein [Arabidopsis thaliana] gi|332643222|gb|AEE76743.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  234 bits (597), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 127/235 (54%), Positives = 161/235 (68%), Gaps = 14/235 (5%)

Query: 1   MIESFFDGNQVEILETHV-DPITLLSGPPCCGKTSLLFQFAYNCASQSNAN-VVFMCNRS 58
           M+E FF   +    E H    ++LLSGP   GKTSLLFQ A N AS S    VVF+C+R 
Sbjct: 1   MVERFFPTKRSSGDENHRRGNLSLLSGPISSGKTSLLFQLALNVASASTTTRVVFICHRK 60

Query: 59  RLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQH--DKIPTAVVVDDFGD 116
           +++S  P+LSQ IDPSS VF  IQ+KYV+DDE I+KYFAAFH H  D +P+AV++DDFGD
Sbjct: 61  KIESNPPFLSQGIDPSSDVFNRIQIKYVDDDEGIRKYFAAFHLHHVDDLPSAVIIDDFGD 120

Query: 117 LFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY 176
            F   +      N R RD+AMVRTLALC+NAI  AN+K+ C+L+LS+T+ G+S R L+IY
Sbjct: 121 YF---SKLNSVMNSRARDMAMVRTLALCHNAIVDANRKALCELVLSETNHGDSPRSLFIY 177

Query: 177 KRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITDDN 231
           KRWI  IFT+KG G GSFLL + + S        R AKYSIAL+ L+ E I DD+
Sbjct: 178 KRWIPKIFTIKGHGDGSFLLTSNDTSE-------RSAKYSIALQYLILEQIIDDS 225

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297831066|ref|XP_002883415.1| hypothetical protein ARALYDRAFT_479840 [Arabidopsis lyrata subsp. lyrata] gi|297329255|gb|EFH59674.1| hypothetical protein ARALYDRAFT_479840 [Arabidopsis lyrata subsp. lyrata]

 Score =  229 bits (585), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 130/239 (54%), Positives = 158/239 (66%), Gaps = 27/239 (11%)

Query: 1   MIESFF-------DGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNAN-VV 52
           M+E FF       DGN+        D +TLLSGP   GKTSLLFQFA N AS S  N VV
Sbjct: 1   MVERFFPTKRSSGDGNRRR------DKLTLLSGPISSGKTSLLFQFALNVASASTNNRVV 54

Query: 53  FMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQH--DKIPTAVV 110
           F+C+R R++S  P+LSQ IDPSS VF  IQMKYV+DDE I+KYFAAFH H  D  P AV+
Sbjct: 55  FICHRKRIESNPPFLSQGIDPSSDVFNRIQMKYVDDDEGIRKYFAAFHLHRVDDFPNAVI 114

Query: 111 VDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNST 170
           +DDFGD F          N R RD+AMVRTLALC+NAI  A K++ C+L+LS+T+ G+S 
Sbjct: 115 IDDFGDYFSQLNSM---MNSRARDMAMVRTLALCHNAIADA-KQAFCELVLSETNHGDSP 170

Query: 171 RLLYIYKRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITD 229
           R L+IYKRWI  IFT+KG G GSFLL +   S        + AKYSIAL+ L+ E + D
Sbjct: 171 RSLFIYKRWIPKIFTIKGHGDGSFLLTSNGTSE-------KSAKYSIALQYLILEQMID 222

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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)

No hits with e-value below 0.001 by BLAST

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	233
PRK09302	509	PRK09302, PRK09302, circadian clock protein KaiC;	0.004

>gnl|CDD|236461 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed

 Score = 37.6 bits (88), Expect = 0.004
 Identities = 12/33 (36%), Positives = 16/33 (48%)

Query: 22 TLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM 54
          TL+SG    GKT    QF  N   + +   VF+
Sbjct: 34 TLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFV 66

Length = 509

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	233
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.84
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.83
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.8
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.8
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	99.77
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.76
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	99.74
TIGR02237	209	recomb_radB DNA repair and recombination protein R	99.73
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	99.73
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.73
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	99.72
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.7
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.7
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	99.7
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.69
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.68
cd01394	218	radB RadB. The archaeal protein radB shares simila	99.68
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	99.68
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.66
TIGR02236	310	recomb_radA DNA repair and recombination protein R	99.66
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.66
PTZ00035	337	Rad51 protein; Provisional	99.65
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	99.64
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	99.64
cd00983	325	recA RecA is a bacterial enzyme which has roles in	99.64
PRK04301	317	radA DNA repair and recombination protein RadA; Va	99.64
PRK09354	349	recA recombinase A; Provisional	99.64
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	99.63
PRK11823	446	DNA repair protein RadA; Provisional	99.63
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.62
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.61
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	99.61
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.61
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.61
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	99.61
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.61
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	99.6
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	99.59
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	99.58
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	99.58
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.57
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.56
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	99.55
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.55
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	99.54
PRK04328	249	hypothetical protein; Provisional	99.54
CHL00195	489	ycf46 Ycf46; Provisional	99.53
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	99.52
PF00004	132	AAA: ATPase family associated with various cellula	99.52
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.52
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.51
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.51
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.49
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.49
PRK05973	237	replicative DNA helicase; Provisional	99.49
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.47
PRK08533	230	flagellar accessory protein FlaH; Reviewed	99.47
PRK09519	790	recA DNA recombination protein RecA; Reviewed	99.45
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.44
PRK06067	234	flagellar accessory protein FlaH; Validated	99.44
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.44
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.43
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	99.43
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	99.39
CHL00176	638	ftsH cell division protein; Validated	99.38
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.38
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.38
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.38
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.38
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.36
CHL00206	2281	ycf2 Ycf2; Provisional	99.35
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	99.34
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	99.31
PRK09302	509	circadian clock protein KaiC; Reviewed	99.31
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.31
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	99.31
PRK09302	509	circadian clock protein KaiC; Reviewed	99.27
PF00154	322	RecA: recA bacterial DNA recombination protein; In	99.24
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.24
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	99.21
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.21
KOG1434	335	consensus Meiotic recombination protein Dmc1 [Cell	99.2
PRK06893	229	DNA replication initiation factor; Validated	99.18
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	99.17
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	99.16
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	99.15
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	99.15
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	99.15
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	99.14
cd03216	163	ABC_Carb_Monos_I This family represents the domain	99.14
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	99.14
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	99.14
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	99.13
smart00382	148	AAA ATPases associated with a variety of cellular	99.11
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.1
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	99.09
CHL00181	287	cbbX CbbX; Provisional	99.09
cd03246	173	ABCC_Protease_Secretion This family represents the	99.09
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.09
COG2884	223	FtsE Predicted ATPase involved in cell division [C	99.08
KOG1564	351	consensus DNA repair protein RHP57 [Replication, r	99.08
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	99.05
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	99.05
PRK08084	235	DNA replication initiation factor; Provisional	99.05
cd03215	182	ABC_Carb_Monos_II This family represents domain II	99.03
COG4619	223	ABC-type uncharacterized transport system, ATPase	99.03
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	99.02
PRK08727	233	hypothetical protein; Validated	99.02
PRK04296	190	thymidine kinase; Provisional	99.02
PRK08181	269	transposase; Validated	99.01
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	99.0
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.0
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	99.0
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	98.99
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	98.99
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	98.98
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	98.98
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	98.98
PF07088	484	GvpD: GvpD gas vesicle protein; InterPro: IPR00978	98.97
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	98.97
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	98.96
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	98.96
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	98.96
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	98.96
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.96
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	98.96
PRK05642	234	DNA replication initiation factor; Validated	98.95
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	98.95
PRK06526	254	transposase; Provisional	98.95
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	98.95
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.94
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	98.94
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	98.94
PRK12377	248	putative replication protein; Provisional	98.93
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	98.93
cd03269	210	ABC_putative_ATPase This subfamily is involved in	98.93
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.93
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	98.92
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	98.92
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	98.92
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	98.92
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	98.92
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	98.91
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	98.91
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	98.91
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	98.91
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	98.91
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	98.91
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	98.91
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	98.91
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	98.9
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	98.9
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	98.9
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	98.9
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	98.9
PRK13537	306	nodulation ABC transporter NodI; Provisional	98.9
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	98.89
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.89
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	98.89
PF13479	213	AAA_24: AAA domain	98.89
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	98.89
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	98.89
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	98.89
PRK09183	259	transposase/IS protein; Provisional	98.88
PRK10908	222	cell division protein FtsE; Provisional	98.88
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	98.88
COG1127	263	Ttg2A ABC-type transport system involved in resist	98.88
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	98.88
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	98.88
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	98.87
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	98.87
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.87
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	98.87
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	98.86
PRK13651	305	cobalt transporter ATP-binding subunit; Provisiona	98.86
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	98.86
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	98.86
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.86
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	98.86
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.86
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	98.86
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	98.86
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	98.85
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	98.85
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	98.85
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	98.85
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	98.85
PRK06835	329	DNA replication protein DnaC; Validated	98.84
COG1135	339	AbcC ABC-type metal ion transport system, ATPase c	98.84
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	98.84
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.84
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	98.84
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	98.84
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	98.84
PRK07952	244	DNA replication protein DnaC; Validated	98.83
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	98.83
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	98.83
PRK13536	340	nodulation factor exporter subunit NodI; Provision	98.83
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	98.83
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.83
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	98.83
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	98.83
PRK08116	268	hypothetical protein; Validated	98.83
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	98.82
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	98.82
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	98.82
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	98.82
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	98.82
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	98.82
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	98.81
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	98.81
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	98.81
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	98.81
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	98.8
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	98.8
COG3638	258	ABC-type phosphate/phosphonate transport system, A	98.8
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	98.8
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	98.8
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	98.8
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	98.8
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	98.8
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	98.8
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	98.8
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	98.8
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	98.79
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	98.79
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	98.79
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	98.79
PRK10070	400	glycine betaine transporter ATP-binding subunit; P	98.79
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	98.79
PRK13546	264	teichoic acids export protein ATP-binding subunit;	98.79
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	98.79
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	98.79
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	98.79
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	98.79
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.79
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	98.79
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	98.79
PRK13634	290	cbiO cobalt transporter ATP-binding subunit; Provi	98.78
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	98.78
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	98.78
PF13173	128	AAA_14: AAA domain	98.78
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	98.78
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.78
PRK12422	445	chromosomal replication initiation protein; Provis	98.78
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	98.78
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	98.78
PRK06921	266	hypothetical protein; Provisional	98.78
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	98.78
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	98.77
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	98.77
PRK09984	262	phosphonate/organophosphate ester transporter subu	98.77
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	98.77
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	98.77
PRK13639	275	cbiO cobalt transporter ATP-binding subunit; Provi	98.77
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	98.76
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.76
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	98.76
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	98.76
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	98.76
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	98.76
cd03299	235	ABC_ModC_like Archeal protein closely related to M	98.76
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	98.76
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	98.76
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.75
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	98.75
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	98.75
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	98.75
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.75
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.75
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	98.75
TIGR00665	434	DnaB replicative DNA helicase. This model describe	98.75
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.75
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	98.75
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	98.74
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	98.74
cd03234	226	ABCG_White The White subfamily represents ABC tran	98.74
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	98.74
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	98.73
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.73
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	98.73
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	98.73
PRK13409	590	putative ATPase RIL; Provisional	98.73
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	98.73
PRK05748	448	replicative DNA helicase; Provisional	98.73
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	98.73
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	98.73
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	98.72
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	98.72
PRK10938	490	putative molybdenum transport ATP-binding protein	98.72
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	98.72
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	98.72
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	98.72
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	98.72
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	98.71
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.71
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	98.71
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	98.71
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	98.71
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	98.71
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	98.71
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	98.71
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	98.71
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	98.71
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	98.71
PRK11308	327	dppF dipeptide transporter ATP-binding subunit; Pr	98.71
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.7
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	98.7
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	98.7
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	98.7
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.7
COG4178	604	ABC-type uncharacterized transport system, permeas	98.7
PRK09473	330	oppD oligopeptide transporter ATP-binding componen	98.7
PRK03695	248	vitamin B12-transporter ATPase; Provisional	98.69
PRK15079	331	oligopeptide ABC transporter ATP-binding protein O	98.69
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	98.69
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	98.68
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	98.68
TIGR03415	382	ABC_choXWV_ATP choline ABC transporter, ATP-bindin	98.68
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.68
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	98.68
PRK13342	413	recombination factor protein RarA; Reviewed	98.67
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	98.67
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	98.67
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	98.67
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	98.67
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	98.67
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	98.66
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	98.66
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	98.66
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	98.66
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	98.65
COG1123	539	ATPase components of various ABC-type transport sy	98.65
PRK08939	306	primosomal protein DnaI; Reviewed	98.65
COG0410	237	LivF ABC-type branched-chain amino acid transport	98.65
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	98.64
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	98.64
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	98.64
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	98.64
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	98.63
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	98.63
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	98.63
COG1118	345	CysA ABC-type sulfate/molybdate transport systems,	98.63
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.63
COG4133	209	CcmA ABC-type transport system involved in cytochr	98.63
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	98.63
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	98.62
COG4586	325	ABC-type uncharacterized transport system, ATPase	98.62
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	98.62
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	98.62
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	98.62
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	98.61
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	98.61
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	98.61
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	98.61
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	98.61
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	98.61
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	98.6
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	98.6
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.6
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.6
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	98.59
PHA00729	226	NTP-binding motif containing protein	98.59
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	98.59
PRK10261	623	glutathione transporter ATP-binding protein; Provi	98.58
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	98.58
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	98.58
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	98.58
PRK10865	857	protein disaggregation chaperone; Provisional	98.57
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.57
PRK15064	530	ABC transporter ATP-binding protein; Provisional	98.57
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	98.57
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	98.57
COG4598	256	HisP ABC-type histidine transport system, ATPase c	98.57
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	98.57
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.57
KOG1433	326	consensus DNA repair protein RAD51/RHP55 [Replicat	98.56
PRK13642	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.56
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	98.56
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.56
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	98.56
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	98.56
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	98.55
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	98.55
PRK10261	623	glutathione transporter ATP-binding protein; Provi	98.55
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	98.55
KOG0055	1228	consensus Multidrug/pheromone exporter, ABC superf	98.55
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	98.55
TIGR01842	544	type_I_sec_PrtD type I secretion system ABC transp	98.54
PRK14236	272	phosphate transporter ATP-binding protein; Provisi	98.54
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	98.54
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	98.54
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	98.54
COG4559	259	ABC-type hemin transport system, ATPase component	98.54
COG1129	500	MglA ABC-type sugar transport system, ATPase compo	98.53
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	98.53
cd03288	257	ABCC_SUR2 The SUR domain 2. The sulfonylurea recep	98.53
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	98.53
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	98.53
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	98.53
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	98.53
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	98.53
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	98.53
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	98.53
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	98.53
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	98.53
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	98.52
KOG2028	554	consensus ATPase related to the helicase subunit o	98.52
TIGR00954	659	3a01203 Peroxysomal Fatty Acyl CoA Transporter (FA	98.52
cd03279	213	ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complex	98.52
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	98.52
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	98.52
cd03291	282	ABCC_CFTR1 The CFTR subfamily domain 1. The cystic	98.52
PRK14253	249	phosphate ABC transporter ATP-binding protein; Pro	98.52
PRK08760	476	replicative DNA helicase; Provisional	98.51
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	98.51
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	98.51
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	98.51
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	98.51
PRK14244	251	phosphate ABC transporter ATP-binding protein; Pro	98.51
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.51
PHA02542	473	41 41 helicase; Provisional	98.51
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	98.51
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	98.5
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	98.5
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	98.5
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	98.5
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.5
PRK14263	261	phosphate ABC transporter ATP-binding protein; Pro	98.5
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	98.5
PRK14275	286	phosphate ABC transporter ATP-binding protein; Pro	98.5
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	98.5
PRK04195	482	replication factor C large subunit; Provisional	98.5
PRK13409	590	putative ATPase RIL; Provisional	98.49
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	98.49
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	98.49
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	98.49
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	98.49
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	98.49
COG4181	228	Predicted ABC-type transport system involved in ly	98.49
PRK09165	497	replicative DNA helicase; Provisional	98.49
PRK14272	252	phosphate ABC transporter ATP-binding protein; Pro	98.49
PRK14270	251	phosphate ABC transporter ATP-binding protein; Pro	98.49
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	98.48
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	98.48
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	98.48
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	98.48
TIGR01846	694	type_I_sec_HlyB type I secretion system ABC transp	98.48
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.48
PRK14258	261	phosphate ABC transporter ATP-binding protein; Pro	98.48
COG3845	501	ABC-type uncharacterized transport systems, ATPase	98.47
COG0488	530	Uup ATPase components of ABC transporters with dup	98.47
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	98.47
PRK11147	635	ABC transporter ATPase component; Reviewed	98.47
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	98.47
PLN03211	659	ABC transporter G-25; Provisional	98.47
PRK06620	214	hypothetical protein; Validated	98.47
PRK14260	259	phosphate ABC transporter ATP-binding protein; Pro	98.46
PRK14246	257	phosphate ABC transporter ATP-binding protein; Pro	98.46
TIGR01187	325	potA spermidine/putrescine ABC transporter ATP-bin	98.46
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	98.46
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	98.46
PRK15064	530	ABC transporter ATP-binding protein; Provisional	98.46
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	98.45
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	98.45
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	98.45
KOG1969	877	consensus DNA replication checkpoint protein CHL12	98.45
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	98.45
cd03115	173	SRP The signal recognition particle (SRP) mediates	98.45
PRK14271	276	phosphate ABC transporter ATP-binding protein; Pro	98.44
PLN03025	319	replication factor C subunit; Provisional	98.44
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	98.44
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	98.44
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.44
PRK08506	472	replicative DNA helicase; Provisional	98.43
PRK09376	416	rho transcription termination factor Rho; Provisio	98.43
PRK06321	472	replicative DNA helicase; Provisional	98.43
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.43
COG4167	267	SapF ABC-type antimicrobial peptide transport syst	98.43
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	98.43
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	98.42
COG4988	559	CydD ABC-type transport system involved in cytochr	98.42
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	98.42
CHL00095	821	clpC Clp protease ATP binding subunit	98.42
PRK09087	226	hypothetical protein; Validated	98.42
PRK10416	318	signal recognition particle-docking protein FtsY;	98.42
KOG0057	591	consensus Mitochondrial Fe/S cluster exporter, ABC	98.42
PRK10535	648	macrolide transporter ATP-binding /permease protei	98.42
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	98.42
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.41
cd03239	178	ABC_SMC_head The structural maintenance of chromos	98.41
COG4161	242	ArtP ABC-type arginine transport system, ATPase co	98.41
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.41
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.41
PRK12402	337	replication factor C small subunit 2; Reviewed	98.41
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.41
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.4
KOG0061	613	consensus Transporter, ABC superfamily (Breast can	98.4
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	98.4
COG4987	573	CydC ABC-type transport system involved in cytochr	98.4

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.84  E-value=2.3e-21  Score=162.96  Aligned_cols=140  Identities=16%  Similarity=0.204  Sum_probs=112.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .|+.++|+|||||||||.||+++|.    +.+..++-+       ...+++...+++.              ...++++|
T Consensus       183 ~PPKGVLLYGPPGTGKTLLAkAVA~----~T~AtFIrv-------vgSElVqKYiGEG--------------aRlVRelF  237 (406)
T COG1222         183 DPPKGVLLYGPPGTGKTLLAKAVAN----QTDATFIRV-------VGSELVQKYIGEG--------------ARLVRELF  237 (406)
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHh----ccCceEEEe-------ccHHHHHHHhccc--------------hHHHHHHH
Confidence            5889999999999999999995554    556666666       3445555555443              67899999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..++  ++.|++||||||+++..     .|.+...+.++.+++++++|++.+.-+...+ .+=||++||+++......+.
T Consensus       238 ~lAr--ekaPsIIFiDEIDAIg~-----kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~-nvKVI~ATNR~D~LDPALLR  309 (406)
T COG1222         238 ELAR--EKAPSIIFIDEIDAIGA-----KRFDSGTSGDREVQRTMLELLNQLDGFDPRG-NVKVIMATNRPDILDPALLR  309 (406)
T ss_pred             HHHh--hcCCeEEEEechhhhhc-----ccccCCCCchHHHHHHHHHHHHhccCCCCCC-CeEEEEecCCccccChhhcC
Confidence            9988  55699999999999998     6777777788889999999988887775544 46678889988877777788


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..++|+.++++..
T Consensus       310 PGR~DRkIEfplP  322 (406)
T COG1222         310 PGRFDRKIEFPLP  322 (406)
T ss_pred             CCcccceeecCCC
Confidence            8999999999864

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.83  E-value=2.2e-20  Score=165.83  Aligned_cols=139  Identities=20%  Similarity=0.255  Sum_probs=114.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .|++++||+||||||||.||+++|.    +.+-+++-|       ..++.++.+.+++              ++.++++|
T Consensus       221 ~PprGvLlHGPPGCGKT~lA~AiAg----el~vPf~~i-------sApeivSGvSGES--------------EkkiRelF  275 (802)
T KOG0733|consen  221 RPPRGVLLHGPPGCGKTSLANAIAG----ELGVPFLSI-------SAPEIVSGVSGES--------------EKKIRELF  275 (802)
T ss_pred             CCCCceeeeCCCCccHHHHHHHHhh----hcCCceEee-------cchhhhcccCccc--------------HHHHHHHH
Confidence            5889999999999999999997766    555677777       5566666666655              88999999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      +.+.  ...||+||||||+++.+     .|...+.+++.+++.+|+.+|+.+..-+..|..|+||++||++|+.....-.
T Consensus       276 ~~A~--~~aPcivFiDeIDAI~p-----kRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnRPDslDpaLRR  348 (802)
T KOG0733|consen  276 DQAK--SNAPCIVFIDEIDAITP-----KREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNRPDSLDPALRR  348 (802)
T ss_pred             HHHh--ccCCeEEEeeccccccc-----chhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCCCcccCHHHhc
Confidence            9887  55699999999999999     5666778899999999999999998777778999999999999987665445


Q ss_pred             HHhhccceEEE
Q 041690          177 KRWISSIFTVK  187 (233)
Q Consensus       177 ~~~~~~~~~i~  187 (233)
                      ..+|++-+.+.
T Consensus       349 aGRFdrEI~l~  359 (802)
T KOG0733|consen  349 AGRFDREICLG  359 (802)
T ss_pred             cccccceeeec
Confidence            55778765544

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.80  E-value=1.7e-19  Score=160.20  Aligned_cols=148  Identities=17%  Similarity=0.247  Sum_probs=117.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ..++++|++||||||||.||+++|.    +.|.+++-|       ..++.+..+.+++              +..++.+|
T Consensus       543 ~~PsGvLL~GPPGCGKTLlAKAVAN----Eag~NFisV-------KGPELlNkYVGES--------------ErAVR~vF  597 (802)
T KOG0733|consen  543 DAPSGVLLCGPPGCGKTLLAKAVAN----EAGANFISV-------KGPELLNKYVGES--------------ERAVRQVF  597 (802)
T ss_pred             CCCCceEEeCCCCccHHHHHHHHhh----hccCceEee-------cCHHHHHHHhhhH--------------HHHHHHHH
Confidence            3678999999999999999995554    666677766       6677777777765              77899999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..++  ...||+||+||++++.+     .|+........+++++|+.-++.+    .....|.||++||++|......+.
T Consensus       598 qRAR--~saPCVIFFDEiDaL~p-----~R~~~~s~~s~RvvNqLLtElDGl----~~R~gV~viaATNRPDiIDpAiLR  666 (802)
T KOG0733|consen  598 QRAR--ASAPCVIFFDEIDALVP-----RRSDEGSSVSSRVVNQLLTELDGL----EERRGVYVIAATNRPDIIDPAILR  666 (802)
T ss_pred             HHhh--cCCCeEEEecchhhcCc-----ccCCCCchhHHHHHHHHHHHhccc----ccccceEEEeecCCCcccchhhcC
Confidence            9887  55699999999999999     455455666778899999988888    455679999999999987777788


Q ss_pred             HHhhccceEEEec--CCccEEEeecc
Q 041690          177 KRWISSIFTVKGD--GPGSFLLRNKN  200 (233)
Q Consensus       177 ~~~~~~~~~i~~~--~~~~~~l~~~~  200 (233)
                      ..++|..+++...  .++.-+|..+.
T Consensus       667 PGRlDk~LyV~lPn~~eR~~ILK~~t  692 (802)
T KOG0733|consen  667 PGRLDKLLYVGLPNAEERVAILKTIT  692 (802)
T ss_pred             CCccCceeeecCCCHHHHHHHHHHHh
Confidence            9999999999864  33344444433

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.80  E-value=3.8e-20  Score=165.72  Aligned_cols=137  Identities=19%  Similarity=0.239  Sum_probs=112.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .|+..+|+|||||||||++|+.+|.    +.+.++++|       ..++.++.+.+++              +..++++|
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAn----e~~~nFlsv-------kgpEL~sk~vGeS--------------Er~ir~iF  520 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALAN----EAGMNFLSV-------KGPELFSKYVGES--------------ERAIREVF  520 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhh----hhcCCeeec-------cCHHHHHHhcCch--------------HHHHHHHH
Confidence            4889999999999999999997665    556788888       5677777777766              77999999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..++  +..|++||+|||+++..     +|+++..+...++.++|+..||.+    .....|+|+++||+++..+...+.
T Consensus       521 ~kAR--~~aP~IiFfDEiDsi~~-----~R~g~~~~v~~RVlsqLLtEmDG~----e~~k~V~ViAATNRpd~ID~ALlR  589 (693)
T KOG0730|consen  521 RKAR--QVAPCIIFFDEIDALAG-----SRGGSSSGVTDRVLSQLLTEMDGL----EALKNVLVIAATNRPDMIDPALLR  589 (693)
T ss_pred             HHHh--hcCCeEEehhhHHhHhh-----ccCCCccchHHHHHHHHHHHcccc----cccCcEEEEeccCChhhcCHHHcC
Confidence            9887  44599999999999998     555555566778888999999988    445689999999999887766666


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..++|.+++++..
T Consensus       590 PGRlD~iiyVplP  602 (693)
T KOG0730|consen  590 PGRLDRIIYVPLP  602 (693)
T ss_pred             CcccceeEeecCc
Confidence            7799999999974

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=99.77  E-value=2.1e-18  Score=147.75  Aligned_cols=167  Identities=16%  Similarity=0.296  Sum_probs=113.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      +|+.+||.|.||.|||||++|++..++ ..+ +|+||++|+....-.-+.. .++...   +++   |+-.+.++..+++
T Consensus        92 ~Gs~iLIgGdPGIGKSTLLLQva~~lA-~~~-~vLYVsGEES~~QiklRA~-RL~~~~---~~l---~l~aEt~~e~I~~  162 (456)
T COG1066          92 PGSVILIGGDPGIGKSTLLLQVAARLA-KRG-KVLYVSGEESLQQIKLRAD-RLGLPT---NNL---YLLAETNLEDIIA  162 (456)
T ss_pred             cccEEEEccCCCCCHHHHHHHHHHHHH-hcC-cEEEEeCCcCHHHHHHHHH-HhCCCc---cce---EEehhcCHHHHHH
Confidence            999999999999999999999999999 545 9999999954332111110 111000   133   3333445555555


Q ss_pred             HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHH
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYK  177 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~  177 (233)
                      .+.  +..|+++|||||+.++.....+..++..+.++.        ..++++..+.++..++++++........+-.+++
T Consensus       163 ~l~--~~~p~lvVIDSIQT~~s~~~~SapGsVsQVRe~--------t~~L~~~AK~~~i~~fiVGHVTKeG~IAGPrvLE  232 (456)
T COG1066         163 ELE--QEKPDLVVIDSIQTLYSEEITSAPGSVSQVREV--------AAELMRLAKTKNIAIFIVGHVTKEGAIAGPRVLE  232 (456)
T ss_pred             HHH--hcCCCEEEEeccceeecccccCCCCcHHHHHHH--------HHHHHHHHHHcCCeEEEEEEEcccccccCchhee
Confidence            444  344999999999999986433333333334433        2345556678899999999877543333334999


Q ss_pred             HhhccceEEEecCCccEEEeeccCcc
Q 041690          178 RWISSIFTVKGDGPGSFLLRNKNYSR  203 (233)
Q Consensus       178 ~~~~~~~~i~~~~~~~~~l~~~~~~~  203 (233)
                      |.+|++++++++....|++.+..+++
T Consensus       233 HmVDtVlyFEGd~~~~~RiLR~vKNR  258 (456)
T COG1066         233 HMVDTVLYFEGDRHSRYRILRSVKNR  258 (456)
T ss_pred             eeeeEEEEEeccCCCceeeeehhccc
Confidence            99999999999988899998865543

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.76  E-value=3.1e-18  Score=155.47  Aligned_cols=144  Identities=19%  Similarity=0.263  Sum_probs=110.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+.+++|+|||||||||.+|+++|.++.      .-|++.     ..++.+.+..+.+              ++++++.|
T Consensus       703 rkRSGILLYGPPGTGKTLlAKAVATEcs------L~FlSV-----KGPELLNMYVGqS--------------E~NVR~VF  757 (953)
T KOG0736|consen  703 RKRSGILLYGPPGTGKTLLAKAVATECS------LNFLSV-----KGPELLNMYVGQS--------------EENVREVF  757 (953)
T ss_pred             cccceeEEECCCCCchHHHHHHHHhhce------eeEEee-----cCHHHHHHHhcch--------------HHHHHHHH
Confidence            4789999999999999999997776444      445442     4466666655554              88999999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      +.++  ...||+||+||++++.+.+   .+.+++.+--.+++.||+.-+|.+-.-  ....|+||++||+||-.+...+.
T Consensus       758 erAR--~A~PCVIFFDELDSlAP~R---G~sGDSGGVMDRVVSQLLAELDgls~~--~s~~VFViGATNRPDLLDpALLR  830 (953)
T KOG0736|consen  758 ERAR--SAAPCVIFFDELDSLAPNR---GRSGDSGGVMDRVVSQLLAELDGLSDS--SSQDVFVIGATNRPDLLDPALLR  830 (953)
T ss_pred             HHhh--ccCCeEEEeccccccCccC---CCCCCccccHHHHHHHHHHHhhcccCC--CCCceEEEecCCCccccChhhcC
Confidence            9887  5559999999999999964   444555666667777777767776321  45679999999999877777788


Q ss_pred             HHhhccceEEEecCCc
Q 041690          177 KRWISSIFTVKGDGPG  192 (233)
Q Consensus       177 ~~~~~~~~~i~~~~~~  192 (233)
                      ..+||..+++....+.
T Consensus       831 PGRFDKLvyvG~~~d~  846 (953)
T KOG0736|consen  831 PGRFDKLVYVGPNEDA  846 (953)
T ss_pred             CCccceeEEecCCccH
Confidence            8999999999875443

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=99.74  E-value=7.3e-17  Score=134.20  Aligned_cols=188  Identities=18%  Similarity=0.187  Sum_probs=121.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCcccccccccccccC----CchhhhcceEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKRPYLSQSID----PSSHVFKLIQMKYVE   87 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~~~~~~~~~----~~~~~~~~i~~~~~~   87 (233)
                      +.|.++.|+||||||||.||.|++..+...     .+.+|+|||||+.|..  .++.++.+    ..+.++++|.+....
T Consensus        36 ~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~--~Rl~~i~~~~~~~~~~~l~~I~v~~~~  113 (256)
T PF08423_consen   36 PTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSP--ERLQQIAERFGLDPEEILDNIFVIRVF  113 (256)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-H--HHHHHHHHHTTS-HHHHHHTEEEEE-S
T ss_pred             CCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCH--HHHHHHhhccccccchhhhceeeeecC
Confidence            589999999999999999999999876532     3678999999976543  33333321    345677888887766


Q ss_pred             CHHHHHHHHHHhcc--cCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecC
Q 041690           88 DDEEIKKYFAAFHQ--HDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTH  165 (233)
Q Consensus        88 ~~~~l~~~~~~~~~--~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~  165 (233)
                      ....+..++..+..  .+...++|||||++++++....    +  .+......+.|..+...++.++.+....||++++.
T Consensus       114 ~~~~l~~~L~~l~~~l~~~~ikLIVIDSIaalfr~e~~----~--~~~~~~R~~~L~~~~~~L~~lA~~~~iaVvvTNqv  187 (256)
T PF08423_consen  114 DLEELLELLEQLPKLLSESKIKLIVIDSIAALFRSEFS----G--RGDLAERQRMLARLARILKRLARKYNIAVVVTNQV  187 (256)
T ss_dssp             SHHHHHHHHHHHHHHHHHSCEEEEEEETSSHHHHHHSG----S--TTTHHHHHHHHHHHHHHHHHHHHHTT-EEEEEEEE
T ss_pred             CHHHHHHHHHHHHhhccccceEEEEecchHHHHHHHHc----c--chhhHHHHHHHHHHHHHHHHHHHhCCceEEeecee
Confidence            66655555554321  1334899999999999985211    1  11122234566667777777777666555555542


Q ss_pred             --CC----------CCchhHHHHHHhhccceEEEec-C-CccEEEeeccCcccccccccceeeeEEe
Q 041690          166 --LG----------NSTRLLYIYKRWISSIFTVKGD-G-PGSFLLRNKNYSRSCGLGKTRIAKYSIA  218 (233)
Q Consensus       166 --~~----------~~~~~~~~~~~~~~~~~~i~~~-~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~  218 (233)
                        ..          ..|.+...|.|++...+.+... + .+...+.++.+.+      ...+.|.|.
T Consensus       188 ~~~~~~~~~~~~~~~~PalG~~w~h~~~~Rl~l~k~~~~~R~~~i~ksp~~p------~~~~~f~It  248 (256)
T PF08423_consen  188 TTKIDSNSLFDGDRLKPALGHSWSHAVTTRLFLSKGRGSERVATIVKSPSLP------EGSASFQIT  248 (256)
T ss_dssp             CSSTT----SSTTSEEETTHHHHHHHSSEEEEEEECSTTEEEEEEEECSSSS------SEEEEEEEE
T ss_pred             eecCCcccccccccceecCcchhhhhccEEEEEEeCCCCeEEEEEeECCCCC------CceEEEEEe
Confidence              11          2356788999999999999974 2 3445555544432      234566653

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=99.73  E-value=1.7e-16  Score=128.28  Aligned_cols=160  Identities=21%  Similarity=0.211  Sum_probs=97.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCC-chhhhcceEEEEecCHHH---
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDP-SSHVFKLIQMKYVEDDEE---   91 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~-~~~~~~~i~~~~~~~~~~---   91 (233)
                      .++|+.++|+||||||||+|+.+++.+.+ ..|.+++|+++|+   ..+.++.+.... .+...+++.+........   
T Consensus         9 i~~g~i~~i~G~~GsGKT~l~~~~~~~~~-~~g~~v~yi~~e~---~~~~rl~~~~~~~~~~~~~~i~~~~~~~~~~~~~   84 (209)
T TIGR02237         9 VERGTITQIYGPPGSGKTNICMILAVNAA-RQGKKVVYIDTEG---LSPERFKQIAEDRPERALSNFIVFEVFDFDEQGV   84 (209)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEECCC---CCHHHHHHHHHhChHHHhcCEEEEECCCHHHHHH
Confidence            35899999999999999999999999988 6689999999885   233444333221 123334665544433222   


Q ss_pred             -HHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHH-hhhcCCcEEEEeecCC---
Q 041690           92 -IKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITH-ANKKSPCKLLLSDTHL---  166 (233)
Q Consensus        92 -l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~-l~~~~~~vlvi~~~~~---  166 (233)
                       +..+...+.  +..+++||||+++++++..    ..+...    ...+.+..++..+.. +++.+.+++++++...   
T Consensus        85 ~~~~l~~~~~--~~~~~lvVIDSis~l~~~~----~~~~~~----~~~~~l~~~~~~L~~~~~~~~v~vl~t~~~~~~~~  154 (209)
T TIGR02237        85 AIQKTSKFID--RDSASLVVVDSFTALYRLE----LSDDRI----SRNRELARQLTLLLSLARKKNLAVVITNQVYTDVN  154 (209)
T ss_pred             HHHHHHHHHh--hcCccEEEEeCcHHHhHHH----hCCccH----HHHHHHHHHHHHHHHHHHHcCCEEEEEcccEEecC
Confidence             222222222  2349999999999998631    111111    111223333333333 3556666666655431   


Q ss_pred             --CCCchhHHHHHHhhccceEEEec
Q 041690          167 --GNSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       167 --~~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                        ...|.+.+.+.+|.+.++.+...
T Consensus       155 ~~~~~~~gg~~~~~~~d~vi~l~~~  179 (209)
T TIGR02237       155 NGTLRPLGGHLLEHWSKVILRLEKF  179 (209)
T ss_pred             CCCCcCCCcchhheeeeEEEEEEec
Confidence              12344555789999999999875

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=99.73  E-value=1.5e-16  Score=135.75  Aligned_cols=188  Identities=12%  Similarity=0.079  Sum_probs=109.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCccccccccccccc---C-CchhhhcceEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKRPYLSQSI---D-PSSHVFKLIQMKYVE   87 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~~~~~~~~---~-~~~~~~~~i~~~~~~   87 (233)
                      ++|++++|+||||||||+||+|++...+..     .+.+++||++|+.|.  ++++.++.   + +.+..++++.+....
T Consensus        94 ~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~--~eRi~~~a~~~g~d~~~~l~~i~~~~~~  171 (313)
T TIGR02238        94 ESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFR--PDRIRAIAERFGVDPDAVLDNILYARAY  171 (313)
T ss_pred             cCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCC--HHHHHHHHHHcCCChHHhcCcEEEecCC
Confidence            689999999999999999999999766522     357999999997543  23333222   1 234455666653333


Q ss_pred             CHHHHHHHHHHhc--ccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhh-hcCCcEEEEeec
Q 041690           88 DDEEIKKYFAAFH--QHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHAN-KKSPCKLLLSDT  164 (233)
Q Consensus        88 ~~~~l~~~~~~~~--~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~-~~~~~vlvi~~~  164 (233)
                      ..+...+++..+.  ..+..+++|||||++++++....+ +    . .....++.+..++..+..+. +.+.+++++.+.
T Consensus       172 ~~e~~~~~l~~l~~~i~~~~~~LvVIDSisal~r~~~~~-~----g-~~~~r~~~l~~~~~~L~~la~~~~vavvitNqv  245 (313)
T TIGR02238       172 TSEHQMELLDYLAAKFSEEPFRLLIVDSIMALFRVDFSG-R----G-ELSERQQKLAQMLSRLNKISEEFNVAVFVTNQV  245 (313)
T ss_pred             CHHHHHHHHHHHHHHhhccCCCEEEEEcchHhhhhhccC-c----c-chHHHHHHHHHHHHHHHHHHHHcCcEEEEECce
Confidence            3433333333221  113358999999999998842111 1    0 01111222344444444443 445555555433


Q ss_pred             CC-----------CCCchhHHHHHHhhccceEEEec--CCccEEEeeccCcccccccccceeeeEEe
Q 041690          165 HL-----------GNSTRLLYIYKRWISSIFTVKGD--GPGSFLLRNKNYSRSCGLGKTRIAKYSIA  218 (233)
Q Consensus       165 ~~-----------~~~~~~~~~~~~~~~~~~~i~~~--~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  218 (233)
                      ..           +-.|.+...+.|+++..+.+...  +.+...+.++.+.+      ...|.|.|.
T Consensus       246 ~~~~~~~~~~~~~~~~p~gG~~~~h~~~~Rl~l~k~~~~~R~~~~~~sp~~p------~~~~~f~i~  306 (313)
T TIGR02238       246 QADPGATMTFIADPKKPIGGHVLAHASTTRILLRKGRGEERVAKLYDSPDMP------EAEASFQIT  306 (313)
T ss_pred             EecCCcccccCCCCccCcchhhhhhheeEEEEEEecCCCeEEEEEeeCCCCC------CeEEEEEEe
Confidence            21           12456677999999999999973  23334444444332      234667654

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.73  E-value=2.3e-17  Score=136.09  Aligned_cols=136  Identities=18%  Similarity=0.219  Sum_probs=106.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .|-+.+|||||||+|||-||+++|.    +.+..++-|       ++...++.|++++              ...++.+|
T Consensus       164 ~PwrgiLLyGPPGTGKSYLAKAVAT----EAnSTFFSv-------SSSDLvSKWmGES--------------EkLVknLF  218 (439)
T KOG0739|consen  164 KPWRGILLYGPPGTGKSYLAKAVAT----EANSTFFSV-------SSSDLVSKWMGES--------------EKLVKNLF  218 (439)
T ss_pred             CcceeEEEeCCCCCcHHHHHHHHHh----hcCCceEEe-------ehHHHHHHHhccH--------------HHHHHHHH
Confidence            3678999999999999999996554    555555555       4566778888776              67888999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      +.++  ++.|+|||||||+++..     .|+.+..+..+++...++..|+...   .....++|++++|.+-...  .++
T Consensus       219 emAR--e~kPSIIFiDEiDslcg-----~r~enEseasRRIKTEfLVQMqGVG---~d~~gvLVLgATNiPw~LD--sAI  286 (439)
T KOG0739|consen  219 EMAR--ENKPSIIFIDEIDSLCG-----SRSENESEASRRIKTEFLVQMQGVG---NDNDGVLVLGATNIPWVLD--SAI  286 (439)
T ss_pred             HHHH--hcCCcEEEeehhhhhcc-----CCCCCchHHHHHHHHHHHHhhhccc---cCCCceEEEecCCCchhHH--HHH
Confidence            9888  56699999999998887     5666777777788888888887764   3456799999999886443  367


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      +|+|+..++|+-.
T Consensus       287 RRRFekRIYIPLP  299 (439)
T KOG0739|consen  287 RRRFEKRIYIPLP  299 (439)
T ss_pred             HHHhhcceeccCC
Confidence            8888888888854

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=99.72  E-value=3.4e-16  Score=134.61  Aligned_cols=197  Identities=14%  Similarity=0.085  Sum_probs=114.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCccccccccccccc---C-CchhhhcceEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKRPYLSQSI---D-PSSHVFKLIQMKYVE   87 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~~~~~~~~---~-~~~~~~~~i~~~~~~   87 (233)
                      ++|++++|+||||||||+||+|++.+.+..     .+.+++||++|+.|..  +++.++.   + +.+.++++|.+....
T Consensus       124 ~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~p--eRl~~ia~~~g~d~~~~l~~I~~~~~~  201 (344)
T PLN03187        124 ETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRP--DRIVPIAERFGMDADAVLDNIIYARAY  201 (344)
T ss_pred             CCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCH--HHHHHHHHHcCCChhhhcCeEEEecCC
Confidence            699999999999999999999999876531     1469999999975532  3333321   1 234455666654444


Q ss_pred             CHHHHHHHHHHhc--ccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh-hhcCCcEEEEeec
Q 041690           88 DDEEIKKYFAAFH--QHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA-NKKSPCKLLLSDT  164 (233)
Q Consensus        88 ~~~~l~~~~~~~~--~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-~~~~~~vlvi~~~  164 (233)
                      ..+.+..++..+.  ..+..+++|||||++++++....+ +     +.....++.+..++..+..+ ++.+.+++++...
T Consensus       202 ~~e~~~~~l~~l~~~i~~~~~~LvVIDSital~r~~~~~-r-----g~l~~rq~~L~~~~~~L~~lA~~~~vavvvTNqv  275 (344)
T PLN03187        202 TYEHQYNLLLGLAAKMAEEPFRLLIVDSVIALFRVDFTG-R-----GELAERQQKLAQMLSRLTKIAEEFNVAVYMTNQV  275 (344)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHhhhccccC-c-----cchHHHHHHHHHHHHHHHHHHHHcCCEEEEEecE
Confidence            4443333333221  113348999999999998842111 1     11111123344444444444 4456656555443


Q ss_pred             C-CC---------CCchhHHHHHHhhccceEEEecCCccEEEeeccCcccccccccceeeeEEeeehhhccCCCcc
Q 041690          165 H-LG---------NSTRLLYIYKRWISSIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITDD  230 (233)
Q Consensus       165 ~-~~---------~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  230 (233)
                      . .+         ..|.+...+.|++...+.+.... +..++.+...+++  .. ...+.|.|.-     +||.|.
T Consensus       276 ~~~~~~~~~~~~~~~pagG~~~~h~~~~Rl~l~k~~-~~~R~~~v~ksp~--lp-~~~~~f~It~-----~GI~d~  342 (344)
T PLN03187        276 IADPGGGMFISDPKKPAGGHVLAHAATIRLMLRKGK-GEQRVCKVFDAPN--LP-EAEAEFQITS-----GGIMDA  342 (344)
T ss_pred             EEcCCcccccCCCCCCCCchhhheeeeEEEEEEcCC-CCeEEEEEEECCC--CC-CceEEEEEeC-----CCccCC
Confidence            2 11         14667789999999999999742 2333444333332  22 2235677654     555543

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.70  E-value=6.7e-17  Score=137.32  Aligned_cols=139  Identities=16%  Similarity=0.175  Sum_probs=105.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .|-..+|++||||||||.||+++|.    +.+..++-|       ++....+.+.+++              ++.++-+|
T Consensus       243 rPWkgvLm~GPPGTGKTlLAKAvAT----Ec~tTFFNV-------SsstltSKwRGeS--------------EKlvRlLF  297 (491)
T KOG0738|consen  243 RPWKGVLMVGPPGTGKTLLAKAVAT----ECGTTFFNV-------SSSTLTSKWRGES--------------EKLVRLLF  297 (491)
T ss_pred             cccceeeeeCCCCCcHHHHHHHHHH----hhcCeEEEe-------chhhhhhhhccch--------------HHHHHHHH
Confidence            5888999999999999999997665    444555556       3344455665555              67888888


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCC-cchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTN-PRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYI  175 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~  175 (233)
                      +.++.  ..|++||||||+++..     +|++. ..+..+++...|+.+|+.+..-......|+|+++||.|-...  -+
T Consensus       298 emARf--yAPStIFiDEIDslcs-----~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmVLAATN~PWdiD--EA  368 (491)
T KOG0738|consen  298 EMARF--YAPSTIFIDEIDSLCS-----QRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVMVLAATNFPWDID--EA  368 (491)
T ss_pred             HHHHH--hCCceeehhhHHHHHh-----cCCCccchhHHHHHHHHHHHHhhccccccccceeEEEEeccCCCcchH--HH
Confidence            88873  3499999999999998     55544 455666778999999999987666667789999999886543  36


Q ss_pred             HHHhhccceEEEec
Q 041690          176 YKRWISSIFTVKGD  189 (233)
Q Consensus       176 ~~~~~~~~~~i~~~  189 (233)
                      ++|++...++|+-.
T Consensus       369 lrRRlEKRIyIPLP  382 (491)
T KOG0738|consen  369 LRRRLEKRIYIPLP  382 (491)
T ss_pred             HHHHHhhheeeeCC
Confidence            77777877777753

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=99.70  E-value=3.5e-17  Score=132.35  Aligned_cols=141  Identities=15%  Similarity=0.226  Sum_probs=101.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .|++++|+|||||||||.|++++|.+..    ..++-+       ...+|+...+++.              ...+++.|
T Consensus       187 dpprgvllygppg~gktml~kava~~t~----a~firv-------vgsefvqkylgeg--------------prmvrdvf  241 (408)
T KOG0727|consen  187 DPPRGVLLYGPPGTGKTMLAKAVANHTT----AAFIRV-------VGSEFVQKYLGEG--------------PRMVRDVF  241 (408)
T ss_pred             CCCcceEEeCCCCCcHHHHHHHHhhccc----hheeee-------ccHHHHHHHhccC--------------cHHHHHHH
Confidence            4889999999999999999996665332    233333       2344555444433              66889999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..++  ++.|++|||||++++..     +|.+.+.+.++..++.|.++++.+..+. +...+-+|.++|+.+......+.
T Consensus       242 rlak--enapsiifideidaiat-----krfdaqtgadrevqril~ellnqmdgfd-q~~nvkvimatnradtldpallr  313 (408)
T KOG0727|consen  242 RLAK--ENAPSIIFIDEIDAIAT-----KRFDAQTGADREVQRILIELLNQMDGFD-QTTNVKVIMATNRADTLDPALLR  313 (408)
T ss_pred             HHHh--ccCCcEEEeehhhhHhh-----hhccccccccHHHHHHHHHHHHhccCcC-cccceEEEEecCcccccCHhhcC
Confidence            9887  67799999999999998     6777777788888888888877776553 34456667777776655555566


Q ss_pred             HHhhccceEEEecC
Q 041690          177 KRWISSIFTVKGDG  190 (233)
Q Consensus       177 ~~~~~~~~~i~~~~  190 (233)
                      ..++++.++++-.+
T Consensus       314 pgrldrkiefplpd  327 (408)
T KOG0727|consen  314 PGRLDRKIEFPLPD  327 (408)
T ss_pred             CccccccccCCCCc
Confidence            77888877777543

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=99.70  E-value=9.6e-16  Score=125.25  Aligned_cols=162  Identities=15%  Similarity=0.159  Sum_probs=96.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccC-CchhhhcceEEEEecCHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSID-PSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~-~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      ++|.+++|+||||+|||+||.+++.+.+ ..+.+|+|+++|.   ..++++.+... ..+...+++.+........+...
T Consensus        21 ~~g~i~~i~G~~GsGKT~l~~~la~~~~-~~~~~v~yi~~e~---~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (225)
T PRK09361         21 ERGTITQIYGPPGSGKTNICLQLAVEAA-KNGKKVIYIDTEG---LSPERFKQIAGEDFEELLSNIIIFEPSSFEEQSEA   96 (225)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEECCC---CCHHHHHHHHhhChHhHhhCeEEEeCCCHHHHHHH
Confidence            6899999999999999999999999988 6789999999882   22233333322 12334445555433333332222


Q ss_pred             HHHhc-ccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHH-HhhhcCCcEEEEeecCCC-----C
Q 041690           96 FAAFH-QHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAIT-HANKKSPCKLLLSDTHLG-----N  168 (233)
Q Consensus        96 ~~~~~-~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~-~l~~~~~~vlvi~~~~~~-----~  168 (233)
                      +..+. .....+++||||++++++....    .+.....  ...+.+..++..+. .+++.+.+++++.+....     .
T Consensus        97 i~~~~~~~~~~~~lvVIDsi~al~~~~~----~~~~~~~--~~~~~l~~~l~~L~~~a~~~~v~vi~tnq~~~~~~~~~~  170 (225)
T PRK09361         97 IRKAEKLAKENVGLIVLDSATSLYRLEL----EDEEDNS--KLNRELGRQLTHLLKLARKHDLAVVITNQVYSDIDSDGL  170 (225)
T ss_pred             HHHHHHHHHhcccEEEEeCcHHHhHHHh----cCCccHH--HHHHHHHHHHHHHHHHHHHhCCEEEEEccceecCCCCcc
Confidence            22211 1113489999999999986310    0001111  11122222222233 334567777776655421     1


Q ss_pred             CchhHHHHHHhhccceEEEe
Q 041690          169 STRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .+.+.+.+++|++.++.+..
T Consensus       171 ~~~gg~~~~~~~d~ii~l~~  190 (225)
T PRK09361        171 RPLGGHTLEHWSKTILRLEK  190 (225)
T ss_pred             cCCCcchhhhhccEEEEEEE
Confidence            34455689999999999987

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.69  E-value=6.4e-17  Score=142.11  Aligned_cols=136  Identities=15%  Similarity=0.216  Sum_probs=98.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      -+.++||.||||||||.||+++    +.+.+-+++|.++-       +|-....+..              ...++++|+
T Consensus       336 LPKGVLLvGPPGTGKTlLARAv----AGEA~VPFF~~sGS-------EFdEm~VGvG--------------ArRVRdLF~  390 (752)
T KOG0734|consen  336 LPKGVLLVGPPGTGKTLLARAV----AGEAGVPFFYASGS-------EFDEMFVGVG--------------ARRVRDLFA  390 (752)
T ss_pred             CCCceEEeCCCCCchhHHHHHh----hcccCCCeEecccc-------chhhhhhccc--------------HHHHHHHHH
Confidence            4568999999999999999954    44777888887532       2211111111              678999999


Q ss_pred             HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHH
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYK  177 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~  177 (233)
                      .++  ...|||||||||+++-.     .|..........-.+||+.-||.+    +++..+|+|++||.++..+-..+..
T Consensus       391 aAk--~~APcIIFIDEiDavG~-----kR~~~~~~y~kqTlNQLLvEmDGF----~qNeGiIvigATNfpe~LD~AL~RP  459 (752)
T KOG0734|consen  391 AAK--ARAPCIIFIDEIDAVGG-----KRNPSDQHYAKQTLNQLLVEMDGF----KQNEGIIVIGATNFPEALDKALTRP  459 (752)
T ss_pred             HHH--hcCCeEEEEechhhhcc-----cCCccHHHHHHHHHHHHHHHhcCc----CcCCceEEEeccCChhhhhHHhcCC
Confidence            988  44599999999999987     443333333333346666666666    5677899999999998777677778


Q ss_pred             HhhccceEEEec
Q 041690          178 RWISSIFTVKGD  189 (233)
Q Consensus       178 ~~~~~~~~i~~~  189 (233)
                      .+||..+.++..
T Consensus       460 GRFD~~v~Vp~P  471 (752)
T KOG0734|consen  460 GRFDRHVTVPLP  471 (752)
T ss_pred             CccceeEecCCC
Confidence            899999988863

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=99.68  E-value=1e-16  Score=131.85  Aligned_cols=140  Identities=16%  Similarity=0.205  Sum_probs=99.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .|+.++++||+||+|||.||+++|.    +....++-+       -..+.+...+++.              ...++++|
T Consensus       217 kpPKGVIlyG~PGTGKTLLAKAVAN----qTSATFlRv-------vGseLiQkylGdG--------------pklvRqlF  271 (440)
T KOG0726|consen  217 KPPKGVILYGEPGTGKTLLAKAVAN----QTSATFLRV-------VGSELIQKYLGDG--------------PKLVRELF  271 (440)
T ss_pred             CCCCeeEEeCCCCCchhHHHHHHhc----ccchhhhhh-------hhHHHHHHHhccc--------------hHHHHHHH
Confidence            4888999999999999999995544    322222222       1112222222222              66888999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  +..|+++|||||+++-.     .|++.+++.++.+++++++++|.+.-+..+|. |-||.++|..+......+.
T Consensus       272 ~vA~--e~apSIvFiDEIdAiGt-----KRyds~SggerEiQrtmLELLNQldGFdsrgD-vKvimATnrie~LDPaLiR  343 (440)
T KOG0726|consen  272 RVAE--EHAPSIVFIDEIDAIGT-----KRYDSNSGGEREIQRTMLELLNQLDGFDSRGD-VKVIMATNRIETLDPALIR  343 (440)
T ss_pred             HHHH--hcCCceEEeehhhhhcc-----ccccCCCccHHHHHHHHHHHHHhccCccccCC-eEEEEecccccccCHhhcC
Confidence            9887  55599999999999988     78888888889999999999999887766554 4555666665555555577


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+.|+.+.++..
T Consensus       344 PGrIDrKIef~~p  356 (440)
T KOG0726|consen  344 PGRIDRKIEFPLP  356 (440)
T ss_pred             CCccccccccCCC
Confidence            7788887777653

>cd01394 radB RadB

Probab=99.68  E-value=9.8e-16  Score=124.58  Aligned_cols=164  Identities=16%  Similarity=0.121  Sum_probs=96.5

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCC-chhhhcceEEEEecCHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDP-SSHVFKLIQMKYVEDDEEIKK   94 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~-~~~~~~~i~~~~~~~~~~l~~   94 (233)
                      .++|++++|+|+||||||+|+.+++...+ ..|.+++|+++++.+.   +++.+..+. .+....++.+........+..
T Consensus        16 i~~g~i~~i~G~~GsGKT~l~~~~a~~~~-~~g~~v~yi~~e~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (218)
T cd01394          16 VERGTVTQVYGPPGTGKTNIAIQLAVETA-GQGKKVAYIDTEGLSS---ERFRQIAGDRPERAASSIIVFEPMDFNEQGR   91 (218)
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEECCCCCH---HHHHHHHhHChHhhhcCEEEEeCCCHHHHHH
Confidence            35899999999999999999999999988 6689999999886443   222222211 111223444433332222222


Q ss_pred             HHHHhc-ccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh-hhcCCcEEEEeecCCC-----
Q 041690           95 YFAAFH-QHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA-NKKSPCKLLLSDTHLG-----  167 (233)
Q Consensus        95 ~~~~~~-~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-~~~~~~vlvi~~~~~~-----  167 (233)
                      .+..+. .....+++||||++++++...    ..+...  .....+.+..++..+..+ ++.+.+++++++.+..     
T Consensus        92 ~~~~~~~~~~~~~~lvvIDsi~~l~~~~----~~~~~~--~~~~~~~l~~~~~~L~~~a~~~~~~vi~t~q~~~~~~~~~  165 (218)
T cd01394          92 AIQETETFADEKVDLVVVDSATALYRLE----LGDDDT--TIKNYRELAKQLTFLLWLARKHDVAVVITNQVYSDVGSGS  165 (218)
T ss_pred             HHHHHHHHHhcCCcEEEEechHHhhhHH----hcCccc--hHHHHHHHHHHHHHHHHHHHHhCCEEEEecCCEEcCCCCc
Confidence            222111 112238999999999997631    111111  111222333444444443 5567777777665421     


Q ss_pred             CCchhHHHHHHhhccceEEEec
Q 041690          168 NSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      ..|.+...+.++++.++.+...
T Consensus       166 ~~p~~g~~~~~~~d~~i~l~~~  187 (218)
T cd01394         166 VRPLGGHTLEHWSKVILRLEKL  187 (218)
T ss_pred             ccccCCcchhcceeEEEEEEEc
Confidence            2244445689999999999975

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=99.68  E-value=2.4e-15  Score=129.50  Aligned_cols=189  Identities=11%  Similarity=0.079  Sum_probs=110.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCccccccccccccc---C-CchhhhcceEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKRPYLSQSI---D-PSSHVFKLIQMKYVE   87 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~~~~~~~~---~-~~~~~~~~i~~~~~~   87 (233)
                      ++|.+++|+|+||+|||+||.+++......     .+.+|+||++|+.|..  +++.++.   + +.+..++++......
T Consensus       121 ~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~--eRl~qia~~~~~~~~~~l~~i~~~~~~  198 (342)
T PLN03186        121 ETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRP--QRLIQIAERFGLNGADVLENVAYARAY  198 (342)
T ss_pred             cCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccH--HHHHHHHHHcCCChhhhccceEEEecC
Confidence            689999999999999999999999765521     2358999999975532  3333322   1 233455566554433


Q ss_pred             CHHHHHHHHHHhc--ccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeec
Q 041690           88 DDEEIKKYFAAFH--QHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDT  164 (233)
Q Consensus        88 ~~~~l~~~~~~~~--~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~  164 (233)
                      ..+.+..++..+.  .....+++|||||++++++....     .... ....+..|..++..+..+... +.+++++.+.
T Consensus       199 ~~e~~~~ll~~~~~~~~~~~~~LIVIDSI~alfr~~~~-----~~g~-l~~r~~~L~~~l~~L~~lA~~~~vaVviTNqv  272 (342)
T PLN03186        199 NTDHQSELLLEAASMMAETRFALMIVDSATALYRTEFS-----GRGE-LSARQMHLGKFLRSLQRLADEFGVAVVITNQV  272 (342)
T ss_pred             CHHHHHHHHHHHHHHhhccCCCEEEEeCcHHHHHHHhc-----CCcc-HHHHHHHHHHHHHHHHHHHHHcCCEEEEEcCE
Confidence            3443333333221  11345999999999999874211     1111 111222344555555555544 5555555433


Q ss_pred             C-CC----------CCchhHHHHHHhhccceEEEec--CCccEEEeeccCcccccccccceeeeEEee
Q 041690          165 H-LG----------NSTRLLYIYKRWISSIFTVKGD--GPGSFLLRNKNYSRSCGLGKTRIAKYSIAL  219 (233)
Q Consensus       165 ~-~~----------~~~~~~~~~~~~~~~~~~i~~~--~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  219 (233)
                      . ..          -.|.+..++.|+++..+.+.+.  +.+...+.++...+     . ..|.|.|.-
T Consensus       273 ~~~~~~~~~~~~~~~~P~gG~~~~h~~~tRl~L~k~~~~~R~~~v~ksp~~p-----~-~e~~F~I~~  334 (342)
T PLN03186        273 VAQVDGSAFFAGPQLKPIGGNIMAHASTTRLALRKGRGENRICKVISSPCLP-----E-AEARFSISS  334 (342)
T ss_pred             EEccCCccccCCCccccchhHHHHhhccEEEEEEecCCCeEEEEEEECCCCC-----C-eEEEEEEEC
Confidence            1 11          1566788999999999999963  22334444443332     1 236676543

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.66  E-value=1.1e-16  Score=136.68  Aligned_cols=151  Identities=11%  Similarity=-0.001  Sum_probs=98.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      ..++.+++|+||||||||.+|+.+|.    +.|..++.++       ..+..+.+.+++              +..++++
T Consensus       145 ik~PlgllL~GPPGcGKTllAraiA~----elg~~~i~vs-------a~eL~sk~vGEs--------------Ek~IR~~  199 (413)
T PLN00020        145 IKVPLILGIWGGKGQGKSFQCELVFK----KMGIEPIVMS-------AGELESENAGEP--------------GKLIRQR  199 (413)
T ss_pred             CCCCeEEEeeCCCCCCHHHHHHHHHH----HcCCCeEEEE-------HHHhhcCcCCcH--------------HHHHHHH
Confidence            46889999999999999999997776    4456677774       445555555554              7789999


Q ss_pred             HHHhccc---CCCCcEEEEeCCCccccccccccccCCcchhhHHHH-HHHHHHHHHHH--------HhhhcCCcEEEEee
Q 041690           96 FAAFHQH---DKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMV-RTLALCYNAIT--------HANKKSPCKLLLSD  163 (233)
Q Consensus        96 ~~~~~~~---~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~l~~~~~--------~l~~~~~~vlvi~~  163 (233)
                      |..+...   ...|++||||||++++..     +++.......+++ .+|+.++|...        +.......|+||++
T Consensus       200 F~~A~~~a~~~~aPcVLFIDEIDA~~g~-----r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaT  274 (413)
T PLN00020        200 YREAADIIKKKGKMSCLFINDLDAGAGR-----FGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVT  274 (413)
T ss_pred             HHHHHHHhhccCCCeEEEEehhhhcCCC-----CCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEe
Confidence            9877532   345999999999999984     3322222223333 56666655321        12234556888999


Q ss_pred             cCCCCCchhHHHHHHhhccceEEEecCCccEEE
Q 041690          164 THLGNSTRLLYIYKRWISSIFTVKGDGPGSFLL  196 (233)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l  196 (233)
                      +|.++......+...+++..+.++...++.-++
T Consensus       275 TNrpd~LDpALlRpGRfDk~i~lPd~e~R~eIL  307 (413)
T PLN00020        275 GNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVV  307 (413)
T ss_pred             CCCcccCCHhHcCCCCCCceeCCCCHHHHHHHH
Confidence            998875544434444788777655434333333

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=99.66  E-value=6.2e-15  Score=126.17  Aligned_cols=178  Identities=13%  Similarity=0.077  Sum_probs=102.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCccccccccccccc---C-CchhhhcceEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKRPYLSQSI---D-PSSHVFKLIQMKYVE   87 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~~~~~~~~---~-~~~~~~~~i~~~~~~   87 (233)
                      +.|++++|+||||||||+||.|++.+++..     .+.+++||++|+.|..  +++.+..   + ......+++.+....
T Consensus        93 ~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~--~rl~~~~~~~gl~~~~~~~~i~i~~~~  170 (310)
T TIGR02236        93 ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRP--ERIMQMAEARGLDPDEVLKNIYVARAY  170 (310)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCH--HHHHHHHHHcCCCHHHHhhceEEEecC
Confidence            589999999999999999999999887631     2348999999975432  2222221   1 122234455553332


Q ss_pred             CHHH----HHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHH-HhhhcCCcEEEEe
Q 041690           88 DDEE----IKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAIT-HANKKSPCKLLLS  162 (233)
Q Consensus        88 ~~~~----l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~-~l~~~~~~vlvi~  162 (233)
                      ..+.    +..+...+......+++|||||++++++....     .. +......+.+..++..+. .+++.+.+++++.
T Consensus       171 ~~~~~~~lld~l~~~i~~~~~~~~lVVIDSisa~~r~e~~-----~~-~~~~~r~~~l~~~~~~L~~~a~~~~~~v~~tn  244 (310)
T TIGR02236       171 NSNHQMLLVEKAEDLIKELNNPVKLLIVDSLTSHFRAEYV-----GR-GALAERQQKLNKHLHDLLRLADLYNAAVVVTN  244 (310)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCceEEEEecchHhhhHhhc-----Cc-hhHHHHHHHHHHHHHHHHHHHHHhCcEEEEec
Confidence            2221    22222222221213789999999999874211     11 111111122333333333 3345566666665


Q ss_pred             ecCC--------CCCchhHHHHHHhhccceEEEec--CCccEEEeeccCc
Q 041690          163 DTHL--------GNSTRLLYIYKRWISSIFTVKGD--GPGSFLLRNKNYS  202 (233)
Q Consensus       163 ~~~~--------~~~~~~~~~~~~~~~~~~~i~~~--~~~~~~l~~~~~~  202 (233)
                      +...        +..|.+..++.|+++.++.+...  +.+...+.++.+.
T Consensus       245 qv~~~~~~~~~~~~~~~~G~~~~h~~~~rl~l~~~~~~~R~~~~~k~~~~  294 (310)
T TIGR02236       245 QVMARPDAFFGDPTRPIGGHILGHAATFRVYLRKGKGDKRIARLVDSPHL  294 (310)
T ss_pred             eeeecCccccCccccCCcchhhhhheeEEEEEEecCCCeEEEEEEECCCC
Confidence            4321        12566778999999999999973  3344556665544

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=99.66  E-value=3.1e-16  Score=127.47  Aligned_cols=147  Identities=18%  Similarity=0.220  Sum_probs=104.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccc-cCCchhhhcceEEEEecCHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQS-IDPSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~-~~~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      .|+.++|+|||||+|||.+|++-|.    +....++-+        ..+.+.|+ .++.              ...++..
T Consensus       203 ~pPKGvLmYGPPGTGKTlmARAcAa----qT~aTFLKL--------AgPQLVQMfIGdG--------------AkLVRDA  256 (424)
T KOG0652|consen  203 RPPKGVLMYGPPGTGKTLMARACAA----QTNATFLKL--------AGPQLVQMFIGDG--------------AKLVRDA  256 (424)
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHH----hccchHHHh--------cchHHHhhhhcch--------------HHHHHHH
Confidence            5889999999999999999994332    333222222        12222222 2222              6688999


Q ss_pred             HHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHH
Q 041690           96 FAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYI  175 (233)
Q Consensus        96 ~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~  175 (233)
                      |+.+.  +..|++|||||++++-.     +|.++....++..+++++++++.+..+.+ ...+-+++++|+.+......+
T Consensus       257 FaLAK--EkaP~IIFIDElDAIGt-----KRfDSek~GDREVQRTMLELLNQLDGFss-~~~vKviAATNRvDiLDPALl  328 (424)
T KOG0652|consen  257 FALAK--EKAPTIIFIDELDAIGT-----KRFDSEKAGDREVQRTMLELLNQLDGFSS-DDRVKVIAATNRVDILDPALL  328 (424)
T ss_pred             HHHhh--ccCCeEEEEechhhhcc-----ccccccccccHHHHHHHHHHHHhhcCCCC-ccceEEEeecccccccCHHHh
Confidence            99887  56699999999999988     56666666777889999999998876644 456778899998877666667


Q ss_pred             HHHhhccceEEEec-CCccEEEe
Q 041690          176 YKRWISSIFTVKGD-GPGSFLLR  197 (233)
Q Consensus       176 ~~~~~~~~~~i~~~-~~~~~~l~  197 (233)
                      ...++++.+.++.. ...+.++.
T Consensus       329 RSGRLDRKIEfP~Pne~aRarIl  351 (424)
T KOG0652|consen  329 RSGRLDRKIEFPHPNEEARARIL  351 (424)
T ss_pred             hcccccccccCCCCChHHHHHHH
Confidence            78889998888863 33333333

>PTZ00035 Rad51 protein; Provisional

Probab=99.65  E-value=7.2e-15  Score=126.67  Aligned_cols=165  Identities=13%  Similarity=0.119  Sum_probs=99.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCcccccccccccc---cC-CchhhhcceEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKRPYLSQS---ID-PSSHVFKLIQMKYVE   87 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~~~~~~~---~~-~~~~~~~~i~~~~~~   87 (233)
                      ++|++++|+||||||||+|+++++......     .+.+++||++|+.+..  +++.+.   .+ ..+.+++++.+....
T Consensus       116 ~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~--eri~~ia~~~g~~~~~~l~nI~~~~~~  193 (337)
T PTZ00035        116 ETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRP--ERIVQIAERFGLDPEDVLDNIAYARAY  193 (337)
T ss_pred             CCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCH--HHHHHHHHHhCCChHhHhhceEEEccC
Confidence            689999999999999999999998766521     4678999999975432  222221   11 233455676654444


Q ss_pred             CHHHHHHHHHHhc--ccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhh-cCCcEEEEeec
Q 041690           88 DDEEIKKYFAAFH--QHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANK-KSPCKLLLSDT  164 (233)
Q Consensus        88 ~~~~l~~~~~~~~--~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~-~~~~vlvi~~~  164 (233)
                      ..+.+..++..+.  ..+..+++|||||++++++....+     . ......++.+..++..+..+.+ .+.+++++.+.
T Consensus       194 ~~e~~~~~l~~~~~~l~~~~~~lvVIDSital~r~~~~~-----~-~~~~~r~~~l~~~~~~L~~la~~~~vavvvtNqv  267 (337)
T PTZ00035        194 NHEHQMQLLSQAAAKMAEERFALLIVDSATALFRVDYSG-----R-GELAERQQHLGKFLRALQKLADEFNVAVVITNQV  267 (337)
T ss_pred             CHHHHHHHHHHHHHHhhccCccEEEEECcHHhhhhhccC-----c-ccHHHHHHHHHHHHHHHHHHHHHcCcEEEEecce
Confidence            4333333332211  113458999999999988742110     1 0111122334445555555444 45555554432


Q ss_pred             C-C----------CCCchhHHHHHHhhccceEEEec
Q 041690          165 H-L----------GNSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       165 ~-~----------~~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      . .          +..|.+..++.|+....+.+...
T Consensus       268 ~~~~~~~~~~~~~~~~p~gG~~~~h~~~~Rl~l~k~  303 (337)
T PTZ00035        268 MADVDGASMFVADPKKPIGGHIIAHASTTRLSLRKG  303 (337)
T ss_pred             EEecCCccccCCCCccCCchHHHHhheeEEEEEEec
Confidence            2 1          12356778999999999999974

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=99.64  E-value=1.9e-14  Score=123.02  Aligned_cols=189  Identities=11%  Similarity=0.082  Sum_probs=109.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc--C---CCeEEEEecCCccccccccccc---ccC-CchhhhcceEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ--S---NANVVFMCNRSRLQSKRPYLSQ---SID-PSSHVFKLIQMKYVE   87 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~--~---g~~v~yi~~e~~l~~~~~~~~~---~~~-~~~~~~~~i~~~~~~   87 (233)
                      ++|.+++|+||||+|||+|+++++..+...  .   +.+++||++|+.+...  ++.+   ..+ ..+.+.+++.+....
T Consensus        94 ~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~--Rl~~ia~~~~~~~~~~l~~i~~~~~~  171 (316)
T TIGR02239        94 ETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPE--RLLAIAERYGLNPEDVLDNVAYARAY  171 (316)
T ss_pred             CCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHH--HHHHHHHHcCCChHHhhccEEEEecC
Confidence            689999999999999999999998754421  2   2589999999754322  2211   111 233455566553333


Q ss_pred             CHHHHHHHHHHhc--ccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhh-cCCcEEEEeec
Q 041690           88 DDEEIKKYFAAFH--QHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANK-KSPCKLLLSDT  164 (233)
Q Consensus        88 ~~~~l~~~~~~~~--~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~-~~~~vlvi~~~  164 (233)
                      ..+.+..++..+.  .....+++|||||++++++....     .. ......+..|..++..+..+.+ .+.+++++.+.
T Consensus       172 ~~~~~~~~l~~~~~~~~~~~~~LvVIDSI~al~r~~~~-----~~-~~~~~rq~~l~~~~~~L~~la~~~~vavv~tNqv  245 (316)
T TIGR02239       172 NTDHQLQLLQQAAAMMSESRFALLIVDSATALYRTDFS-----GR-GELSARQMHLARFLRSLQRLADEFGVAVVITNQV  245 (316)
T ss_pred             ChHHHHHHHHHHHHhhccCCccEEEEECcHHHhhhhcC-----Cc-chHHHHHHHHHHHHHHHHHHHHHhCCEEEEECce
Confidence            3333333333221  11345899999999999874211     11 1111122334445555555544 45555555443


Q ss_pred             C---C---------CCCchhHHHHHHhhccceEEEec--CCccEEEeeccCcccccccccceeeeEEee
Q 041690          165 H---L---------GNSTRLLYIYKRWISSIFTVKGD--GPGSFLLRNKNYSRSCGLGKTRIAKYSIAL  219 (233)
Q Consensus       165 ~---~---------~~~~~~~~~~~~~~~~~~~i~~~--~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  219 (233)
                      .   .         +..|.+...+.|+++.++.+.+.  +.|...+.++.+.+      ...|.|.|.-
T Consensus       246 ~~~~~~~~~~~~g~~~~p~gG~~~~h~~~~ri~l~k~~~~~R~~~v~ksp~~p------~~~~~f~i~~  308 (316)
T TIGR02239       246 VAQVDGAGSMFAGDPKKPIGGNIMAHASTTRLSLRKGRGEQRICKIYDSPCLP------ESEAMFAIYE  308 (316)
T ss_pred             EEecCCccccccCCCCcCCchHHHHhhccEEEEEEecCCCeEEEEEEECCCCC------CeEEEEEEeC
Confidence            2   1         12456678999999999999974  23445555554443      1236676643

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=99.64  E-value=1.6e-14  Score=120.58  Aligned_cols=185  Identities=16%  Similarity=0.147  Sum_probs=119.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      +.|.++.||||+|||||++|+|++.++. ..|.+++|||+|+.|...+  +.+.....   .+++.+......+....+.
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~aq-~~g~~a~fIDtE~~l~p~r--~~~l~~~~---~d~l~v~~~~~~e~q~~i~  131 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVANAQ-KPGGKAAFIDTEHALDPER--AKQLGVDL---LDNLLVSQPDTGEQQLEIA  131 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHHHhh-cCCCeEEEEeCCCCCCHHH--HHHHHHhh---hcceeEecCCCHHHHHHHH
Confidence            6899999999999999999999999888 7788999999997654432  33222110   3455554444444444444


Q ss_pred             HHhcc-cCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecC---------C
Q 041690           97 AAFHQ-HDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTH---------L  166 (233)
Q Consensus        97 ~~~~~-~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~---------~  166 (233)
                      ..+.. ....+++||||+++++++....+      +......++.+...+..+..+..+..+.++++++-         .
T Consensus       132 ~~~~~~~~~~i~LvVVDSvaa~~r~~~~~------d~~~~~~~r~ls~~l~~L~~~a~~~~~~vi~~NQv~~k~~~~f~~  205 (279)
T COG0468         132 EKLARSGAEKIDLLVVDSVAALVRAEEIE------DGHLGLRARLLSKALRKLTRLANKYNTAVIFTNQVRAKIGVMFGD  205 (279)
T ss_pred             HHHHHhccCCCCEEEEecCcccchhhhcC------cchHHHHHHHHHHHHHHHHHHHHHcCcEEEEECceeeecCcccCC
Confidence            33321 12248999999999999964221      12223334455555555665556666666766652         2


Q ss_pred             CCCchhHHHHHHhhccceEEEecC--------CccEEEeeccCcccccccccceeeeEEe
Q 041690          167 GNSTRLLYIYKRWISSIFTVKGDG--------PGSFLLRNKNYSRSCGLGKTRIAKYSIA  218 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~~~--------~~~~~l~~~~~~~~~~~~~~~~~~~~~~  218 (233)
                      +..|-+..++.||....+.+...+        .+...+.++...     ..-+.|.|.|.
T Consensus       206 ~~~~~GG~~L~~~as~rl~l~k~~~~~~~~g~~r~~~vvk~~~~-----p~~~~a~f~I~  260 (279)
T COG0468         206 PETTTGGNALKFYASVRLDLRRIESLKEDVGNKRRVKVVKNKVA-----PPFKEAEFDIT  260 (279)
T ss_pred             cccCCCchHHHhhhheEEEEeeccccccccCCeEEEEEEeCCCC-----CCCceeEEEee
Confidence            455667889999999999998762        333555554443     33456677663

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=99.64  E-value=1e-14  Score=124.28  Aligned_cols=163  Identities=14%  Similarity=0.167  Sum_probs=97.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      .++|++++|+|||||||||||.+++.+.+ ..|.+++||++|+.+...  +.. .++..   .+++.+......+.....
T Consensus        52 lp~G~iteI~Gp~GsGKTtLal~~~~~~~-~~g~~~vyId~E~~~~~~--~a~-~lGvd---~~~l~v~~p~~~eq~l~i  124 (325)
T cd00983          52 YPKGRIIEIYGPESSGKTTLALHAIAEAQ-KLGGTVAFIDAEHALDPV--YAK-KLGVD---LDNLLISQPDTGEQALEI  124 (325)
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEECccccHHHH--HHH-HcCCC---HHHheecCCCCHHHHHHH
Confidence            36899999999999999999999999888 678999999998755432  111 11111   124444334444444444


Q ss_pred             HHHhcccCCCCcEEEEeCCCccccccccccccCCcc-hhhHHHHHHHHH-HHHHHHHhhhcCCcEEEEeecC--------
Q 041690           96 FAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPR-GRDLAMVRTLAL-CYNAITHANKKSPCKLLLSDTH--------  165 (233)
Q Consensus        96 ~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~-l~~~~~~l~~~~~~vlvi~~~~--------  165 (233)
                      ...+.. ...+++|||||++++++...-+.+.++.. ....   +.+.. +..+...+++.+.+++++.+..        
T Consensus       125 ~~~li~-s~~~~lIVIDSvaal~~~~E~~~~~~~~~~~~qa---R~l~~~Lr~L~~~~~k~~~~vI~tNQvr~~ig~~~g  200 (325)
T cd00983         125 ADSLVR-SGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQA---RLMSQALRKLTGSINKSNTTVIFINQLREKIGVMFG  200 (325)
T ss_pred             HHHHHh-ccCCCEEEEcchHhhcccccccccccccchHHHH---HHHHHHHHHHHHHHHhCCCEEEEEEccccccccccC
Confidence            433321 33499999999999996311111111111 1111   11222 2333444455566666655432        


Q ss_pred             CCCCchhHHHHHHhhccceEEEec
Q 041690          166 LGNSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      .+..+.+..++.+|....+.+...
T Consensus       201 ~~e~~~GG~~L~~~ss~rl~lrk~  224 (325)
T cd00983         201 NPETTTGGNALKFYSSVRLDIRRI  224 (325)
T ss_pred             CCccCCCchHHhhhcceEEEEEee
Confidence            223555677899999999998863

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=99.64  E-value=1.7e-14  Score=123.85  Aligned_cols=177  Identities=12%  Similarity=0.067  Sum_probs=102.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCccccccccccccc---C-CchhhhcceEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKRPYLSQSI---D-PSSHVFKLIQMKYVE   87 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~~~~~~~~---~-~~~~~~~~i~~~~~~   87 (233)
                      ++|.+++|+||||||||+||.|++..++..     .+.+++||++|+.+.  ++++.+..   + +.+..++++.+....
T Consensus       100 ~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~--~~rl~~~~~~~g~~~~~~l~~i~~~~~~  177 (317)
T PRK04301        100 ETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFR--PERIEQMAEALGLDPDEVLDNIHVARAY  177 (317)
T ss_pred             cCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcC--HHHHHHHHHHcCCChHhhhccEEEEeCC
Confidence            589999999999999999999999887632     135899999987443  22232221   1 223445566554333


Q ss_pred             CHHHHHHHHHHhcc--cC-CCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHH-HhhhcCCcEEEEee
Q 041690           88 DDEEIKKYFAAFHQ--HD-KIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAIT-HANKKSPCKLLLSD  163 (233)
Q Consensus        88 ~~~~l~~~~~~~~~--~~-~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~-~l~~~~~~vlvi~~  163 (233)
                      .......++..+..  .+ ..+++|||||++++++....     ..... ....+.+..++..+. .+++.+.+++++.+
T Consensus       178 ~~~~~~~~~~~l~~~i~~~~~~~lvVIDSisa~~~~~~~-----~~~~~-~~r~~~l~~~~~~L~~la~~~~vavl~tnq  251 (317)
T PRK04301        178 NSDHQMLLAEKAEELIKEGENIKLVIVDSLTAHFRAEYV-----GRGNL-AERQQKLNKHLHDLLRLADLYNAAVVVTNQ  251 (317)
T ss_pred             CHHHHHHHHHHHHHHHhccCceeEEEEECchHHhhhhcc-----CCccH-HHHHHHHHHHHHHHHHHHHHhCCEEEEece
Confidence            32222222222111  12 35899999999999874211     11011 111222333333333 34556777777665


Q ss_pred             cCC--------CCCchhHHHHHHhhccceEEEec--CCccEEEeeccC
Q 041690          164 THL--------GNSTRLLYIYKRWISSIFTVKGD--GPGSFLLRNKNY  201 (233)
Q Consensus       164 ~~~--------~~~~~~~~~~~~~~~~~~~i~~~--~~~~~~l~~~~~  201 (233)
                      ...        +..|.+..++.|++.+.+.+.+.  +.+...+.++.+
T Consensus       252 v~~~~~~~~~~~~~~~~G~~~~~~~~~rl~l~k~~~~~R~~~v~k~~~  299 (317)
T PRK04301        252 VMARPDAFFGDPTQPIGGHILGHTATFRIYLRKSKGNKRIARLVDSPH  299 (317)
T ss_pred             EEeccccccCccccCCcchHhHhheeEEEEEEecCCCceEEEEEeCCC
Confidence            321        12466677899999999999974  333444444443

>PRK09354 recA recombinase A; Provisional

Probab=99.64  E-value=1.3e-14  Score=124.47  Aligned_cols=163  Identities=13%  Similarity=0.133  Sum_probs=99.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      .++|++++|+|||||||||||.+++.+.+ ..|.+++||++|+.+...  +.. .++..   .+++.+......+.....
T Consensus        57 ip~G~IteI~G~~GsGKTtLal~~~~~~~-~~G~~~~yId~E~s~~~~--~a~-~lGvd---ld~lli~qp~~~Eq~l~i  129 (349)
T PRK09354         57 LPRGRIVEIYGPESSGKTTLALHAIAEAQ-KAGGTAAFIDAEHALDPV--YAK-KLGVD---IDNLLVSQPDTGEQALEI  129 (349)
T ss_pred             CcCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEECCccchHHH--HHH-HcCCC---HHHeEEecCCCHHHHHHH
Confidence            36899999999999999999999999888 679999999999755432  111 11111   124444333334444444


Q ss_pred             HHHhcccCCCCcEEEEeCCCccccc-cccccccCCcchhhHHHHHHHHH-HHHHHHHhhhcCCcEEEEeecC--------
Q 041690           96 FAAFHQHDKIPTAVVVDDFGDLFDD-RTCQERYTNPRGRDLAMVRTLAL-CYNAITHANKKSPCKLLLSDTH--------  165 (233)
Q Consensus        96 ~~~~~~~~~~p~iIvIDei~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~-l~~~~~~l~~~~~~vlvi~~~~--------  165 (233)
                      ...+.. ...+++|||||++++++. ...+.-++.......+   .+.. +..+...+++.+.+++++....        
T Consensus       130 ~~~li~-s~~~~lIVIDSvaaL~~~~E~eg~~gd~~~~~qar---~ms~~Lr~L~~~l~k~~itvI~tNQvr~~ig~~~g  205 (349)
T PRK09354        130 ADTLVR-SGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQAR---LMSQALRKLTGNISKSNTTVIFINQIREKIGVMFG  205 (349)
T ss_pred             HHHHhh-cCCCCEEEEeChhhhcchhhhcCCccccchhHHHH---HHHHHHHHHHHHHHHcCcEEEEEEeeeeccccccC
Confidence            433221 345999999999999862 1111101111111111   1211 3344445566677777765432        


Q ss_pred             CCCCchhHHHHHHhhccceEEEec
Q 041690          166 LGNSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      .+..+.+...+.||....+++...
T Consensus       206 ~pe~~~GG~aL~~~ss~rl~lrr~  229 (349)
T PRK09354        206 NPETTTGGNALKFYASVRLDIRRI  229 (349)
T ss_pred             CCCcCCCchhhHhhheeeeEEecc
Confidence            134566777899999999998863

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=99.63  E-value=6.9e-15  Score=128.14  Aligned_cols=164  Identities=13%  Similarity=0.259  Sum_probs=97.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+|+.++|+|+||+|||||+.|++...+ ..+.+++|++.|+....-..+.. .++.   ..+++.+.   ....+..++
T Consensus        80 ~~GslvLI~G~pG~GKStLllq~a~~~a-~~g~~VlYvs~EEs~~qi~~Ra~-rlg~---~~~~l~l~---~e~~le~I~  151 (372)
T cd01121          80 VPGSVILIGGDPGIGKSTLLLQVAARLA-KRGGKVLYVSGEESPEQIKLRAD-RLGI---STENLYLL---AETNLEDIL  151 (372)
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHH-hcCCeEEEEECCcCHHHHHHHHH-HcCC---CcccEEEE---ccCcHHHHH
Confidence            5899999999999999999999999888 66789999998743221111100 0110   01133222   122333344


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      +.+.  ...|++|||||++.++......    .....  ...+.+  +..+.+.+++.+.+++++++.+......+...+
T Consensus       152 ~~i~--~~~~~lVVIDSIq~l~~~~~~~----~~g~~--~qvr~~--~~~L~~lak~~~itvilvghvtk~g~~aG~~~l  221 (372)
T cd01121         152 ASIE--ELKPDLVIIDSIQTVYSSELTS----APGSV--SQVREC--TAELMRFAKERNIPIFIVGHVTKEGSIAGPKVL  221 (372)
T ss_pred             HHHH--hcCCcEEEEcchHHhhcccccc----CCCCH--HHHHHH--HHHHHHHHHHcCCeEEEEeeccCCCcccCcccc
Confidence            4333  3349999999999987631100    11111  111111  222344456778888888876653322333489


Q ss_pred             HHhhccceEEEecCCccEEEee
Q 041690          177 KRWISSIFTVKGDGPGSFLLRN  198 (233)
Q Consensus       177 ~~~~~~~~~i~~~~~~~~~l~~  198 (233)
                      +|++|.++.++......+++.+
T Consensus       222 eh~vD~Vi~le~~~~~~~R~Lr  243 (372)
T cd01121         222 EHMVDTVLYFEGDRHSEYRILR  243 (372)
T ss_pred             hhhceEEEEEEcCCCCcEEEEE
Confidence            9999999999986543455443

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PRK11823 DNA repair protein RadA; Provisional

Probab=99.63  E-value=1.1e-14  Score=130.13  Aligned_cols=164  Identities=14%  Similarity=0.257  Sum_probs=97.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+|+.++|+||||+|||||+.|++...+ ..+.+++|++.|+....-..+.. .++..   .+++.+..   ...+..++
T Consensus        78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~~a-~~g~~vlYvs~Ees~~qi~~ra~-rlg~~---~~~l~~~~---e~~l~~i~  149 (446)
T PRK11823         78 VPGSVVLIGGDPGIGKSTLLLQVAARLA-AAGGKVLYVSGEESASQIKLRAE-RLGLP---SDNLYLLA---ETNLEAIL  149 (446)
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEEccccHHHHHHHHH-HcCCC---hhcEEEeC---CCCHHHHH
Confidence            5899999999999999999999999888 66889999998753322111111 01110   11232221   12233344


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  +..|++|||||+++++.....+    ... .. ...+.+  +..+...+++.+.+++++++.+......+...+
T Consensus       150 ~~i~--~~~~~lVVIDSIq~l~~~~~~~----~~g-~~-~qvr~~--~~~L~~~ak~~~itvilv~hvtk~~~~ag~~~l  219 (446)
T PRK11823        150 ATIE--EEKPDLVVIDSIQTMYSPELES----APG-SV-SQVREC--AAELMRLAKQRGIAVFLVGHVTKEGAIAGPRVL  219 (446)
T ss_pred             HHHH--hhCCCEEEEechhhhccccccC----CCC-CH-HHHHHH--HHHHHHHHHHcCCEEEEEeeccCCCCcCCcchh
Confidence            4333  3349999999999998742110    011 11 111111  223344456778888888877654322233479


Q ss_pred             HHhhccceEEEecCCccEEEee
Q 041690          177 KRWISSIFTVKGDGPGSFLLRN  198 (233)
Q Consensus       177 ~~~~~~~~~i~~~~~~~~~l~~  198 (233)
                      +|++|.+++++......++.-+
T Consensus       220 ehlvD~Vi~le~~~~~~~R~l~  241 (446)
T PRK11823        220 EHMVDTVLYFEGDRHSRYRILR  241 (446)
T ss_pred             hhhCeEEEEEEcCCCCceEEEE
Confidence            9999999999864344455443

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.62  E-value=2.4e-15  Score=136.02  Aligned_cols=136  Identities=20%  Similarity=0.253  Sum_probs=107.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      +-..++|+|||||||||.|+-+++.    ..+-+++-|       ..++.+....+.+              ++.++.+|
T Consensus       699 r~~~giLLyGppGcGKT~la~a~a~----~~~~~fisv-------KGPElL~KyIGaS--------------Eq~vR~lF  753 (952)
T KOG0735|consen  699 RLRTGILLYGPPGCGKTLLASAIAS----NSNLRFISV-------KGPELLSKYIGAS--------------EQNVRDLF  753 (952)
T ss_pred             ccccceEEECCCCCcHHHHHHHHHh----hCCeeEEEe-------cCHHHHHHHhccc--------------HHHHHHHH
Confidence            5678899999999999999997765    333445544       4566676666554              78999999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+...  +||++|+||++++.+     +|+-++.+-..+.+++|+..++....+    ..|.++++|++++..+...+.
T Consensus       754 ~rA~~a--~PCiLFFDEfdSiAP-----kRGhDsTGVTDRVVNQlLTelDG~Egl----~GV~i~aaTsRpdliDpALLR  822 (952)
T KOG0735|consen  754 ERAQSA--KPCILFFDEFDSIAP-----KRGHDSTGVTDRVVNQLLTELDGAEGL----DGVYILAATSRPDLIDPALLR  822 (952)
T ss_pred             HHhhcc--CCeEEEeccccccCc-----ccCCCCCCchHHHHHHHHHhhcccccc----ceEEEEEecCCccccCHhhcC
Confidence            988743  499999999999999     677778888889999999999988543    468899999999877777677


Q ss_pred             HHhhccceEEEe
Q 041690          177 KRWISSIFTVKG  188 (233)
Q Consensus       177 ~~~~~~~~~i~~  188 (233)
                      ..++|..+.-+.
T Consensus       823 pGRlD~~v~C~~  834 (952)
T KOG0735|consen  823 PGRLDKLVYCPL  834 (952)
T ss_pred             CCccceeeeCCC
Confidence            788887766554

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=3e-15  Score=135.76  Aligned_cols=138  Identities=20%  Similarity=0.259  Sum_probs=101.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+..++|++||||||||.||+.++.    ..+.+++-+.      .. +.++++++.+              ...++++|
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~----~~~~~fi~v~------~~-~l~sk~vGes--------------ek~ir~~F  328 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVAL----ESRSRFISVK------GS-ELLSKWVGES--------------EKNIRELF  328 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHh----hCCCeEEEee------CH-HHhccccchH--------------HHHHHHHH
Confidence            4667999999999999999996665    5556676664      32 5566665554              78999999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||+++++..     |++.......+++++++..++.+    +....|+|++++|.++........
T Consensus       329 ~~A~--~~~p~iiFiDEiDs~~~~-----r~~~~~~~~~r~~~~lL~~~d~~----e~~~~v~vi~aTN~p~~ld~a~lR  397 (494)
T COG0464         329 EKAR--KLAPSIIFIDEIDSLASG-----RGPSEDGSGRRVVGQLLTELDGI----EKAEGVLVIAATNRPDDLDPALLR  397 (494)
T ss_pred             HHHH--cCCCcEEEEEchhhhhcc-----CCCCCchHHHHHHHHHHHHhcCC----CccCceEEEecCCCccccCHhhcc
Confidence            9887  445999999999999994     44344434456777877777766    444568899999988765543333


Q ss_pred             HHhhccceEEEecC
Q 041690          177 KRWISSIFTVKGDG  190 (233)
Q Consensus       177 ~~~~~~~~~i~~~~  190 (233)
                      ..+|+.+++++..+
T Consensus       398 ~gRfd~~i~v~~pd  411 (494)
T COG0464         398 PGRFDRLIYVPLPD  411 (494)
T ss_pred             cCccceEeecCCCC
Confidence            34889999998753

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=99.61  E-value=1.1e-14  Score=121.57  Aligned_cols=155  Identities=14%  Similarity=0.160  Sum_probs=90.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-----ccccCCchhhhcceEEEEecCH--
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-----SQSIDPSSHVFKLIQMKYVEDD--   89 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-----~~~~~~~~~~~~~i~~~~~~~~--   89 (233)
                      ++|+.++|+||||||||+||.|++.+.+ ..|.+++|++.|+........+     ..++ +.+...+++.+......  
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a-~~Ge~vlyis~Ee~~~~~~~~l~~~a~~~g~-d~~~~~~~l~~id~~~~~~  111 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAVTQA-SRGNPVLFVTVESPANFVYTSLKERAKAMGV-DFDKIEENIILIDAASSTE  111 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHHHHH-hCCCcEEEEEecCCchHHHHHHHHHHHHcCC-CHHHHhCCEEEEECCCchh
Confidence            6999999999999999999999999988 6699999999773211101111     1111 11223334444222111  


Q ss_pred             --HHHHHHHHHhcc--cCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecC
Q 041690           90 --EEIKKYFAAFHQ--HDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTH  165 (233)
Q Consensus        90 --~~l~~~~~~~~~--~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~  165 (233)
                        ..+..++..+..  .+..+++||||++++++...         . ...+  +.   +..+...+++.+.+++++++..
T Consensus       112 ~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~l~~~~---------~-~~~r--~~---~~~L~~~lk~~~~t~ll~~e~~  176 (259)
T TIGR03878       112 LRENVPNLLATLAYAIKEYKVKNTVIDSITGLYEAK---------E-MMAR--EI---VRQLFNFMKKWYQTALFVSQKR  176 (259)
T ss_pred             hhhhHHHHHHHHHHHHHhhCCCEEEEcCchHhcccc---------h-HHHH--HH---HHHHHHHHHHcCCeEEEEeccc
Confidence              223333332211  13459999999999987621         0 1111  11   3334555667788898887643


Q ss_pred             CCC-----CchhHHHHHHhhccceEEEe
Q 041690          166 LGN-----STRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       166 ~~~-----~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .+.     .+.+...+.+.+|.++.+..
T Consensus       177 ~~~~~~~~~~~~~~~~~~l~D~vI~L~~  204 (259)
T TIGR03878       177 SGHEELSAEAAGGYAVSHIVDGTIVLAK  204 (259)
T ss_pred             cCcccccccccCCcceeEeeccEEEEee
Confidence            211     22223356888888888773

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=6.2e-16  Score=130.87  Aligned_cols=137  Identities=20%  Similarity=0.236  Sum_probs=96.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+..++|++||||||||.+|+.++.    +.|..++-|+       .......|++++              .+.+..+|
T Consensus       125 ~p~kGiLL~GPpG~GKTmlAKA~Ak----eaga~fInv~-------~s~lt~KWfgE~--------------eKlv~AvF  179 (386)
T KOG0737|consen  125 RPPKGILLYGPPGTGKTMLAKAIAK----EAGANFINVS-------VSNLTSKWFGEA--------------QKLVKAVF  179 (386)
T ss_pred             cCCccceecCCCCchHHHHHHHHHH----HcCCCcceee-------ccccchhhHHHH--------------HHHHHHHH
Confidence            5888999999999999999996665    5566666553       111222344333              66777788


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+...  .|++|||||+++++.     .|....++....+.+++..+++.+.  ...+..|+|+++||+|.....  +.
T Consensus       180 slAsKl--~P~iIFIDEvds~L~-----~R~s~dHEa~a~mK~eFM~~WDGl~--s~~~~rVlVlgATNRP~DlDe--Ai  248 (386)
T KOG0737|consen  180 SLASKL--QPSIIFIDEVDSFLG-----QRRSTDHEATAMMKNEFMALWDGLS--SKDSERVLVLGATNRPFDLDE--AI  248 (386)
T ss_pred             hhhhhc--CcceeehhhHHHHHh-----hcccchHHHHHHHHHHHHHHhcccc--CCCCceEEEEeCCCCCccHHH--HH
Confidence            877633  499999999999998     4433444455556677777777763  233557999999999865432  56


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      -|++++.++|.-+
T Consensus       249 iRR~p~rf~V~lP  261 (386)
T KOG0737|consen  249 IRRLPRRFHVGLP  261 (386)
T ss_pred             HHhCcceeeeCCC
Confidence            6677889988753

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=5.9e-15  Score=120.39  Aligned_cols=139  Identities=16%  Similarity=0.185  Sum_probs=96.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .|+.++|+|||||+|||.+|+++|.    +.+.-++-+       -..+.+....++.              ...++++|
T Consensus       209 dppkgvllygppgtgktl~aravan----rtdacfirv-------igselvqkyvgeg--------------armvrelf  263 (435)
T KOG0729|consen  209 DPPKGVLLYGPPGTGKTLCARAVAN----RTDACFIRV-------IGSELVQKYVGEG--------------ARMVRELF  263 (435)
T ss_pred             CCCCceEEeCCCCCchhHHHHHHhc----ccCceEEee-------hhHHHHHHHhhhh--------------HHHHHHHH
Confidence            5889999999999999999995543    444333333       1122222222221              56889999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      +.++  ....|+||+||++++-.     .|.++..+.+...+++++++++.+.-+..+|..- |+.++|+++......+.
T Consensus       264 ~mar--tkkaciiffdeidaigg-----arfddg~ggdnevqrtmleli~qldgfdprgnik-vlmatnrpdtldpallr  335 (435)
T KOG0729|consen  264 EMAR--TKKACIIFFDEIDAIGG-----ARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIK-VLMATNRPDTLDPALLR  335 (435)
T ss_pred             HHhc--ccceEEEEeeccccccC-----ccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeE-EEeecCCCCCcCHhhcC
Confidence            9887  44489999999999987     5666666777888999999999888776666544 44456777655555566


Q ss_pred             HHhhccceEEEe
Q 041690          177 KRWISSIFTVKG  188 (233)
Q Consensus       177 ~~~~~~~~~i~~  188 (233)
                      ..++++.+++.-
T Consensus       336 pgrldrkvef~l  347 (435)
T KOG0729|consen  336 PGRLDRKVEFGL  347 (435)
T ss_pred             CcccccceeccC
Confidence            677777666553

>TIGR00416 sms DNA repair protein RadA

Probab=99.61  E-value=8.7e-15  Score=130.78  Aligned_cols=164  Identities=16%  Similarity=0.228  Sum_probs=96.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+|+.++|+|+||+|||||+.|++...+ ..+.+++|++.|+....-..+.. .++.   ..+++.+....   .+..+.
T Consensus        92 ~~GsvilI~G~pGsGKTTL~lq~a~~~a-~~g~kvlYvs~EEs~~qi~~ra~-rlg~---~~~~l~~~~e~---~~~~I~  163 (454)
T TIGR00416        92 VPGSLILIGGDPGIGKSTLLLQVACQLA-KNQMKVLYVSGEESLQQIKMRAI-RLGL---PEPNLYVLSET---NWEQIC  163 (454)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHHH-hcCCcEEEEECcCCHHHHHHHHH-HcCC---ChHHeEEcCCC---CHHHHH
Confidence            5899999999999999999999999888 66789999998753322111100 0110   11133322112   223333


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  +..|++||||++++++.....+..   .....   .+..  +..+.+.+++.+.+++++++........+...+
T Consensus       164 ~~i~--~~~~~~vVIDSIq~l~~~~~~~~~---g~~~q---~r~~--~~~L~~~ak~~giTvllt~hvtkeg~~aG~~~l  233 (454)
T TIGR00416       164 ANIE--EENPQACVIDSIQTLYSPDISSAP---GSVSQ---VREC--TAELMRLAKTRGIAIFIVGHVTKEGSIAGPKVL  233 (454)
T ss_pred             HHHH--hcCCcEEEEecchhhcccccccCC---CCHHH---HHHH--HHHHHHHHHHhCCEEEEEeccccCCccCCcccE
Confidence            3333  334999999999998763110000   11111   1111  223334456778888888876543222222378


Q ss_pred             HHhhccceEEEecCCccEEEee
Q 041690          177 KRWISSIFTVKGDGPGSFLLRN  198 (233)
Q Consensus       177 ~~~~~~~~~i~~~~~~~~~l~~  198 (233)
                      +|++|.++.++......++..+
T Consensus       234 e~lvD~VI~Le~~~~~~~R~L~  255 (454)
T TIGR00416       234 EHMVDTVLYFEGDRDSRFRILR  255 (454)
T ss_pred             eeeceEEEEEeccCCCcEEEEE
Confidence            9999999999875444444444

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=4.2e-15  Score=123.23  Aligned_cols=140  Identities=18%  Similarity=0.187  Sum_probs=101.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++.+++||||||+|||.+|+.++.    .-|...+.++       +.+......+++              ...+++.|
T Consensus       164 k~Pkg~ll~GppGtGKTlla~~Vaa----~mg~nfl~v~-------ss~lv~kyiGEs--------------aRlIRemf  218 (388)
T KOG0651|consen  164 KPPKGLLLYGPPGTGKTLLARAVAA----TMGVNFLKVV-------SSALVDKYIGES--------------ARLIRDMF  218 (388)
T ss_pred             CCCceeEEeCCCCCchhHHHHHHHH----hcCCceEEee-------HhhhhhhhcccH--------------HHHHHHHH
Confidence            5788999999999999999997765    4556666663       223333333333              77899999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  +..||+||+|||++....     +.+.....+..++++|.++.+.+......+ .|=+|.++|+++......+.
T Consensus       219 ~yA~--~~~pciifmdeiDAigGR-----r~se~Ts~dreiqrTLMeLlnqmdgfd~l~-rVk~ImatNrpdtLdpaLlR  290 (388)
T KOG0651|consen  219 RYAR--EVIPCIIFMDEIDAIGGR-----RFSEGTSSDREIQRTLMELLNQMDGFDTLH-RVKTIMATNRPDTLDPALLR  290 (388)
T ss_pred             HHHh--hhCceEEeehhhhhhccE-----EeccccchhHHHHHHHHHHHHhhccchhcc-cccEEEecCCccccchhhcC
Confidence            9887  444999999999999873     333445566678889888888776554443 45567778877765556677


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      +.+++.-++++-.
T Consensus       291 pGRldrk~~iPlp  303 (388)
T KOG0651|consen  291 PGRLDRKVEIPLP  303 (388)
T ss_pred             CccccceeccCCc
Confidence            8889998888853

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=99.60  E-value=4.7e-14  Score=115.21  Aligned_cols=166  Identities=15%  Similarity=0.122  Sum_probs=103.8

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC------CeEEEEecCCccccccccccccc---C-CchhhhcceEEEE
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSN------ANVVFMCNRSRLQSKRPYLSQSI---D-PSSHVFKLIQMKY   85 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g------~~v~yi~~e~~l~~~~~~~~~~~---~-~~~~~~~~i~~~~   85 (233)
                      .++|.+++|+||||||||+|+.+++...+ ..+      .+++|+++|+.+..  .++.+..   . ..+.+.+++.+..
T Consensus        16 ~~~g~v~~I~G~~GsGKT~l~~~ia~~~~-~~~~~~g~~~~v~yi~~e~~~~~--~rl~~~~~~~~~~~~~~~~~i~~~~   92 (226)
T cd01393          16 IPTGRITEIFGEFGSGKTQLCLQLAVEAQ-LPGELGGLEGKVVYIDTEGAFRP--ERLVQLAVRFGLDPEEVLDNIYVAR   92 (226)
T ss_pred             CcCCcEEEEeCCCCCChhHHHHHHHHHhh-cccccCCCcceEEEEecCCCCCH--HHHHHHHHHhccchhhhhccEEEEe
Confidence            45899999999999999999999998877 445      88999999864432  2222111   1 2234455776665


Q ss_pred             ecCHHHHHHHHHHhcc--cCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh-hhcCCcEEEEe
Q 041690           86 VEDDEEIKKYFAAFHQ--HDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA-NKKSPCKLLLS  162 (233)
Q Consensus        86 ~~~~~~l~~~~~~~~~--~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-~~~~~~vlvi~  162 (233)
                      ....+.+...+..+..  ....+++||||++++++.....    +...  .....+.+..++..+..+ ++.+.+++++.
T Consensus        93 ~~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~l~~~~~~----~~~~--~~~~~~~l~~~~~~L~~~a~~~~~~vi~tn  166 (226)
T cd01393          93 PYNGEQQLEIVEELERIMSSGRVDLVVVDSVAALFRKEFI----GRGM--LAERARLLSQALRKLLRLADKFNVAVVFTN  166 (226)
T ss_pred             CCCHHHHHHHHHHHHHHhhcCCeeEEEEcCcchhhhhhhc----CCch--HHHHHHHHHHHHHHHHHHHHHhCcEEEEEE
Confidence            5555555555444321  1334899999999999874210    0100  111122334444545444 45566676666


Q ss_pred             ecCCC--------CCchhHHHHHHhhccceEEEecC
Q 041690          163 DTHLG--------NSTRLLYIYKRWISSIFTVKGDG  190 (233)
Q Consensus       163 ~~~~~--------~~~~~~~~~~~~~~~~~~i~~~~  190 (233)
                      +....        ..|.+...+.++++.++.+....
T Consensus       167 q~~~~~~~~~~~~~~p~~G~~~~~~~~~ri~l~~~~  202 (226)
T cd01393         167 QVRAKVDVMFGDPETPAGGNALAHASTTRLDLRKGR  202 (226)
T ss_pred             EEeeecccccCCCccccCchhhhCcccEEEEEEecC
Confidence            54321        23556679999999999999754

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=99.59  E-value=1.3e-14  Score=118.75  Aligned_cols=154  Identities=20%  Similarity=0.255  Sum_probs=91.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC-CCeEEEEecCCcccccccccc-cccCCchhhhc--ceEEEEec-----
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS-NANVVFMCNRSRLQSKRPYLS-QSIDPSSHVFK--LIQMKYVE-----   87 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~-g~~v~yi~~e~~l~~~~~~~~-~~~~~~~~~~~--~i~~~~~~-----   87 (233)
                      ++|+.++|+||||+|||+|+.|++.+.+ +. |.+|+|++.++..+.-...+. .+++ .+...+  ++.+....     
T Consensus        17 p~gs~~li~G~~GsGKT~l~~q~l~~~~-~~~ge~vlyvs~ee~~~~l~~~~~s~g~d-~~~~~~~g~l~~~d~~~~~~~   94 (226)
T PF06745_consen   17 PKGSVVLISGPPGSGKTTLALQFLYNGL-KNFGEKVLYVSFEEPPEELIENMKSFGWD-LEEYEDSGKLKIIDAFPERIG   94 (226)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHH-HHHT--EEEEESSS-HHHHHHHHHTTTS--HHHHHHTTSEEEEESSGGGST
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHHhh-hhcCCcEEEEEecCCHHHHHHHHHHcCCc-HHHHhhcCCEEEEeccccccc
Confidence            5999999999999999999999999998 66 999999997742221111111 1222 122222  34442211     


Q ss_pred             ----CHHHH-HHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEe
Q 041690           88 ----DDEEI-KKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLS  162 (233)
Q Consensus        88 ----~~~~l-~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~  162 (233)
                          ....+ ..+...+.  +..++++|||+++++...         ..+...+..     +..+...+++.+.+++++.
T Consensus        95 ~~~~~~~~l~~~i~~~i~--~~~~~~vVIDsls~l~~~---------~~~~~~r~~-----l~~l~~~l~~~~~t~llt~  158 (226)
T PF06745_consen   95 WSPNDLEELLSKIREAIE--ELKPDRVVIDSLSALLLY---------DDPEELRRF-----LRALIKFLKSRGVTTLLTS  158 (226)
T ss_dssp             -TSCCHHHHHHHHHHHHH--HHTSSEEEEETHHHHTTS---------SSGGGHHHH-----HHHHHHHHHHTTEEEEEEE
T ss_pred             ccccCHHHHHHHHHHHHH--hcCCCEEEEECHHHHhhc---------CCHHHHHHH-----HHHHHHHHHHCCCEEEEEE
Confidence                12222 22222222  223799999999999331         111222222     5566667778888888888


Q ss_pred             ecCCCCCchhHHHHHH-hhccceEEEe
Q 041690          163 DTHLGNSTRLLYIYKR-WISSIFTVKG  188 (233)
Q Consensus       163 ~~~~~~~~~~~~~~~~-~~~~~~~i~~  188 (233)
                      +......+.....+++ .+|.++.+..
T Consensus       159 ~~~~~~~~~~~~~i~~~l~D~vI~L~~  185 (226)
T PF06745_consen  159 EMPSGSEDDGTFGIEHYLADGVIELRY  185 (226)
T ss_dssp             EESSSSSSSSSTSHHHHHSSEEEEEEE
T ss_pred             ccccCcccccccchhhhcccEEEEEEE
Confidence            8654433333445666 8899998885

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>TIGR02012 tigrfam_recA protein RecA

Probab=99.58  E-value=3.6e-14  Score=120.82  Aligned_cols=163  Identities=12%  Similarity=0.164  Sum_probs=95.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      .++|++++|+|||||||||||.+++.+++ ..|.+++||++|+.+...  . ...++..   .+++.+......+.....
T Consensus        52 lp~G~iteI~G~~GsGKTtLaL~~~~~~~-~~g~~v~yId~E~~~~~~--~-a~~lGvd---~~~l~v~~p~~~eq~l~~  124 (321)
T TIGR02012        52 LPRGRIIEIYGPESSGKTTLALHAIAEAQ-KAGGTAAFIDAEHALDPV--Y-ARKLGVD---IDNLLVSQPDTGEQALEI  124 (321)
T ss_pred             CcCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEEcccchhHHH--H-HHHcCCC---HHHeEEecCCCHHHHHHH
Confidence            36899999999999999999999999988 678999999988644331  1 1111111   124444333344433333


Q ss_pred             HHHhcccCCCCcEEEEeCCCccccccccccccCCc-chhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecC--------C
Q 041690           96 FAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNP-RGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTH--------L  166 (233)
Q Consensus        96 ~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~--------~  166 (233)
                      ...+.. ...+++|||||++++++...-+...++. .....+...  ..+..+...+++.+.+++++.+..        .
T Consensus       125 ~~~li~-~~~~~lIVIDSv~al~~~~E~e~~~g~~~~~~~aR~m~--~~lr~L~~~l~~~~~tvi~tNQvr~~~g~~~~~  201 (321)
T TIGR02012       125 AETLVR-SGAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQARLMS--QALRKLTGALSKSNTTAIFINQIREKIGVMFGN  201 (321)
T ss_pred             HHHHhh-ccCCcEEEEcchhhhccchhhcccccccchhHHHHHHH--HHHHHHHHHHHhCCCEEEEEecceeccCcccCC
Confidence            332221 3349999999999998631111111111 111111111  123344445566677776665532        2


Q ss_pred             CCCchhHHHHHHhhccceEEEe
Q 041690          167 GNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +..+.+..++.+|....+.+..
T Consensus       202 ~e~~~GG~aL~~~ss~r~~lrr  223 (321)
T TIGR02012       202 PETTTGGRALKFYASVRLDIRR  223 (321)
T ss_pred             CccCcCccHHHHHHhHhHhhhh
Confidence            2345566688999888777764

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=99.58  E-value=7e-14  Score=114.84  Aligned_cols=175  Identities=13%  Similarity=0.091  Sum_probs=102.8

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC-----CCeEEEEecCCccccccccccccc---C-CchhhhcceEEEEe
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQS-----NANVVFMCNRSRLQSKRPYLSQSI---D-PSSHVFKLIQMKYV   86 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~-----g~~v~yi~~e~~l~~~~~~~~~~~---~-~~~~~~~~i~~~~~   86 (233)
                      .++|.+++|+||||||||+|+.+++.......     +.+++|+++|+.+.  +.++.+..   + ..+...+++.+...
T Consensus        16 i~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~--~~rl~~~~~~~~~~~~~~~~~i~~~~~   93 (235)
T cd01123          16 IETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFR--PERLVQIAERFGLDPEEVLDNIYVARA   93 (235)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcC--HHHHHHHHHHhccChHhHhcCEEEEec
Confidence            36899999999999999999999997765232     47899999886432  22222211   1 23345567766554


Q ss_pred             cCHHHHHHHHHHhcc--cCC-CCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhh-hcCCcEEEEe
Q 041690           87 EDDEEIKKYFAAFHQ--HDK-IPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHAN-KKSPCKLLLS  162 (233)
Q Consensus        87 ~~~~~l~~~~~~~~~--~~~-~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~-~~~~~vlvi~  162 (233)
                      .....+...+..+..  .+. .+++||||++++++.....     ... ......+.+..++..++.+. +.+.+++++.
T Consensus        94 ~~~~~l~~~l~~l~~~l~~~~~~~liVIDSis~~~~~~~~-----~~~-~~~~r~~~l~~~~~~L~~la~~~~~avl~tn  167 (235)
T cd01123          94 YNSDHQLQLLEELEAILIESSRIKLVIVDSVTALFRAEFD-----GRG-ELAERQQHLAKLLRTLKRLADEFNVAVVITN  167 (235)
T ss_pred             CCHHHHHHHHHHHHHHHhhcCCeeEEEEeCcHHHHHHHhc-----CCc-cHHHHHHHHHHHHHHHHHHHHHhCCEEEEec
Confidence            444433333332211  122 5999999999998763110     110 01122234555666666554 4455565554


Q ss_pred             ecCC-C----------CCchhHHHHHHhhccceEEEecC--CccEEEee
Q 041690          163 DTHL-G----------NSTRLLYIYKRWISSIFTVKGDG--PGSFLLRN  198 (233)
Q Consensus       163 ~~~~-~----------~~~~~~~~~~~~~~~~~~i~~~~--~~~~~l~~  198 (233)
                      +... .          ..|.....+.+++...+.+...+  .+...+.+
T Consensus       168 ~~~~~~~~~~~~~~~~~~p~lG~~w~~~v~~Rl~l~~~~~~~r~~~i~k  216 (235)
T cd01123         168 QVTARPDGAAMFGGDPKKPAGGNIWAHASTTRLYLRKGRGEERIAKIVD  216 (235)
T ss_pred             cEeecCCcccccCCCCeeccCccHhhCCceEEEEEEECCCCceEEEEee
Confidence            4321 1          12445568899999888887653  23344444

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.57  E-value=8e-15  Score=135.07  Aligned_cols=141  Identities=13%  Similarity=0.189  Sum_probs=101.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ..+.++||+||||||||.||+++|.    +.|-+++.++       ..+|+....+..              ...++++|
T Consensus       342 KiPkGvLL~GPPGTGKTLLAKAiAG----EAgVPF~svS-------GSEFvE~~~g~~--------------asrvr~lf  396 (774)
T KOG0731|consen  342 KIPKGVLLVGPPGTGKTLLAKAIAG----EAGVPFFSVS-------GSEFVEMFVGVG--------------ASRVRDLF  396 (774)
T ss_pred             cCcCceEEECCCCCcHHHHHHHHhc----ccCCceeeec-------hHHHHHHhcccc--------------hHHHHHHH
Confidence            4678899999999999999995544    7777888874       344443322221              56889999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..++  ...|++|+||||+++...+.+...++.+++++.. .+||+.-||.+    .....||++++||+++......+.
T Consensus       397 ~~ar--~~aP~iifideida~~~~r~G~~~~~~~~e~e~t-lnQll~emDgf----~~~~~vi~~a~tnr~d~ld~allr  469 (774)
T KOG0731|consen  397 PLAR--KNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQT-LNQLLVEMDGF----ETSKGVIVLAATNRPDILDPALLR  469 (774)
T ss_pred             HHhh--ccCCeEEEecccccccccccccccCCCChHHHHH-HHHHHHHhcCC----cCCCcEEEEeccCCccccCHHhcC
Confidence            9887  5569999999999999843211112233444433 45666667776    334669999999999887777777


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+||+.++|+..
T Consensus       470 pGRfdr~i~i~~p  482 (774)
T KOG0731|consen  470 PGRFDRQIQIDLP  482 (774)
T ss_pred             CCccccceeccCC
Confidence            8899999999864

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.56  E-value=1.5e-14  Score=117.56  Aligned_cols=134  Identities=17%  Similarity=0.268  Sum_probs=91.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      .+..+|+|||||||||.+|+++|.    +...+.+.+       ...+.+....++.              ...+++++.
T Consensus       150 APknVLFyGppGTGKTm~Akalan----e~kvp~l~v-------kat~liGehVGdg--------------ar~Ihely~  204 (368)
T COG1223         150 APKNVLFYGPPGTGKTMMAKALAN----EAKVPLLLV-------KATELIGEHVGDG--------------ARRIHELYE  204 (368)
T ss_pred             CcceeEEECCCCccHHHHHHHHhc----ccCCceEEe-------chHHHHHHHhhhH--------------HHHHHHHHH
Confidence            567899999999999999996654    444555555       3333333333332              668889999


Q ss_pred             HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHH
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYK  177 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~  177 (233)
                      .+.  +..||+|||||++++.-.    .++..-++.-...++.|+.-++.+    ..+-.|+.|++||.++....  ..+
T Consensus       205 rA~--~~aPcivFiDE~DAiaLd----RryQelRGDVsEiVNALLTelDgi----~eneGVvtIaaTN~p~~LD~--aiR  272 (368)
T COG1223         205 RAR--KAAPCIVFIDELDAIALD----RRYQELRGDVSEIVNALLTELDGI----KENEGVVTIAATNRPELLDP--AIR  272 (368)
T ss_pred             HHH--hcCCeEEEehhhhhhhhh----hhHHHhcccHHHHHHHHHHhccCc----ccCCceEEEeecCChhhcCH--HHH
Confidence            887  455999999999999875    333334445556777777777777    35677888999998864322  455


Q ss_pred             HhhccceEEEe
Q 041690          178 RWISSIFTVKG  188 (233)
Q Consensus       178 ~~~~~~~~i~~  188 (233)
                      .+|..-+.+.-
T Consensus       273 sRFEeEIEF~L  283 (368)
T COG1223         273 SRFEEEIEFKL  283 (368)
T ss_pred             hhhhheeeeeC
Confidence            55555555443

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=99.55  E-value=2.2e-14  Score=118.20  Aligned_cols=156  Identities=17%  Similarity=0.202  Sum_probs=89.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccccc-ccCCchhhhc-ceEEE----------
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQ-SIDPSSHVFK-LIQMK----------   84 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~-~~~~~~~~~~-~i~~~----------   84 (233)
                      ++|+.++|+||||||||+|+.|++.+.+ ..|.+++|++.|+....-...+.. +++......+ ++.+.          
T Consensus        19 ~~gs~~lI~G~pGsGKT~la~~~l~~~~-~~ge~~lyvs~ee~~~~i~~~~~~~g~~~~~~~~~g~l~~~d~~~~~~~~~   97 (237)
T TIGR03877        19 PERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPGIYVALEEHPVQVRRNMAQFGWDVRKYEEEGKFAIVDAFTGGIGEA   97 (237)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCcEEEEEeeCCHHHHHHHHHHhCCCHHHHhhcCCEEEEeccccccccc
Confidence            6899999999999999999999999888 779999999977422111111111 1211111111 22221          


Q ss_pred             -----Ee-cCHHHHHHHHHHhcc--cCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCC
Q 041690           85 -----YV-EDDEEIKKYFAAFHQ--HDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSP  156 (233)
Q Consensus        85 -----~~-~~~~~l~~~~~~~~~--~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~  156 (233)
                           |. .....+.+++..+..  .+..+++||||++++++...        .  ...+     ..++.+...+++.+.
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~l~~~~--------~--~~~r-----~~l~~l~~~lk~~~~  162 (237)
T TIGR03877        98 AEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTTLYITK--------P--AMAR-----SIVMQLKRVLSGLGC  162 (237)
T ss_pred             cccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhHhhcCC--------h--HHHH-----HHHHHHHHHHHhCCC
Confidence                 10 011122222222211  13348999999999987621        0  1111     113445555678899


Q ss_pred             cEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          157 CKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       157 ~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +++++++.+....+.....+++++|.++.+..
T Consensus       163 t~llt~~~~~~~~~~~~~~~~~~~D~vI~L~~  194 (237)
T TIGR03877       163 TSIFVSQVSVGERGFGGPGVEHAVDGIIRLDL  194 (237)
T ss_pred             EEEEEECcccccccccccceEEEEeEEEEEEE
Confidence            99888776543221111245778888888875

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=99.55  E-value=2.6e-14  Score=115.73  Aligned_cols=140  Identities=16%  Similarity=0.184  Sum_probs=96.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ..+.++++|||||+|||.|+++++...    ..+++-++       ..+.+....++.              ...++++|
T Consensus       179 aQPKGvlLygppgtGktLlaraVahht----~c~firvs-------gselvqk~igeg--------------srmvrelf  233 (404)
T KOG0728|consen  179 AQPKGVLLYGPPGTGKTLLARAVAHHT----DCTFIRVS-------GSELVQKYIGEG--------------SRMVRELF  233 (404)
T ss_pred             CCCcceEEecCCCCchhHHHHHHHhhc----ceEEEEec-------hHHHHHHHhhhh--------------HHHHHHHH
Confidence            467889999999999999999776533    34455553       223333333322              56888999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      -.++  +..|++||.|||+++-..     |...+.+.+...+++++++++.+..+.... .+-++.++|+-+......+.
T Consensus       234 vmar--ehapsiifmdeidsigs~-----r~e~~~ggdsevqrtmlellnqldgfeatk-nikvimatnridild~allr  305 (404)
T KOG0728|consen  234 VMAR--EHAPSIIFMDEIDSIGSS-----RVESGSGGDSEVQRTMLELLNQLDGFEATK-NIKVIMATNRIDILDPALLR  305 (404)
T ss_pred             HHHH--hcCCceEeeecccccccc-----cccCCCCccHHHHHHHHHHHHhcccccccc-ceEEEEeccccccccHhhcC
Confidence            8887  555999999999999884     444445567778899999988887554332 34445556666554445566


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+.|+.+++++.
T Consensus       306 pgridrkiefp~p  318 (404)
T KOG0728|consen  306 PGRIDRKIEFPPP  318 (404)
T ss_pred             CCcccccccCCCC
Confidence            7788888888864

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.54  E-value=2e-14  Score=126.43  Aligned_cols=151  Identities=17%  Similarity=0.205  Sum_probs=110.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ..-.++|||||||||||.+|+|+..-+- ....+++         ..++.+....+.+              +++++++|
T Consensus       254 ~HVKGiLLyGPPGTGKTLiARqIGkMLN-ArePKIV---------NGPeIL~KYVGeS--------------E~NvR~LF  309 (744)
T KOG0741|consen  254 KHVKGILLYGPPGTGKTLIARQIGKMLN-AREPKIV---------NGPEILNKYVGES--------------EENVRKLF  309 (744)
T ss_pred             cceeeEEEECCCCCChhHHHHHHHHHhc-CCCCccc---------CcHHHHHHhhccc--------------HHHHHHHH
Confidence            4567899999999999999999987665 2233333         5566666655554              78999999


Q ss_pred             HHhccc------CCCCcEEEEeCCCccccccccccccCC--cchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCC
Q 041690           97 AAFHQH------DKIPTAVVVDDFGDLFDDRTCQERYTN--PRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGN  168 (233)
Q Consensus        97 ~~~~~~------~~~p~iIvIDei~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~  168 (233)
                      +.+...      ++...+|++|||++++.     +|++.  +.+-...+++||+.=||....+    .-++||+-||+.|
T Consensus       310 aDAEeE~r~~g~~SgLHIIIFDEiDAICK-----qRGS~~g~TGVhD~VVNQLLsKmDGVeqL----NNILVIGMTNR~D  380 (744)
T KOG0741|consen  310 ADAEEEQRRLGANSGLHIIIFDEIDAICK-----QRGSMAGSTGVHDTVVNQLLSKMDGVEQL----NNILVIGMTNRKD  380 (744)
T ss_pred             HhHHHHHHhhCccCCceEEEehhhHHHHH-----hcCCCCCCCCccHHHHHHHHHhcccHHhh----hcEEEEeccCchh
Confidence            877432      34578999999999999     44433  3445556788999888988666    3589999999988


Q ss_pred             CchhHHHHHHhhccceEEEe-cCCccEEEeecc
Q 041690          169 STRLLYIYKRWISSIFTVKG-DGPGSFLLRNKN  200 (233)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~-~~~~~~~l~~~~  200 (233)
                      -.+...+.+.++...++|.- ++.++..+-+++
T Consensus       381 lIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IH  413 (744)
T KOG0741|consen  381 LIDEALLRPGRLEVQMEISLPDEKGRLQILKIH  413 (744)
T ss_pred             hHHHHhcCCCceEEEEEEeCCCccCceEEEEhh
Confidence            77666677788888888885 456665555544

>PRK04328 hypothetical protein; Provisional

Probab=99.54  E-value=4.4e-14  Score=117.26  Aligned_cols=156  Identities=17%  Similarity=0.166  Sum_probs=88.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-cccCCchhhhc-ceEEEE---------
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-QSIDPSSHVFK-LIQMKY---------   85 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-~~~~~~~~~~~-~i~~~~---------   85 (233)
                      ++|+.++|+||||||||+|+.||+.+.+ ..|.+++|+++|+....-..... .+++..+...+ ++.+..         
T Consensus        21 p~gs~ili~G~pGsGKT~l~~~fl~~~~-~~ge~~lyis~ee~~~~i~~~~~~~g~d~~~~~~~~~l~iid~~~~~~~~~   99 (249)
T PRK04328         21 PERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPGVYVALEEHPVQVRRNMRQFGWDVRKYEEEGKFAIVDAFTGGIGSA   99 (249)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHHHHHH-hcCCcEEEEEeeCCHHHHHHHHHHcCCCHHHHhhcCCEEEEeccccccccc
Confidence            6899999999999999999999999887 67999999997642111000100 11211111111 222210         


Q ss_pred             ------e-cCHHHHHHHHHHhcc--cCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCC
Q 041690           86 ------V-EDDEEIKKYFAAFHQ--HDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSP  156 (233)
Q Consensus        86 ------~-~~~~~l~~~~~~~~~--~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~  156 (233)
                            . .....+..++..+..  .+..+++||||++++++..        ..  ...+     ..+..+...+++.+.
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSlt~l~~~--------~~--~~~r-----~~~~~l~~~lk~~g~  164 (249)
T PRK04328        100 AKREKYVVKDPDDVRELIDVLRQAIKDIGAKRVVIDSVSTLYLT--------KP--AMAR-----SIVMQLKRVLSGLGC  164 (249)
T ss_pred             cccccccccCcccHHHHHHHHHHHHHhhCCCEEEEeChhHhhcC--------Ch--HHHH-----HHHHHHHHHHHhCCC
Confidence                  0 011122222222211  1334899999999998752        10  1111     113444455677888


Q ss_pred             cEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          157 CKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       157 ~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +++++++.+..+.+.....+++++|.++.+..
T Consensus       165 t~llt~e~~~~~~~~~~~~~~~~~D~vI~L~~  196 (249)
T PRK04328        165 TAIFVSQVSVGERGFGGPGVEHAVDGIIRLDL  196 (249)
T ss_pred             EEEEEECccccccccCCCCcEEEEEEEEEEEE
Confidence            89888776643222222245778898888875

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.53  E-value=6.1e-14  Score=125.99  Aligned_cols=136  Identities=13%  Similarity=0.117  Sum_probs=85.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++.++||+||||||||++|+.+|.    +.+.+++.++..       .......+.+              ...++++|
T Consensus       257 ~~pkGILL~GPpGTGKTllAkaiA~----e~~~~~~~l~~~-------~l~~~~vGes--------------e~~l~~~f  311 (489)
T CHL00195        257 PTPRGLLLVGIQGTGKSLTAKAIAN----DWQLPLLRLDVG-------KLFGGIVGES--------------ESRMRQMI  311 (489)
T ss_pred             CCCceEEEECCCCCcHHHHHHHHHH----HhCCCEEEEEhH-------HhcccccChH--------------HHHHHHHH
Confidence            4668899999999999999998776    345666666521       1112222222              56788888


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|+|||++.++...    ......+...++..+++   .   .+......+++|+++|.++........
T Consensus       312 ~~A~--~~~P~IL~IDEID~~~~~~----~~~~d~~~~~rvl~~lL---~---~l~~~~~~V~vIaTTN~~~~Ld~allR  379 (489)
T CHL00195        312 RIAE--ALSPCILWIDEIDKAFSNS----ESKGDSGTTNRVLATFI---T---WLSEKKSPVFVVATANNIDLLPLEILR  379 (489)
T ss_pred             HHHH--hcCCcEEEehhhhhhhccc----cCCCCchHHHHHHHHHH---H---HHhcCCCceEEEEecCChhhCCHHHhC
Confidence            8766  3349999999999988631    11111222223332222   2   233445678899999887654434334


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+|+.+++++..
T Consensus       380 ~GRFD~~i~v~lP  392 (489)
T CHL00195        380 KGRFDEIFFLDLP  392 (489)
T ss_pred             CCcCCeEEEeCCc
Confidence            4688999998864

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=99.52  E-value=1.2e-13  Score=109.40  Aligned_cols=151  Identities=17%  Similarity=0.094  Sum_probs=85.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-cccCCchhhh-cceEEEE-----ecCHH---
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-QSIDPSSHVF-KLIQMKY-----VEDDE---   90 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-~~~~~~~~~~-~~i~~~~-----~~~~~---   90 (233)
                      .++|+||||||||+|+.+++...+ +.|.+|+|++.|+..+.-..... .+++..+... ..+.+..     ....+   
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~-~~g~~v~~~s~e~~~~~~~~~~~~~g~~~~~l~~~g~l~~~d~~~~~~s~~~~~~   79 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGL-ARGEPGLYVTLEESPEELIENAESLGWDLERLEDEGLLAIVDADPDEIGPAESSL   79 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH-HCCCcEEEEECCCCHHHHHHHHHHcCCChHHHHhcCCeEEEecCccccchhhhhh
Confidence            378999999999999999999998 78999999998743222111111 1222111110 1122211     11111   


Q ss_pred             ---HHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCC
Q 041690           91 ---EIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLG  167 (233)
Q Consensus        91 ---~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~  167 (233)
                         .+..+...+.  ...|++|||||++++++.          ......     ..+.+++..+++.+.+++++++....
T Consensus        80 ~~~~~~~i~~~~~--~~~~~~lviD~~~~~~~~----------~~~~~~-----~~i~~l~~~l~~~g~tvi~v~~~~~~  142 (187)
T cd01124          80 RLELIQRLKDAIE--EFKAKRVVIDSVSGLLLM----------EQSTAR-----LEIRRLLFALKRFGVTTLLTSEQSGL  142 (187)
T ss_pred             hHHHHHHHHHHHH--HhCCCEEEEeCcHHHhhc----------ChHHHH-----HHHHHHHHHHHHCCCEEEEEeccccC
Confidence               1122222222  234999999999998862          001111     11455566666778888888765543


Q ss_pred             C-CchhHHHHHHhhccceEEEec
Q 041690          168 N-STRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       168 ~-~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      . .+.....++++.|.++.+...
T Consensus       143 ~~~~~~~~~~~~~aD~ii~l~~~  165 (187)
T cd01124         143 EGTGFGGGDVEYLVDGVIRLRLD  165 (187)
T ss_pred             CCcccCcCceeEeeeEEEEEEEE
Confidence            1 112223567888888888754

A related protein is found in archaea.

>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=99.52  E-value=1.3e-13  Score=102.65  Aligned_cols=131  Identities=15%  Similarity=0.256  Sum_probs=79.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHHHhcc
Q 041690           22 TLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQ  101 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~~~~  101 (233)
                      ++|+||||||||++++.++...    +.++++++...       ........              ....+...+..+..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l----~~~~~~i~~~~-------~~~~~~~~--------------~~~~i~~~~~~~~~   55 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL----GFPFIEIDGSE-------LISSYAGD--------------SEQKIRDFFKKAKK   55 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT----TSEEEEEETTH-------HHTSSTTH--------------HHHHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhhc----ccccccccccc-------cccccccc--------------cccccccccccccc
Confidence            6899999999999999887743    57788886332       11111111              15567777776642


Q ss_pred             cCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhc
Q 041690          102 HDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWIS  181 (233)
Q Consensus       102 ~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~  181 (233)
                      .. .|++|+||+++.+....     ............   ..+++.+......+..+++|++++..+........ .+++
T Consensus        56 ~~-~~~vl~iDe~d~l~~~~-----~~~~~~~~~~~~---~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~~~l~~-~rf~  125 (132)
T PF00004_consen   56 SA-KPCVLFIDEIDKLFPKS-----QPSSSSFEQRLL---NQLLSLLDNPSSKNSRVIVIATTNSPDKIDPALLR-SRFD  125 (132)
T ss_dssp             TS-TSEEEEEETGGGTSHHC-----STSSSHHHHHHH---HHHHHHHHTTTTTSSSEEEEEEESSGGGSCHHHHS-TTSE
T ss_pred             cc-cceeeeeccchhccccc-----cccccccccccc---ceeeecccccccccccceeEEeeCChhhCCHhHHh-CCCc
Confidence            22 38999999999999852     112222333333   33555555554544557777777665444333223 7778


Q ss_pred             cceEEE
Q 041690          182 SIFTVK  187 (233)
Q Consensus       182 ~~~~i~  187 (233)
                      ..++++
T Consensus       126 ~~i~~~  131 (132)
T PF00004_consen  126 RRIEFP  131 (132)
T ss_dssp             EEEEE-
T ss_pred             EEEEcC
Confidence            777764

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 ....

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=99.52  E-value=8.5e-14  Score=122.43  Aligned_cols=140  Identities=15%  Similarity=0.227  Sum_probs=83.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||++++.+|...    +..++.+..       ..+...+.+..              ...++++|
T Consensus       177 ~~pkgvLL~GppGTGKT~LAkalA~~l----~~~fi~i~~-------s~l~~k~~ge~--------------~~~lr~lf  231 (398)
T PTZ00454        177 DPPRGVLLYGPPGTGKTMLAKAVAHHT----TATFIRVVG-------SEFVQKYLGEG--------------PRMVRDVF  231 (398)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHhc----CCCEEEEeh-------HHHHHHhcchh--------------HHHHHHHH
Confidence            477899999999999999999877643    344554431       11112222111              45677788


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++++...     +.+...+.+....+.+..+++.+...... ..+++|+++|.++........
T Consensus       232 ~~A~--~~~P~ILfIDEID~i~~~-----r~~~~~~~d~~~~r~l~~LL~~ld~~~~~-~~v~VI~aTN~~d~LDpAllR  303 (398)
T PTZ00454        232 RLAR--ENAPSIIFIDEVDSIATK-----RFDAQTGADREVQRILLELLNQMDGFDQT-TNVKVIMATNRADTLDPALLR  303 (398)
T ss_pred             HHHH--hcCCeEEEEECHhhhccc-----cccccCCccHHHHHHHHHHHHHhhccCCC-CCEEEEEecCCchhCCHHHcC
Confidence            7765  344999999999999873     22222222233344444444444333222 346677777777654433222


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+++..++++..
T Consensus       304 ~GRfd~~I~~~~P  316 (398)
T PTZ00454        304 PGRLDRKIEFPLP  316 (398)
T ss_pred             CCcccEEEEeCCc
Confidence            3478888888764

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.51  E-value=8.1e-14  Score=131.85  Aligned_cols=137  Identities=19%  Similarity=0.210  Sum_probs=91.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..+||+||||||||++++.+|.    ..+.+++.+.       .++.+..+.+.+              ...++.+|
T Consensus       485 ~~~~giLL~GppGtGKT~lakalA~----e~~~~fi~v~-------~~~l~~~~vGes--------------e~~i~~~f  539 (733)
T TIGR01243       485 RPPKGVLLFGPPGTGKTLLAKAVAT----ESGANFIAVR-------GPEILSKWVGES--------------EKAIREIF  539 (733)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH----hcCCCEEEEe-------hHHHhhcccCcH--------------HHHHHHHH
Confidence            3567899999999999999998776    3455666663       233333333332              56788899


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCC-cchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTN-PRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYI  175 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~  175 (233)
                      ..+.  ...|++|||||++++...     ++.. ......++.++|+..++.+    .....++||++||.++......+
T Consensus       540 ~~A~--~~~p~iifiDEid~l~~~-----r~~~~~~~~~~~~~~~lL~~ldg~----~~~~~v~vI~aTn~~~~ld~all  608 (733)
T TIGR01243       540 RKAR--QAAPAIIFFDEIDAIAPA-----RGARFDTSVTDRIVNQLLTEMDGI----QELSNVVVIAATNRPDILDPALL  608 (733)
T ss_pred             HHHH--hcCCEEEEEEChhhhhcc-----CCCCCCccHHHHHHHHHHHHhhcc----cCCCCEEEEEeCCChhhCCHhhc
Confidence            8776  444999999999999984     2211 2223345556666655554    23456889999998875544322


Q ss_pred             HHHhhccceEEEec
Q 041690          176 YKRWISSIFTVKGD  189 (233)
Q Consensus       176 ~~~~~~~~~~i~~~  189 (233)
                      ...+|+.+++++..
T Consensus       609 RpgRfd~~i~v~~P  622 (733)
T TIGR01243       609 RPGRFDRLILVPPP  622 (733)
T ss_pred             CCCccceEEEeCCc
Confidence            23588988888864

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.51  E-value=5.1e-14  Score=127.47  Aligned_cols=151  Identities=13%  Similarity=0.156  Sum_probs=106.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      -+.+++++||||||||.||+++|.    +.+-+..+++       ..+|+....+..              ...++++|.
T Consensus       182 iPkGvlLvGpPGTGKTLLAkAvAg----EA~VPFf~iS-------GS~FVemfVGvG--------------AsRVRdLF~  236 (596)
T COG0465         182 IPKGVLLVGPPGTGKTLLAKAVAG----EAGVPFFSIS-------GSDFVEMFVGVG--------------ASRVRDLFE  236 (596)
T ss_pred             cccceeEecCCCCCcHHHHHHHhc----ccCCCceecc-------chhhhhhhcCCC--------------cHHHHHHHH
Confidence            457899999999999999995544    6677788874       445554444332              568899999


Q ss_pred             HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHH
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYK  177 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~  177 (233)
                      .++  ++.||+||||||+++-+.+-.+ -++...+++.. .++|+.-||.+    ..+..++++++||+++......+..
T Consensus       237 qAk--k~aP~IIFIDEiDAvGr~Rg~g-~GggnderEQT-LNQlLvEmDGF----~~~~gviviaaTNRpdVlD~ALlRp  308 (596)
T COG0465         237 QAK--KNAPCIIFIDEIDAVGRQRGAG-LGGGNDEREQT-LNQLLVEMDGF----GGNEGVIVIAATNRPDVLDPALLRP  308 (596)
T ss_pred             Hhh--ccCCCeEEEehhhhcccccCCC-CCCCchHHHHH-HHHHHhhhccC----CCCCceEEEecCCCcccchHhhcCC
Confidence            887  5559999999999999953111 12223333322 35666667776    3456799999999998877777778


Q ss_pred             HhhccceEEEec--CCccEEEeeccC
Q 041690          178 RWISSIFTVKGD--GPGSFLLRNKNY  201 (233)
Q Consensus       178 ~~~~~~~~i~~~--~~~~~~l~~~~~  201 (233)
                      .+||+.+.++..  ..++.++.-|..
T Consensus       309 gRFDRqI~V~~PDi~gRe~IlkvH~~  334 (596)
T COG0465         309 GRFDRQILVELPDIKGREQILKVHAK  334 (596)
T ss_pred             CCcceeeecCCcchhhHHHHHHHHhh
Confidence            889998888864  445566664443

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.49  E-value=1.7e-13  Score=123.24  Aligned_cols=145  Identities=16%  Similarity=0.243  Sum_probs=87.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC----CCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS----NANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEI   92 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~----g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l   92 (233)
                      .++..++||||||||||++++.++..+....    +....|+...     ....+....+.              ....+
T Consensus       214 ~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~-----~~eLl~kyvGe--------------te~~i  274 (512)
T TIGR03689       214 KPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIK-----GPELLNKYVGE--------------TERQI  274 (512)
T ss_pred             CCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEecc-----chhhcccccch--------------HHHHH
Confidence            3667899999999999999999988765220    2233343211     11111111111              14466


Q ss_pred             HHHHHHhccc--CCCCcEEEEeCCCccccccccccccC-CcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCC
Q 041690           93 KKYFAAFHQH--DKIPTAVVVDDFGDLFDDRTCQERYT-NPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNS  169 (233)
Q Consensus        93 ~~~~~~~~~~--~~~p~iIvIDei~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~  169 (233)
                      +.+|..+...  ...|++|||||+++++..     |+. .+.+.+.++..+|+..++.+.   . ...+++|++||.++.
T Consensus       275 r~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~-----R~~~~s~d~e~~il~~LL~~LDgl~---~-~~~ViVI~ATN~~d~  345 (512)
T TIGR03689       275 RLIFQRAREKASDGRPVIVFFDEMDSIFRT-----RGSGVSSDVETTVVPQLLSELDGVE---S-LDNVIVIGASNREDM  345 (512)
T ss_pred             HHHHHHHHHHhhcCCCceEEEehhhhhhcc-----cCCCccchHHHHHHHHHHHHhcccc---c-CCceEEEeccCChhh
Confidence            7777766432  335999999999999974     221 223334455556655555542   2 245788888988765


Q ss_pred             chhHHHHHHhhccceEEEec
Q 041690          170 TRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       170 ~~~~~~~~~~~~~~~~i~~~  189 (233)
                      .......+.+|+..++++..
T Consensus       346 LDpALlRpGRfD~~I~~~~P  365 (512)
T TIGR03689       346 IDPAILRPGRLDVKIRIERP  365 (512)
T ss_pred             CCHhhcCccccceEEEeCCC
Confidence            44432333588988888864

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.49  E-value=1.7e-13  Score=120.68  Aligned_cols=140  Identities=18%  Similarity=0.196  Sum_probs=83.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||++|+.++...    +..++.++..       .+.....+.              ....++.+|
T Consensus       163 ~~p~gvLL~GppGtGKT~lAkaia~~~----~~~~i~v~~~-------~l~~~~~g~--------------~~~~i~~~f  217 (389)
T PRK03992        163 EPPKGVLLYGPPGTGKTLLAKAVAHET----NATFIRVVGS-------ELVQKFIGE--------------GARLVRELF  217 (389)
T ss_pred             CCCCceEEECCCCCChHHHHHHHHHHh----CCCEEEeehH-------HHhHhhccc--------------hHHHHHHHH
Confidence            466789999999999999999887643    4556666421       111111111              145667777


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++++....     .+..........+.+..++..+..... ...+++|+++|.++........
T Consensus       218 ~~a~--~~~p~IlfiDEiD~l~~~r-----~~~~~~~~~~~~~~l~~lL~~ld~~~~-~~~v~VI~aTn~~~~ld~allR  289 (389)
T PRK03992        218 ELAR--EKAPSIIFIDEIDAIAAKR-----TDSGTSGDREVQRTLMQLLAEMDGFDP-RGNVKIIAATNRIDILDPAILR  289 (389)
T ss_pred             HHHH--hcCCeEEEEechhhhhccc-----ccCCCCccHHHHHHHHHHHHhccccCC-CCCEEEEEecCChhhCCHHHcC
Confidence            7665  3349999999999998742     212111122334444444443332222 2356777888776544333222


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+|+..++++..
T Consensus       290 pgRfd~~I~v~~P  302 (389)
T PRK03992        290 PGRFDRIIEVPLP  302 (389)
T ss_pred             CccCceEEEECCC
Confidence            3477888888864

>PRK05973 replicative DNA helicase; Provisional

Probab=99.49  E-value=3.4e-13  Score=110.42  Aligned_cols=133  Identities=20%  Similarity=0.177  Sum_probs=76.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-cccCCchhhhcceEEEEecCHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-QSIDPSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-~~~~~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      .+|+.++|.|+||+|||+|+.+++.+.+ ..|.+++|++.|..-..-..++. .+++. +...+.+.+...+.. ....+
T Consensus        62 ~~Gsl~LIaG~PG~GKT~lalqfa~~~a-~~Ge~vlyfSlEes~~~i~~R~~s~g~d~-~~~~~~~~~d~~d~~-~~~~i  138 (237)
T PRK05973         62 KPGDLVLLGARPGHGKTLLGLELAVEAM-KSGRTGVFFTLEYTEQDVRDRLRALGADR-AQFADLFEFDTSDAI-CADYI  138 (237)
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHHH-hcCCeEEEEEEeCCHHHHHHHHHHcCCCh-HHhccceEeecCCCC-CHHHH
Confidence            6999999999999999999999999998 67999999997642111111111 12221 111122222222111 11112


Q ss_pred             HHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCC
Q 041690           96 FAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLG  167 (233)
Q Consensus        96 ~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~  167 (233)
                      +..+.. ...+++||||+++.+...        ... .+.+.+     +..+...+++.+.+++++++.+..
T Consensus       139 i~~l~~-~~~~~lVVIDsLq~l~~~--------~~~-~el~~~-----~~~Lk~~Ak~~gitvIl~sQl~r~  195 (237)
T PRK05973        139 IARLAS-APRGTLVVIDYLQLLDQR--------REK-PDLSVQ-----VRALKSFARERGLIIVFISQIDRS  195 (237)
T ss_pred             HHHHHH-hhCCCEEEEEcHHHHhhc--------ccc-hhHHHH-----HHHHHHHHHhCCCeEEEEecCccc
Confidence            222211 234899999999887532        011 111111     233444456789999999888754

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.47  E-value=2.9e-13  Score=122.32  Aligned_cols=155  Identities=13%  Similarity=0.126  Sum_probs=95.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-ccccCCchhhhc-ceEEEEec-----CH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-SQSIDPSSHVFK-LIQMKYVE-----DD   89 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~~~~~~~~~~~~-~i~~~~~~-----~~   89 (233)
                      .+|+.++|.||||+|||+|+.||+.+.+ ..|.+++|++.|+..+.-..+. ..+++..+...+ ++.+....     ..
T Consensus       261 ~~gs~~li~G~~G~GKt~l~~~f~~~~~-~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~~~~~~  339 (484)
T TIGR02655       261 FKDSIILATGATGTGKTLLVSKFLENAC-ANKERAILFAYEESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPESAGLE  339 (484)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEEeeCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccccCChH
Confidence            6999999999999999999999999998 7799999999774222111111 112222222222 35543322     13


Q ss_pred             HHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCC--
Q 041690           90 EEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLG--  167 (233)
Q Consensus        90 ~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~--  167 (233)
                      +.+..+...+.  +..|++||||+++++....        +. ...+.     .++.+...+++.+.+++++.+++..  
T Consensus       340 ~~~~~i~~~i~--~~~~~~vvIDsi~~~~~~~--------~~-~~~r~-----~~~~l~~~lk~~~it~~~t~~~~~~~~  403 (484)
T TIGR02655       340 DHLQIIKSEIA--DFKPARIAIDSLSALARGV--------SN-NAFRQ-----FVIGVTGYAKQEEITGFFTNTSDQFMG  403 (484)
T ss_pred             HHHHHHHHHHH--HcCCCEEEEcCHHHHHHhc--------CH-HHHHH-----HHHHHHHHHhhCCCeEEEeeccccccc
Confidence            44445555443  3449999999999987631        11 11111     2556677788899999999877642  


Q ss_pred             CCchhHHHHHHhhccceEEEe
Q 041690          168 NSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .......-..+..|.++.+.-
T Consensus       404 ~~~~~~~~~s~l~D~ii~l~~  424 (484)
T TIGR02655       404 SHSITDSHISTITDTILMLQY  424 (484)
T ss_pred             CCccCCCCeeEeeeEEEEEEE
Confidence            111111124566777777764

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=99.47  E-value=9.1e-13  Score=108.09  Aligned_cols=156  Identities=13%  Similarity=0.152  Sum_probs=87.9

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-ccccCCchhhhc-ceEEEEe----cC-
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-SQSIDPSSHVFK-LIQMKYV----ED-   88 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~~~~~~~~~~~~-~i~~~~~----~~-   88 (233)
                      .++|+.++|.||||||||||+.+++...+ +.|.+++|++++.........+ ..+++..+...+ .+.+...    .. 
T Consensus        21 i~~g~~~~i~G~~G~GKTtl~~~~~~~~~-~~g~~~~yi~~e~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~   99 (230)
T PRK08533         21 IPAGSLILIEGDESTGKSILSQRLAYGFL-QNGYSVSYVSTQLTTTEFIKQMMSLGYDINKKLISGKLLYIPVYPLLSGN   99 (230)
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEEeCCCCHHHHHHHHHHhCCchHHHhhcCcEEEEEecccccCh
Confidence            36899999999999999999999998887 6789999999774222111111 112222111111 2222111    11 


Q ss_pred             ---HHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecC
Q 041690           89 ---DEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTH  165 (233)
Q Consensus        89 ---~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~  165 (233)
                         ...+..++..+.  ...|++++|||+++++...        .....   .   ..+++.++.+++.+.+++++.++.
T Consensus       100 ~~~~~~l~~il~~~~--~~~~~~lVIDe~t~~l~~~--------~d~~~---~---~~l~~~l~~l~~~g~tvi~t~~~~  163 (230)
T PRK08533        100 SEKRKFLKKLMNTRR--FYEKDVIIIDSLSSLISND--------ASEVA---V---NDLMAFFKRISSLNKVIILTANPK  163 (230)
T ss_pred             HHHHHHHHHHHHHHH--hcCCCEEEEECccHHhcCC--------cchHH---H---HHHHHHHHHHHhCCCEEEEEeccc
Confidence               123333333322  2348999999999987521        01111   1   124556666666677666655544


Q ss_pred             CCCCchhHHHHHHhhccceEEEec
Q 041690          166 LGNSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      ..... .....++++|.++.+...
T Consensus       164 ~~~~~-~~~~~~~~~DgvI~L~~~  186 (230)
T PRK08533        164 ELDES-VLTILRTAATMLIRLEVK  186 (230)
T ss_pred             ccccc-cceeEEEeeeEEEEEEEe
Confidence            22111 112457778888888753

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=99.45  E-value=1.8e-12  Score=121.17  Aligned_cols=160  Identities=13%  Similarity=0.162  Sum_probs=98.9

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccccc-ccCCchhhhcceEEEEecCHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQ-SIDPSSHVFKLIQMKYVEDDEEIKK   94 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~l~~   94 (233)
                      .++|++++|+||||||||+||.+++...+ ..|.+++||++|+.+...  +... +++.     +++.+......+....
T Consensus        57 ip~GsiteI~G~~GsGKTtLal~~~~~a~-~~G~~v~yId~E~t~~~~--~A~~lGvDl-----~~llv~~~~~~E~~l~  128 (790)
T PRK09519         57 LPRGRVIEIYGPESSGKTTVALHAVANAQ-AAGGVAAFIDAEHALDPD--YAKKLGVDT-----DSLLVSQPDTGEQALE  128 (790)
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEECCccchhHH--HHHHcCCCh-----hHeEEecCCCHHHHHH
Confidence            36899999999999999999999998887 678999999999766521  1111 1211     1333333333444333


Q ss_pred             HHHHhcccCCCCcEEEEeCCCcccc-ccccccccCCcchhhHHHH-HHH-HHHHHHHHHhhhcCCcEEEEeecCC-----
Q 041690           95 YFAAFHQHDKIPTAVVVDDFGDLFD-DRTCQERYTNPRGRDLAMV-RTL-ALCYNAITHANKKSPCKLLLSDTHL-----  166 (233)
Q Consensus        95 ~~~~~~~~~~~p~iIvIDei~~~~~-~~~~~~~~~~~~~~~~~~~-~~l-~~l~~~~~~l~~~~~~vlvi~~~~~-----  166 (233)
                      ....+. .+..+++|||||+++++. ....+ +.+..   ....+ +.+ ..++.+...+++.+.+++++.....     
T Consensus       129 ~i~~lv-~~~~~~LVVIDSI~aL~~r~E~~g-~~g~~---~~~~q~rl~~q~L~~L~~~l~~~nvtvi~TNQv~~~~g~~  203 (790)
T PRK09519        129 IADMLI-RSGALDIVVIDSVAALVPRAELEG-EMGDS---HVGLQARLMSQALRKMTGALNNSGTTAIFINQLRDKIGVM  203 (790)
T ss_pred             HHHHHh-hcCCCeEEEEcchhhhcchhhccC-CCCcc---cHHHHHHHHHHHHHHHHHHHHhCCCEEEEEecceecCCCc
Confidence            333321 134599999999999995 22111 11111   11111 111 1244455556666777777655432     


Q ss_pred             ---CCCchhHHHHHHhhccceEEEe
Q 041690          167 ---GNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       167 ---~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                         +..|.+..++.|+....+.+.+
T Consensus       204 fg~p~~~~GG~~l~h~ss~Ri~lrk  228 (790)
T PRK09519        204 FGSPETTTGGKALKFYASVRMDVRR  228 (790)
T ss_pred             CCCCCcCCCCcccceeccEEEEeee
Confidence               2356677899999999999885

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.44  E-value=4.5e-13  Score=121.54  Aligned_cols=140  Identities=12%  Similarity=0.174  Sum_probs=83.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||++++.+|.    ..+.++++++..       .+.....+.              ....++.+|
T Consensus        86 ~~~~giLL~GppGtGKT~la~alA~----~~~~~~~~i~~~-------~~~~~~~g~--------------~~~~l~~~f  140 (495)
T TIGR01241        86 KIPKGVLLVGPPGTGKTLLAKAVAG----EAGVPFFSISGS-------DFVEMFVGV--------------GASRVRDLF  140 (495)
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHH----HcCCCeeeccHH-------HHHHHHhcc--------------cHHHHHHHH
Confidence            3556799999999999999998765    445667776421       111111111              155778888


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++++......+  ............++++..++.+   . ....++||+++|.++........
T Consensus       141 ~~a~--~~~p~Il~iDEid~l~~~r~~~--~~~~~~~~~~~~~~lL~~~d~~---~-~~~~v~vI~aTn~~~~ld~al~r  212 (495)
T TIGR01241       141 EQAK--KNAPCIIFIDEIDAVGRQRGAG--LGGGNDEREQTLNQLLVEMDGF---G-TNTGVIVIAATNRPDVLDPALLR  212 (495)
T ss_pred             HHHH--hcCCCEEEEechhhhhhccccC--cCCccHHHHHHHHHHHhhhccc---c-CCCCeEEEEecCChhhcCHHHhc
Confidence            8765  3449999999999998742110  0011112223333444333333   2 23457888888887644333222


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      +.+|+..++++..
T Consensus       213 ~gRfd~~i~i~~P  225 (495)
T TIGR01241       213 PGRFDRQVVVDLP  225 (495)
T ss_pred             CCcceEEEEcCCC
Confidence            3478888888754

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=99.44  E-value=3.4e-12  Score=104.93  Aligned_cols=155  Identities=13%  Similarity=0.139  Sum_probs=87.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-ccccCCchhh-hcceEEEEe-------
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-SQSIDPSSHV-FKLIQMKYV-------   86 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~~~~~~~~~~-~~~i~~~~~-------   86 (233)
                      .++|+.++|+||||||||+|+.|++...+ ..|.+++|++.++........+ ..+++..+.. ...+.+...       
T Consensus        22 ~~~g~~~~i~G~~GsGKt~l~~~~~~~~~-~~g~~~~y~~~e~~~~~~~~~~~~~g~~~~~~~~~g~l~i~~~~~~~~~~  100 (234)
T PRK06067         22 IPFPSLILIEGDHGTGKSVLSQQFVYGAL-KQGKKVYVITTENTSKSYLKQMESVKIDISDFFLWGYLRIFPLNTEGFEW  100 (234)
T ss_pred             CcCCcEEEEECCCCCChHHHHHHHHHHHH-hCCCEEEEEEcCCCHHHHHHHHHHCCCChhHHHhCCCceEEecccccccc
Confidence            36899999999999999999999998887 6799999999875332211111 1112221111 112222111       


Q ss_pred             --cC-HHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEee
Q 041690           87 --ED-DEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSD  163 (233)
Q Consensus        87 --~~-~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~  163 (233)
                        .. ...+..+...+.  +..|++|||||++++....        .. .      .+..+++.+..+++++.+++++++
T Consensus       101 ~~~~~~~ll~~l~~~i~--~~~~~~iviDs~t~~~~~~--------~~-~------~~~~~l~~l~~l~~~g~tvllt~~  163 (234)
T PRK06067        101 NSTLANKLLELIIEFIK--SKREDVIIIDSLTIFATYA--------EE-D------DILNFLTEAKNLVDLGKTILITLH  163 (234)
T ss_pred             CcchHHHHHHHHHHHHH--hcCCCEEEEecHHHHHhcC--------CH-H------HHHHHHHHHHHHHhCCCEEEEEec
Confidence              01 112222222222  2348999999999876521        10 1      112233445555567777777765


Q ss_pred             cCCCCCchhHHHHHHhhccceEEEec
Q 041690          164 THLGNSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      .... .......+.++.|.++.+...
T Consensus       164 ~~~~-~~~~~~~~~~l~DgvI~L~~~  188 (234)
T PRK06067        164 PYAF-SEELLSRIRSICDVYLKLRAE  188 (234)
T ss_pred             CCcC-CHHHHHHHHhheEEEEEEEee
Confidence            4332 222223467778888887753

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=99.44  E-value=3.6e-13  Score=119.43  Aligned_cols=140  Identities=17%  Similarity=0.227  Sum_probs=83.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||++++.++....    ..++.+...       ++...+.+.              ....++.+|
T Consensus       215 ~~p~gVLL~GPPGTGKT~LAraIA~el~----~~fi~V~~s-------eL~~k~~Ge--------------~~~~vr~lF  269 (438)
T PTZ00361        215 KPPKGVILYGPPGTGKTLLAKAVANETS----ATFLRVVGS-------ELIQKYLGD--------------GPKLVRELF  269 (438)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhhC----CCEEEEecc-------hhhhhhcch--------------HHHHHHHHH
Confidence            4778899999999999999998876443    344544311       111111111              144577778


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++++...     +.......+...++.+..++..+..+.... .+.+|+++|..+.......-
T Consensus       270 ~~A~--~~~P~ILfIDEID~l~~k-----R~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~-~V~VI~ATNr~d~LDpaLlR  341 (438)
T PTZ00361        270 RVAE--ENAPSIVFIDEIDAIGTK-----RYDATSGGEKEIQRTMLELLNQLDGFDSRG-DVKVIMATNRIESLDPALIR  341 (438)
T ss_pred             HHHH--hCCCcEEeHHHHHHHhcc-----CCCCCCcccHHHHHHHHHHHHHHhhhcccC-CeEEEEecCChHHhhHHhcc
Confidence            7665  345999999999999873     222222233344455555555554443332 45666677766544333222


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+++..+.++..
T Consensus       342 pGRfd~~I~~~~P  354 (438)
T PTZ00361        342 PGRIDRKIEFPNP  354 (438)
T ss_pred             CCeeEEEEEeCCC
Confidence            3578888888764

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=99.43  E-value=2.4e-13  Score=128.59  Aligned_cols=153  Identities=16%  Similarity=0.224  Sum_probs=113.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .|++.+|++||||||||..++.++.++. ..+.++.|..     ...+.-++.|++++              ..+++-+|
T Consensus       297 tpPrgvL~~GppGTGkTl~araLa~~~s-~~~~kisffm-----rkgaD~lskwvgEa--------------ERqlrllF  356 (1080)
T KOG0732|consen  297 TPPRGVLFHGPPGTGKTLMARALAAACS-RGNRKISFFM-----RKGADCLSKWVGEA--------------ERQLRLLF  356 (1080)
T ss_pred             CCCcceeecCCCCCchhHHHHhhhhhhc-ccccccchhh-----hcCchhhccccCcH--------------HHHHHHHH
Confidence            4788999999999999999999998887 6666666652     24455566666554              67888899


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|+||++|||+.+.+.+     +.-...-...++.+|+.+|+.+    .....|+|++++|+++....+...
T Consensus       357 eeA~--k~qPSIIffdeIdGlapvr-----SskqEqih~SIvSTLLaLmdGl----dsRgqVvvigATnRpda~dpaLRR  425 (1080)
T KOG0732|consen  357 EEAQ--KTQPSIIFFDEIDGLAPVR-----SSKQEQIHASIVSTLLALMDGL----DSRGQVVVIGATNRPDAIDPALRR  425 (1080)
T ss_pred             HHHh--ccCceEEeccccccccccc-----cchHHHhhhhHHHHHHHhccCC----CCCCceEEEcccCCccccchhhcC
Confidence            9887  4449999999999998843     2233334455677888888887    556779999999999877766666


Q ss_pred             HHhhccceEEEec--CCccEEEeecc
Q 041690          177 KRWISSIFTVKGD--GPGSFLLRNKN  200 (233)
Q Consensus       177 ~~~~~~~~~i~~~--~~~~~~l~~~~  200 (233)
                      .+.|++.+++.-.  .++..+|.-|.
T Consensus       426 Pgrfdref~f~lp~~~ar~~Il~Iht  451 (1080)
T KOG0732|consen  426 PGRFDREFYFPLPDVDARAKILDIHT  451 (1080)
T ss_pred             CcccceeEeeeCCchHHHHHHHHHhc
Confidence            8889999998753  44444444433

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=99.43  E-value=1e-12  Score=107.31  Aligned_cols=158  Identities=13%  Similarity=0.141  Sum_probs=89.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-ccccCCchhhhcceEEEEecCHH---HH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-SQSIDPSSHVFKLIQMKYVEDDE---EI   92 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~~~~~~~~~~~~~i~~~~~~~~~---~l   92 (233)
                      ++|+.++|.|+||+|||+|+.+++...+ +.|.+++|++.|.....-...+ ..+++..+...+++.+......+   .+
T Consensus        14 ~~g~~~li~G~~G~GKt~~~~~~~~~~~-~~g~~~~y~s~e~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   92 (224)
T TIGR03880        14 PEGHVIVVIGEYGTGKTTFSLQFLYQGL-KNGEKAMYISLEEREERILGYAKSKGWDLEDYIDKSLYIVRLDPSDFKTSL   92 (224)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEECCCCHHHHHHHHHHcCCChHHHHhCCeEEEecCHHHHHhhH
Confidence            5799999999999999999999999888 6699999999874221111111 11222211111224332222111   11


Q ss_pred             HHHHHHhcc--cCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCC-
Q 041690           93 KKYFAAFHQ--HDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNS-  169 (233)
Q Consensus        93 ~~~~~~~~~--~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~-  169 (233)
                      ..+...+..  .+..++++|||+++.+...        .......+..     ++.+++.+++.+.+++++++.+.... 
T Consensus        93 ~~l~~~~~~~i~~~~~~~vVIDsls~l~~~--------~~~~~~~r~~-----l~~l~~~lk~~~~tvll~s~~~~~~~~  159 (224)
T TIGR03880        93 NRIKNELPILIKELGASRVVIDPISLLETL--------FDDDAERRTE-----LFRFYSSLRETGVTTILTSEADKTNVF  159 (224)
T ss_pred             HHHHHHHHHHHHHhCCCEEEEcChHHHhhh--------cCCHHHHHHH-----HHHHHHHHHhCCCEEEEEEcccCCCCC
Confidence            222211110  1233889999999987431        0111111111     45566667778888888887654211 


Q ss_pred             chhHHHHHHhhccceEEEe
Q 041690          170 TRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       170 ~~~~~~~~~~~~~~~~i~~  188 (233)
                      .......++.+|.++.+..
T Consensus       160 ~~~~~~~~~l~D~vI~L~~  178 (224)
T TIGR03880       160 ASKYGLIEYLADGVIILKY  178 (224)
T ss_pred             ccCCCceEEEEeEEEEEee
Confidence            1111246778888888874

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=99.39  E-value=3.7e-12  Score=104.30  Aligned_cols=156  Identities=17%  Similarity=0.172  Sum_probs=86.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccccc-ccCCchhhhc--ceEEE--E-----
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQ-SIDPSSHVFK--LIQMK--Y-----   85 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~-~~~~~~~~~~--~i~~~--~-----   85 (233)
                      .++|+.++|+||||||||+|+.+++.+.+ ..|.+++|++.|...+.-...... +++ .+...+  ++.+.  +     
T Consensus        17 i~~G~~~~i~G~~G~GKT~l~~~~~~~~~-~~g~~~~~is~e~~~~~i~~~~~~~g~~-~~~~~~~~~l~i~d~~~~~~~   94 (229)
T TIGR03881        17 IPRGFFVAVTGEPGTGKTIFCLHFAYKGL-RDGDPVIYVTTEESRESIIRQAAQFGMD-FEKAIEEGKLVIIDALMKEKE   94 (229)
T ss_pred             CcCCeEEEEECCCCCChHHHHHHHHHHHH-hcCCeEEEEEccCCHHHHHHHHHHhCCC-HHHHhhcCCEEEEEccccccc
Confidence            46899999999999999999999998877 668999999977432211111100 111 111111  22210  0     


Q ss_pred             ------ecCHHHHHHHHH-HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcE
Q 041690           86 ------VEDDEEIKKYFA-AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCK  158 (233)
Q Consensus        86 ------~~~~~~l~~~~~-~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~v  158 (233)
                            ....+.+..... ........++++|||+++.++...        +  ...+   .  .++.+...+++.+.++
T Consensus        95 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~~~--------~--~~~r---~--~~~~l~~~l~~~~~tv  159 (229)
T TIGR03881        95 DEWSLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSAFWLDK--------P--AMAR---K--YSYYLKRVLNRWNFTI  159 (229)
T ss_pred             cccccccCCHHHHHHHHHHHHHhhccCceEEEecCchhhhccC--------h--HHHH---H--HHHHHHHHHHhCCCEE
Confidence                  001222222222 222112237899999999987521        1  1111   1  1334444556778888


Q ss_pred             EEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          159 LLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       159 lvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +++++.+........+.+++.+|.++.+..
T Consensus       160 il~~~~~~~~~~~~~~~~~~l~D~vI~L~~  189 (229)
T TIGR03881       160 LLTSQYAITTSQAFGFGIEHVADGIIRFRK  189 (229)
T ss_pred             EEEecccccCCCCcccceEEEEeEEEEEEE
Confidence            888775432211111245677888888875

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>CHL00176 ftsH cell division protein; Validated

Probab=99.38  E-value=2.3e-12  Score=119.25  Aligned_cols=139  Identities=14%  Similarity=0.171  Sum_probs=80.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      ....++|+||||||||+|++.+|.    +.+.++++++..       .+.....+.              ....++.+|.
T Consensus       215 ~p~gVLL~GPpGTGKT~LAralA~----e~~~p~i~is~s-------~f~~~~~g~--------------~~~~vr~lF~  269 (638)
T CHL00176        215 IPKGVLLVGPPGTGKTLLAKAIAG----EAEVPFFSISGS-------EFVEMFVGV--------------GAARVRDLFK  269 (638)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH----HhCCCeeeccHH-------HHHHHhhhh--------------hHHHHHHHHH
Confidence            456799999999999999998866    345677777522       111111111              1446777887


Q ss_pred             HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHH
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYK  177 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~  177 (233)
                      .+.  ...|++|||||++++...+..+.  +...........+|+..++.+    .....+++++++|.++........+
T Consensus       270 ~A~--~~~P~ILfIDEID~l~~~r~~~~--~~~~~e~~~~L~~LL~~~dg~----~~~~~ViVIaaTN~~~~LD~ALlRp  341 (638)
T CHL00176        270 KAK--ENSPCIVFIDEIDAVGRQRGAGI--GGGNDEREQTLNQLLTEMDGF----KGNKGVIVIAATNRVDILDAALLRP  341 (638)
T ss_pred             HHh--cCCCcEEEEecchhhhhcccCCC--CCCcHHHHHHHHHHHhhhccc----cCCCCeeEEEecCchHhhhhhhhcc
Confidence            765  44599999999999986321100  011111112222333222222    2334678888888765433332334


Q ss_pred             HhhccceEEEec
Q 041690          178 RWISSIFTVKGD  189 (233)
Q Consensus       178 ~~~~~~~~i~~~  189 (233)
                      .+|+..+.++..
T Consensus       342 GRFd~~I~v~lP  353 (638)
T CHL00176        342 GRFDRQITVSLP  353 (638)
T ss_pred             ccCceEEEECCC
Confidence            578888887753

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.38  E-value=9.3e-13  Score=110.01  Aligned_cols=156  Identities=21%  Similarity=0.280  Sum_probs=93.6

Q ss_pred             cccccccccCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEE---EecCCcccccccccccccCCchhhhcceEE
Q 041690            7 DGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVF---MCNRSRLQSKRPYLSQSIDPSSHVFKLIQM   83 (233)
Q Consensus         7 ~~~~~~~~~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~y---i~~e~~l~~~~~~~~~~~~~~~~~~~~i~~   83 (233)
                      +...+..-...-++.+|++||||||||+||+.+|..+..+...+..|   |-    + .+...++.|+.++         
T Consensus       165 sek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liE----i-nshsLFSKWFsES---------  230 (423)
T KOG0744|consen  165 SEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIE----I-NSHSLFSKWFSES---------  230 (423)
T ss_pred             HhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEE----E-ehhHHHHHHHhhh---------
Confidence            33334444445788999999999999999999888766442221111   10    0 2233445555444         


Q ss_pred             EEecCHHHHHHHHHHhccc---CCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEE
Q 041690           84 KYVEDDEEIKKYFAAFHQH---DKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLL  160 (233)
Q Consensus        84 ~~~~~~~~l~~~~~~~~~~---~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlv  160 (233)
                           ++.+.++|..+...   +...-.|+|||++++...+.+. .+++......+.++.++..+|.+    ++..-+++
T Consensus       231 -----gKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s~-~S~~EpsDaIRvVNalLTQlDrl----K~~~Nvli  300 (423)
T KOG0744|consen  231 -----GKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTSA-SSRNEPSDAIRVVNALLTQLDRL----KRYPNVLI  300 (423)
T ss_pred             -----hhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHHhh-hcCCCCchHHHHHHHHHHHHHHh----ccCCCEEE
Confidence                 66666776655322   2334578899999998864221 12233334457788888888877    45566777


Q ss_pred             EeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          161 LSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       161 i~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +++.|..+..+.  ++-.+-|-++++.+
T Consensus       301 L~TSNl~~siD~--AfVDRADi~~yVG~  326 (423)
T KOG0744|consen  301 LATSNLTDSIDV--AFVDRADIVFYVGP  326 (423)
T ss_pred             EeccchHHHHHH--HhhhHhhheeecCC
Confidence            777776554322  33344455555554

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.38  E-value=2.8e-12  Score=121.46  Aligned_cols=136  Identities=15%  Similarity=0.194  Sum_probs=84.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||+|++.++...    +..+++++.       .+......+.              ....++.+|
T Consensus       210 ~~~~giLL~GppGtGKT~laraia~~~----~~~~i~i~~-------~~i~~~~~g~--------------~~~~l~~lf  264 (733)
T TIGR01243       210 EPPKGVLLYGPPGTGKTLLAKAVANEA----GAYFISING-------PEIMSKYYGE--------------SEERLREIF  264 (733)
T ss_pred             CCCceEEEECCCCCChHHHHHHHHHHh----CCeEEEEec-------HHHhcccccH--------------HHHHHHHHH
Confidence            577899999999999999999887643    456666642       1222221111              155677788


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|+|||++++...     +.......+.+.+.+|+.+++.+   . ....++++++++.++........
T Consensus       265 ~~a~--~~~p~il~iDEid~l~~~-----r~~~~~~~~~~~~~~Ll~~ld~l---~-~~~~vivI~atn~~~~ld~al~r  333 (733)
T TIGR01243       265 KEAE--ENAPSIIFIDEIDAIAPK-----REEVTGEVEKRVVAQLLTLMDGL---K-GRGRVIVIGATNRPDALDPALRR  333 (733)
T ss_pred             HHHH--hcCCcEEEeehhhhhccc-----ccCCcchHHHHHHHHHHHHhhcc---c-cCCCEEEEeecCChhhcCHHHhC
Confidence            7765  344899999999999873     32233334445566666655544   2 33457778788776543322222


Q ss_pred             HHhhccceEEEe
Q 041690          177 KRWISSIFTVKG  188 (233)
Q Consensus       177 ~~~~~~~~~i~~  188 (233)
                      ..+|+..+.+..
T Consensus       334 ~gRfd~~i~i~~  345 (733)
T TIGR01243       334 PGRFDREIVIRV  345 (733)
T ss_pred             chhccEEEEeCC
Confidence            336677777664

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.38  E-value=6.3e-12  Score=113.70  Aligned_cols=154  Identities=14%  Similarity=0.115  Sum_probs=89.8

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-----cccCCchhhhc-ceEEEEe---
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-----QSIDPSSHVFK-LIQMKYV---   86 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-----~~~~~~~~~~~-~i~~~~~---   86 (233)
                      .++|+.++|.||||||||+|+.||+.+.+.+.|.+++||+.++    .++.+.     .+++..+...+ ++.+...   
T Consensus        18 lp~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~eE----~~~~l~~~~~~~G~~~~~~~~~g~l~~~~~~~~   93 (484)
T TIGR02655        18 LPIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFEE----SPQDIIKNARSFGWDLQKLVDEGKLFILDASPD   93 (484)
T ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEec----CHHHHHHHHHHcCCCHHHHhhcCceEEEecCch
Confidence            3689999999999999999999999988844589999999663    332221     12222211111 2333211   


Q ss_pred             ----------cCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCC
Q 041690           87 ----------EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSP  156 (233)
Q Consensus        87 ----------~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~  156 (233)
                                +....+..+...+.  ...++.|+||++.+++...        ......+     ..+++++..+++.+.
T Consensus        94 ~~~~~~~~~~~l~~~l~~i~~~ls--~g~~qRVvIDSl~aL~~~~--------~~~~~~r-----~~l~~Li~~L~~~g~  158 (484)
T TIGR02655        94 PEGQDVVGGFDLSALIERINYAIR--KYKAKRVSIDSVTAVFQQY--------DAVSVVR-----REIFRLVARLKQIGV  158 (484)
T ss_pred             hccccccccCCHHHHHHHHHHHHH--HhCCcEEEEeehhHhhhhc--------CchHHHH-----HHHHHHHHHHHHCCC
Confidence                      11122233333332  3348999999999886521        0001111     125566667777888


Q ss_pred             cEEEEeecCCCCCchhHH-HHHHhhccceEEEe
Q 041690          157 CKLLLSDTHLGNSTRLLY-IYKRWISSIFTVKG  188 (233)
Q Consensus       157 ~vlvi~~~~~~~~~~~~~-~~~~~~~~~~~i~~  188 (233)
                      +++++++..........+ +.++.+|.++.+..
T Consensus       159 TvLLtsh~~~~~~~~~~~~~~e~laDgVI~L~~  191 (484)
T TIGR02655       159 TTVMTTERIEEYGPIARYGVEEFVSDNVVILRN  191 (484)
T ss_pred             EEEEEecCcccccccccCCceeEeeeeEEEEEE
Confidence            898888765321111111 23666788887764

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.38  E-value=1.1e-12  Score=114.46  Aligned_cols=157  Identities=18%  Similarity=0.227  Sum_probs=100.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++...+|++||||+|||.|++.+|.    +.+..+..|+       .....+.+.+..              ...++.+|
T Consensus       184 ~p~rglLLfGPpgtGKtmL~~aiAs----E~~atff~iS-------assLtsK~~Ge~--------------eK~vralf  238 (428)
T KOG0740|consen  184 EPVRGLLLFGPPGTGKTMLAKAIAT----ESGATFFNIS-------ASSLTSKYVGES--------------EKLVRALF  238 (428)
T ss_pred             cccchhheecCCCCchHHHHHHHHh----hhcceEeecc-------HHHhhhhccChH--------------HHHHHHHH
Confidence            5778999999999999999996665    5556666664       222233333332              56888899


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..++..  .|.+|||||++.++.     +|.+...+...++..+++..++...  ......++++++||.+...... +.
T Consensus       239 ~vAr~~--qPsvifidEidslls-----~Rs~~e~e~srr~ktefLiq~~~~~--s~~~drvlvigaTN~P~e~Dea-~~  308 (428)
T KOG0740|consen  239 KVARSL--QPSVIFIDEIDSLLS-----KRSDNEHESSRRLKTEFLLQFDGKN--SAPDDRVLVIGATNRPWELDEA-AR  308 (428)
T ss_pred             HHHHhc--CCeEEEechhHHHHh-----hcCCcccccchhhhhHHHhhhcccc--CCCCCeEEEEecCCCchHHHHH-HH
Confidence            888743  499999999999998     4554555555565555544444332  2334589999999998765543 55


Q ss_pred             HHhhccceEEEec--CCccEEEeeccCcccccccc
Q 041690          177 KRWISSIFTVKGD--GPGSFLLRNKNYSRSCGLGK  209 (233)
Q Consensus       177 ~~~~~~~~~i~~~--~~~~~~l~~~~~~~~~~~~~  209 (233)
                      ++|.. +++|+..  +.+..++....+...+|+.+
T Consensus       309 Rrf~k-r~yiplPd~etr~~~~~~ll~~~~~~l~~  342 (428)
T KOG0740|consen  309 RRFVK-RLYIPLPDYETRSLLWKQLLKEQPNGLSD  342 (428)
T ss_pred             HHhhc-eeeecCCCHHHHHHHHHHHHHhCCCCccH
Confidence            55555 4447753  33334444333333455554

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.36  E-value=4e-12  Score=111.15  Aligned_cols=140  Identities=17%  Similarity=0.196  Sum_probs=77.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||++++.++....    ..++.+.       .........+.              ....++.+|
T Consensus       154 ~~p~gvLL~GppGtGKT~lakaia~~l~----~~~~~v~-------~~~l~~~~~g~--------------~~~~i~~~f  208 (364)
T TIGR01242       154 EPPKGVLLYGPPGTGKTLLAKAVAHETN----ATFIRVV-------GSELVRKYIGE--------------GARLVREIF  208 (364)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHhCC----CCEEecc-------hHHHHHHhhhH--------------HHHHHHHHH
Confidence            3567899999999999999998876433    3343332       11111111111              134566667


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++.+....     .+.....+...++.+..++..+...... ..+.+|+++|.++.......-
T Consensus       209 ~~a~--~~~p~il~iDEiD~l~~~~-----~~~~~~~~~~~~~~l~~ll~~ld~~~~~-~~v~vI~ttn~~~~ld~al~r  280 (364)
T TIGR01242       209 ELAK--EKAPSIIFIDEIDAIAAKR-----TDSGTSGDREVQRTLMQLLAELDGFDPR-GNVKVIAATNRPDILDPALLR  280 (364)
T ss_pred             HHHH--hcCCcEEEhhhhhhhcccc-----ccCCCCccHHHHHHHHHHHHHhhCCCCC-CCEEEEEecCChhhCChhhcC
Confidence            6554  3348999999999998632     2121112223344444444444322222 346677777765433322222


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+++..++++..
T Consensus       281 ~grfd~~i~v~~P  293 (364)
T TIGR01242       281 PGRFDRIIEVPLP  293 (364)
T ss_pred             cccCceEEEeCCc
Confidence            3467777777754

Many proteins may score above the trusted cutoff because an internal

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.35  E-value=1.9e-12  Score=128.10  Aligned_cols=154  Identities=14%  Similarity=0.136  Sum_probs=89.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccc-ccccc--cCCchh------hhcceE---EE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRP-YLSQS--IDPSSH------VFKLIQ---MK   84 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~-~~~~~--~~~~~~------~~~~i~---~~   84 (233)
                      .+++++||+||||||||.||+++|.    ..+.+.+.|+..+-++..+. +....  .++++.      ....+.   +.
T Consensus      1628 ~pPKGILLiGPPGTGKTlLAKALA~----es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e~~e 1703 (2281)
T CHL00206       1628 SPSRGILVIGSIGTGRSYLVKYLAT----NSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLT 1703 (2281)
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHH----hcCCceEEEEHHHHhhcccccccccccccccccccccccccccccchhhhh
Confidence            5888999999999999999997766    55677888764432211100 00000  000000      000000   00


Q ss_pred             --------EecC--HHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc
Q 041690           85 --------YVED--DEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK  154 (233)
Q Consensus        85 --------~~~~--~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~  154 (233)
                              ....  ...++.+|+.|+  +..||+|+||||+++....          .+. ....+|+..++.... ...
T Consensus      1704 ~~n~~~~~m~~~e~~~rIr~lFelAR--k~SPCIIFIDEIDaL~~~d----------s~~-ltL~qLLneLDg~~~-~~s 1769 (2281)
T CHL00206       1704 MMNALTMDMMPKIDRFYITLQFELAK--AMSPCIIWIPNIHDLNVNE----------SNY-LSLGLLVNSLSRDCE-RCS 1769 (2281)
T ss_pred             hcchhhhhhhhhhhHHHHHHHHHHHH--HCCCeEEEEEchhhcCCCc----------cce-ehHHHHHHHhccccc-cCC
Confidence                    0011  124788899887  4459999999999998731          011 112333333333211 112


Q ss_pred             CCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          155 SPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       155 ~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      ...|+|+++||.++..+.+.+.++++|+.+.|..
T Consensus      1770 ~~~VIVIAATNRPD~LDPALLRPGRFDR~I~Ir~ 1803 (2281)
T CHL00206       1770 TRNILVIASTHIPQKVDPALIAPNKLNTCIKIRR 1803 (2281)
T ss_pred             CCCEEEEEeCCCcccCCHhHcCCCCCCeEEEeCC
Confidence            3468999999999877666566679999999874

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=99.34  E-value=8.5e-12  Score=95.81  Aligned_cols=153  Identities=14%  Similarity=0.130  Sum_probs=79.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEec----CHHHHH-HH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVE----DDEEIK-KY   95 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~----~~~~l~-~~   95 (233)
                      +++|+||||+|||+++.+++...+ ..+.+++|++.+.........+.. . ......+++.+....    ...... ..
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~-~~~~~v~~~~~e~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIA-TKGGKVVYVDIEEEIEELTERLIG-E-SLKGALDNLIIVFATADDPAAARLLSKA   77 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHH-hcCCEEEEEECCcchHHHHHHHhh-h-hhccccccEEEEEcCCCCCcHHHHHHHH
Confidence            378999999999999999999888 678999999977432211111000 0 000011122221111    111111 11


Q ss_pred             HHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCch----
Q 041690           96 FAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTR----  171 (233)
Q Consensus        96 ~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~----  171 (233)
                      ...+.  ...|.++||||++.+.+..... .  .....  ...+   .+..+...+++.+.+++++++........    
T Consensus        78 ~~~~~--~~~~~~lviDe~~~~~~~~~~~-~--~~~~~--~~~~---~l~~l~~~~~~~~~~vv~~~~~~~~~~~~~~~~  147 (165)
T cd01120          78 ERLRE--RGGDDLIILDELTRLVRALREI-R--EGYPG--ELDE---ELRELLERARKGGVTVIFTLQVPSGDKGDPRLT  147 (165)
T ss_pred             HHHHh--CCCCEEEEEEcHHHHHHHHHHH-H--hcCCh--HHHH---HHHHHHHHHhcCCceEEEEEecCCccccCcccc
Confidence            22222  3448999999999988631100 0  00001  1111   24445555556678888888776443211    


Q ss_pred             -hHHHHHHhhccceEE
Q 041690          172 -LLYIYKRWISSIFTV  186 (233)
Q Consensus       172 -~~~~~~~~~~~~~~i  186 (233)
                       +...+.++.|.++.+
T Consensus       148 ~~~~~~~~~~d~~~~l  163 (165)
T cd01120         148 RGAQNLEDIADTVIVL  163 (165)
T ss_pred             cCccceeeecceEEEE
Confidence             222345555555544

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=99.31  E-value=4e-11  Score=100.56  Aligned_cols=162  Identities=11%  Similarity=0.092  Sum_probs=89.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-cc--ccCC---------c--------hh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-SQ--SIDP---------S--------SH   76 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~~--~~~~---------~--------~~   76 (233)
                      .+|..++|.||||+|||+|+.+++..++...|.+|+|++.|........++ .+  +...         .        +.
T Consensus        28 ~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (271)
T cd01122          28 RKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEPVVRTARRLLGQYAGKRLHLPDTVFIYTLEEFDAAFDE  107 (271)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcccCHHHHHHHHHHHHhCCCcccCCccccccHHHHHHHHHH
Confidence            699999999999999999999999998844499999999874221111111 00  0000         0        00


Q ss_pred             hh--cceEEEEec---CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh
Q 041690           77 VF--KLIQMKYVE---DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA  151 (233)
Q Consensus        77 ~~--~~i~~~~~~---~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l  151 (233)
                      ..  .++.+....   ..+.+...+..+.. ...+++||||+++.+....    ..  ..... .   .+..++..++.+
T Consensus       108 ~~~~~~l~i~d~~~~~~~~~i~~~i~~~~~-~~~~~~vvID~l~~l~~~~----~~--~~~~~-~---~~~~~~~~L~~l  176 (271)
T cd01122         108 FEGTGRLFMYDSFGEYSMDSVLEKVRYMAV-SHGIQHIIIDNLSIMVSDE----RA--SGDER-K---ALDEIMTKLRGF  176 (271)
T ss_pred             hcCCCcEEEEcCCCccCHHHHHHHHHHHHh-cCCceEEEECCHHHHhccC----CC--chhHH-H---HHHHHHHHHHHH
Confidence            10  122222111   12233333332211 3349999999999987631    00  01111 1   122234434433


Q ss_pred             -hhcCCcEEEEeecCCCCC---------c-----hhHHHHHHhhccceEEEec
Q 041690          152 -NKKSPCKLLLSDTHLGNS---------T-----RLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       152 -~~~~~~vlvi~~~~~~~~---------~-----~~~~~~~~~~~~~~~i~~~  189 (233)
                       ++.+.+++++++.+....         |     ++-..+..+.|.++.+..+
T Consensus       177 a~~~~vtvll~sq~~~~~~~~~~~~~~~~~~~d~~gs~~i~~~aD~vi~l~r~  229 (271)
T cd01122         177 ATEHGIHITLVSHLRRPDGDKTHEEGGEVSLSDFRGSAAIGQLADNVIALERN  229 (271)
T ss_pred             HHHhCCEEEEEecccCccCCCccccCCCceEEeccCcHhHhhhccEEEEEEec
Confidence             456788888887664321         1     1122568889999888764

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.31  E-value=1.5e-11  Score=112.13  Aligned_cols=157  Identities=13%  Similarity=0.045  Sum_probs=87.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-ccccCCchhhhc-ceEEEEec-------
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-SQSIDPSSHVFK-LIQMKYVE-------   87 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~~~~~~~~~~~~-~i~~~~~~-------   87 (233)
                      ++|+.++|+|+||+|||+|+.||+.+.+...|.+++|++.|+.-+.-...+ ..+++..+...+ .+.+....       
T Consensus        29 p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee~~~~i~~~~~~~g~d~~~~~~~g~l~~~~~~~~~~~~~  108 (509)
T PRK09302         29 PKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEESPEDIIRNVASFGWDLQKLIDEGKLFILDASPDPSEQE  108 (509)
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccCCHHHHHHHHHHcCCCHHHHhhCCeEEEEecCccccccc
Confidence            689999999999999999999999988844499999999774221111111 112221111111 22221110       


Q ss_pred             ------CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEE
Q 041690           88 ------DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLL  161 (233)
Q Consensus        88 ------~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi  161 (233)
                            ....+..+...+.  ...+++||||++++++...        ......+.     .+..++..+++.+.+++++
T Consensus       109 ~~~~~~~~~l~~~l~~~i~--~~~~~~vVIDSls~l~~~~--------d~~~~~r~-----~l~~L~~~Lk~~g~TvLlt  173 (509)
T PRK09302        109 EAGEYDLEALFIRIEYAID--KIGAKRVVLDSIEALFSGF--------SNEAVVRR-----ELRRLFAWLKQKGVTAVIT  173 (509)
T ss_pred             ccccccHHHHHHHHHHHHH--hhCCCEEEECCHHHHHhhc--------cCHHHHHH-----HHHHHHHHHHhCCCEEEEE
Confidence                  0111222222222  3348999999999976521        11111111     1455566667788888888


Q ss_pred             eecCCCCCchhH-HHHHHhhccceEEEe
Q 041690          162 SDTHLGNSTRLL-YIYKRWISSIFTVKG  188 (233)
Q Consensus       162 ~~~~~~~~~~~~-~~~~~~~~~~~~i~~  188 (233)
                      ++......+... -+.+..+|.++.+..
T Consensus       174 ~~~~~~~~~~~~~~~~~~laDgVI~L~~  201 (509)
T PRK09302        174 GERGDEYGPLTRYGVEEFVSDCVIILRN  201 (509)
T ss_pred             ECCccCcCCccccCceEEEeeEEEEEeE
Confidence            776542111100 023456788887775

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.31  E-value=9e-12  Score=112.48  Aligned_cols=134  Identities=19%  Similarity=0.235  Sum_probs=96.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+++.+|+|||||+|||.++++++.    +.+..++++       ..++.+....++.              ...+++.|
T Consensus       216 ~~prg~Ll~gppg~Gkt~l~~aVa~----e~~a~~~~i-------~~peli~k~~gEt--------------e~~LR~~f  270 (693)
T KOG0730|consen  216 KPPRGLLLYGPPGTGKTFLVRAVAN----EYGAFLFLI-------NGPELISKFPGET--------------ESNLRKAF  270 (693)
T ss_pred             CCCCCccccCCCCCChHHHHHHHHH----HhCceeEec-------ccHHHHHhcccch--------------HHHHHHHH
Confidence            5889999999999999999996665    555566666       3344444333333              77899999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      +.+..... |.+|+|||++++.+.     +..... .+.+...+++.+++.+.    ....++++++++.++....  .+
T Consensus       271 ~~a~k~~~-psii~IdEld~l~p~-----r~~~~~-~e~Rv~sqlltL~dg~~----~~~~vivl~atnrp~sld~--al  337 (693)
T KOG0730|consen  271 AEALKFQV-PSIIFIDELDALCPK-----REGADD-VESRVVSQLLTLLDGLK----PDAKVIVLAATNRPDSLDP--AL  337 (693)
T ss_pred             HHHhccCC-CeeEeHHhHhhhCCc-----ccccch-HHHHHHHHHHHHHhhCc----CcCcEEEEEecCCccccCh--hh
Confidence            98864332 999999999999984     322222 56778888888888873    4466889999998876543  44


Q ss_pred             HH-hhccceEEEe
Q 041690          177 KR-WISSIFTVKG  188 (233)
Q Consensus       177 ~~-~~~~~~~i~~  188 (233)
                      +| +||+-+.|.-
T Consensus       338 RRgRfd~ev~Igi  350 (693)
T KOG0730|consen  338 RRGRFDREVEIGI  350 (693)
T ss_pred             hcCCCcceeeecC
Confidence            53 7888777764

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

Probab=99.31  E-value=3.6e-11  Score=95.64  Aligned_cols=156  Identities=12%  Similarity=0.187  Sum_probs=91.2

Q ss_pred             ccccccccccc---ccCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcc--------ccccccccccc
Q 041690            3 ESFFDGNQVEI---LETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRL--------QSKRPYLSQSI   71 (233)
Q Consensus         3 ~~ff~~~~~~~---~~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l--------~~~~~~~~~~~   71 (233)
                      .++|+...+-.   ....+|.++.|.||+|||||||++.+.  ........-++++.+...        .....++.|.+
T Consensus         9 ~K~fg~~~VLkgi~l~v~~Gevv~iiGpSGSGKSTlLRclN--~LE~~~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~f   86 (240)
T COG1126           9 SKSFGDKEVLKGISLSVEKGEVVVIIGPSGSGKSTLLRCLN--GLEEPDSGSITVDGEDVGDKKDILKLRRKVGMVFQQF   86 (240)
T ss_pred             eEEeCCeEEecCcceeEcCCCEEEEECCCCCCHHHHHHHHH--CCcCCCCceEEECCEeccchhhHHHHHHhcCeecccc
Confidence            45666554421   233799999999999999999999653  332334445666553110        01111222222


Q ss_pred             C--CchhhhcceEE----------------------------------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCC
Q 041690           72 D--PSSHVFKLIQM----------------------------------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFG  115 (233)
Q Consensus        72 ~--~~~~~~~~i~~----------------------------------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~  115 (233)
                      .  +...+++|+..                                  ..++.++..+-.++.+-  ...|+++++||++
T Consensus        87 nLFPHlTvleNv~lap~~v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARAL--aM~P~vmLFDEPT  164 (240)
T COG1126          87 NLFPHLTVLENVTLAPVKVKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARAL--AMDPKVMLFDEPT  164 (240)
T ss_pred             cccccchHHHHHHhhhHHHcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHH--cCCCCEEeecCCc
Confidence            2  22223333322                                  22334455555555544  3339999999999


Q ss_pred             ccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          116 DLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +.++.             +  ++   .++++.+..+++.|.+.+++++...        ..+...|+++-++.
T Consensus       165 SALDP-------------E--lv---~EVL~vm~~LA~eGmTMivVTHEM~--------FAr~VadrviFmd~  211 (240)
T COG1126         165 SALDP-------------E--LV---GEVLDVMKDLAEEGMTMIIVTHEMG--------FAREVADRVIFMDQ  211 (240)
T ss_pred             ccCCH-------------H--HH---HHHHHHHHHHHHcCCeEEEEechhH--------HHHHhhheEEEeeC
Confidence            99984             1  12   2366777788889988888876421        45566676666664

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.27  E-value=2.4e-11  Score=110.71  Aligned_cols=156  Identities=13%  Similarity=0.057  Sum_probs=90.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-cccCCchhhhc-ceEEEEecC-----H
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-QSIDPSSHVFK-LIQMKYVED-----D   89 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-~~~~~~~~~~~-~i~~~~~~~-----~   89 (233)
                      ++|+.++|+||||+|||+|+.+++.+.+ ..|.+++|++.++..+.-..... .+++..+...+ .+.+.....     .
T Consensus       271 ~~g~~~li~G~~G~GKT~l~~~~~~~~~-~~g~~~~yis~e~~~~~i~~~~~~~g~~~~~~~~~g~l~i~~~~~~~~~~~  349 (509)
T PRK09302        271 FRGSIILVSGATGTGKTLLASKFAEAAC-RRGERCLLFAFEESRAQLIRNARSWGIDLEKMEEKGLLKIICARPESYGLE  349 (509)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHH-hCCCcEEEEEecCCHHHHHHHHHHcCCChHHHhhcCCceeecCCcccCCHH
Confidence            5899999999999999999999999888 77999999997642211111111 12221111111 222221111     2


Q ss_pred             HHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCC-
Q 041690           90 EEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGN-  168 (233)
Q Consensus        90 ~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~-  168 (233)
                      +.+..+...+.  +..+++||||+++++....         ....  ..   ..+..+...+++.+.+++++.++.... 
T Consensus       350 ~~~~~i~~~i~--~~~~~~vVIDslt~l~~~~---------~~~~--~~---~~l~~l~~~~k~~~~t~l~t~~~~~~~g  413 (509)
T PRK09302        350 DHLIIIKREIE--EFKPSRVAIDPLSALARGG---------SLNE--FR---QFVIRLTDYLKSEEITGLFTNLTPDFMG  413 (509)
T ss_pred             HHHHHHHHHHH--HcCCCEEEEcCHHHHHHhC---------CHHH--HH---HHHHHHHHHHHhCCCeEEEEeccccccC
Confidence            22222333222  3348999999999987631         1111  11   124456666777888888887665321 


Q ss_pred             -CchhHHHHHHhhccceEEEec
Q 041690          169 -STRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       169 -~~~~~~~~~~~~~~~~~i~~~  189 (233)
                       .......+++.+|.++.+...
T Consensus       414 ~~~~~~~~~~~l~D~vI~L~~~  435 (509)
T PRK09302        414 SHSITESHISSLTDTWILLQYV  435 (509)
T ss_pred             CCCCCcCceEEeeeEEEEEEEe
Confidence             111112356788888888863

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=99.24  E-value=4.5e-10  Score=95.65  Aligned_cols=161  Identities=14%  Similarity=0.155  Sum_probs=92.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-cccCCchhhhcceEEEEecCHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-QSIDPSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-~~~~~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      ++|+++.|+||+|+|||||++++..+.. +.|..++||+.|..+...  ++. .+.+.     +++.+......+...++
T Consensus        51 p~G~ivEi~G~~ssGKttLaL~~ia~~q-~~g~~~a~ID~e~~ld~~--~a~~lGvdl-----~rllv~~P~~~E~al~~  122 (322)
T PF00154_consen   51 PRGRIVEIYGPESSGKTTLALHAIAEAQ-KQGGICAFIDAEHALDPE--YAESLGVDL-----DRLLVVQPDTGEQALWI  122 (322)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHH-HTT-EEEEEESSS---HH--HHHHTT--G-----GGEEEEE-SSHHHHHHH
T ss_pred             ccCceEEEeCCCCCchhhhHHHHHHhhh-cccceeEEecCcccchhh--HHHhcCccc-----cceEEecCCcHHHHHHH
Confidence            5789999999999999999999998777 679999999998655332  221 12221     25655555555554455


Q ss_pred             HHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHH-HhhhcCCcEEEEeecC--------C
Q 041690           96 FAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAIT-HANKKSPCKLLLSDTH--------L  166 (233)
Q Consensus        96 ~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~-~l~~~~~~vlvi~~~~--------~  166 (233)
                      .+.+.. ....++|||||+.++.+...-+...+..+..  ...+.+...+..+. .+.+.+.++++|...-        .
T Consensus       123 ~e~lir-sg~~~lVVvDSv~al~p~~E~e~~~~~~~~g--~~Ar~ms~~lr~lt~~l~~~~~~~i~INQ~R~~ig~~~g~  199 (322)
T PF00154_consen  123 AEQLIR-SGAVDLVVVDSVAALVPKAELEGEIGDQQVG--LQARLMSQALRKLTPLLSKSNTTLIFINQVRDKIGVMFGN  199 (322)
T ss_dssp             HHHHHH-TTSESEEEEE-CTT-B-HHHHTTSTSSTSSS--HHHHHHHHHHHHHHHHHHTTT-EEEEEEEESSSSSSSSSS
T ss_pred             HHHHhh-cccccEEEEecCcccCCHHHHhhccccccCc--chHHHHHHHHHHHHHHHHhhceEEEEeehHHHHHhhccCC
Confidence            444322 2236899999999998853211111111111  12233334444444 3444455555554431        2


Q ss_pred             CCCchhHHHHHHhhccceEEEe
Q 041690          167 GNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +....+...+.+|....+.+..
T Consensus       200 ~~~t~GG~alkfyas~rl~i~k  221 (322)
T PF00154_consen  200 PETTPGGRALKFYASVRLEIRK  221 (322)
T ss_dssp             SSCCTSHHHHHHHCSEEEEEEE
T ss_pred             CcCCCCCchhhhhhhhHHhhhc
Confidence            2334577799999999998886

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.24  E-value=3.7e-11  Score=112.01  Aligned_cols=138  Identities=11%  Similarity=0.149  Sum_probs=83.3

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAA   98 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~   98 (233)
                      +..++|+||||||||++++.++.    +.+.++++++..       .+.....+.              ....++.+|..
T Consensus       185 ~~gill~G~~G~GKt~~~~~~a~----~~~~~f~~is~~-------~~~~~~~g~--------------~~~~~~~~f~~  239 (644)
T PRK10733        185 PKGVLMVGPPGTGKTLLAKAIAG----EAKVPFFTISGS-------DFVEMFVGV--------------GASRVRDMFEQ  239 (644)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHH----HcCCCEEEEehH-------HhHHhhhcc--------------cHHHHHHHHHH
Confidence            45699999999999999997765    445667776522       111111111              14567777776


Q ss_pred             hcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHH
Q 041690           99 FHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKR  178 (233)
Q Consensus        99 ~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~  178 (233)
                      +.  ...|++|||||++++...+..+.  +..........++++..++.+    .....+++|+++|.++..........
T Consensus       240 a~--~~~P~IifIDEiD~l~~~r~~~~--~g~~~~~~~~ln~lL~~mdg~----~~~~~vivIaaTN~p~~lD~Al~Rpg  311 (644)
T PRK10733        240 AK--KAAPCIIFIDEIDAVGRQRGAGL--GGGHDEREQTLNQMLVEMDGF----EGNEGIIVIAATNRPDVLDPALLRPG  311 (644)
T ss_pred             HH--hcCCcEEEehhHhhhhhccCCCC--CCCchHHHHHHHHHHHhhhcc----cCCCCeeEEEecCChhhcCHHHhCCc
Confidence            65  33499999999999987421110  011112222334444444443    23456888999998875443333335


Q ss_pred             hhccceEEEec
Q 041690          179 WISSIFTVKGD  189 (233)
Q Consensus       179 ~~~~~~~i~~~  189 (233)
                      +|+..+.++..
T Consensus       312 Rfdr~i~v~~P  322 (644)
T PRK10733        312 RFDRQVVVGLP  322 (644)
T ss_pred             ccceEEEcCCC
Confidence            78888888764

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=99.21  E-value=1.8e-10  Score=94.98  Aligned_cols=144  Identities=13%  Similarity=0.160  Sum_probs=85.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC------------------CeEEEEecCCccccc---cc-----ccc--
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN------------------ANVVFMCNRSRLQSK---RP-----YLS--   68 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g------------------~~v~yi~~e~~l~~~---~~-----~~~--   68 (233)
                      ++|.++.|.||+|||||||++.++.......|                  +.+.|+.++......   .+     +.+  
T Consensus        26 ~~G~i~~iiGpNG~GKSTLLk~l~g~l~p~~G~V~l~g~~i~~~~~kelAk~ia~vpQ~~~~~~~~tV~d~V~~GR~p~~  105 (258)
T COG1120          26 PKGEITGILGPNGSGKSTLLKCLAGLLKPKSGEVLLDGKDIASLSPKELAKKLAYVPQSPSAPFGLTVYELVLLGRYPHL  105 (258)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCCchhhcCHHHHhhhEEEeccCCCCCCCcEEeehHhhcCCccc
Confidence            68999999999999999999988865552221                  134555443110000   00     000  


Q ss_pred             cccC-----C---chhhhcceEE--------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcch
Q 041690           69 QSID-----P---SSHVFKLIQM--------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRG  132 (233)
Q Consensus        69 ~~~~-----~---~~~~~~~i~~--------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~  132 (233)
                      .++.     +   ...+++.+.+        ..++.++..+-.++.+-.++  |+++++||++++++..           
T Consensus       106 ~~~~~~~~~D~~~v~~aL~~~~~~~la~r~~~~LSGGerQrv~iArALaQ~--~~iLLLDEPTs~LDi~-----------  172 (258)
T COG1120         106 GLFGRPSKEDEEIVEEALELLGLEHLADRPVDELSGGERQRVLIARALAQE--TPILLLDEPTSHLDIA-----------  172 (258)
T ss_pred             ccccCCCHhHHHHHHHHHHHhCcHHHhcCcccccChhHHHHHHHHHHHhcC--CCEEEeCCCccccCHH-----------
Confidence            0111     0   0111222221        33445666666666555333  9999999999999941           


Q ss_pred             hhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          133 RDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       133 ~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                             .-.+++++++.++++ |.+++++.+.-  +      ..-+|.|+++.+..
T Consensus       173 -------~Q~evl~ll~~l~~~~~~tvv~vlHDl--N------~A~ryad~~i~lk~  214 (258)
T COG1120         173 -------HQIEVLELLRDLNREKGLTVVMVLHDL--N------LAARYADHLILLKD  214 (258)
T ss_pred             -------HHHHHHHHHHHHHHhcCCEEEEEecCH--H------HHHHhCCEEEEEEC
Confidence                   123378888888844 77777775531  1      55678888888875

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.21  E-value=4.6e-11  Score=102.86  Aligned_cols=136  Identities=15%  Similarity=0.135  Sum_probs=88.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+-+.+++|||||+|||.+++.+|.    +.|-....+++-       +..+.+.+.               ...+.++|
T Consensus       382 apfRNilfyGPPGTGKTm~ArelAr----~SGlDYA~mTGG-------DVAPlG~qa---------------VTkiH~lF  435 (630)
T KOG0742|consen  382 APFRNILFYGPPGTGKTMFARELAR----HSGLDYAIMTGG-------DVAPLGAQA---------------VTKIHKLF  435 (630)
T ss_pred             chhhheeeeCCCCCCchHHHHHHHh----hcCCceehhcCC-------CccccchHH---------------HHHHHHHH
Confidence            4778999999999999999996655    556555444311       111111100               56888999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      +++..... -=++||||.++|+..++   ...++.....+       +..++.+-..+...++++-++|++...  .+.+
T Consensus       436 DWakkS~r-GLllFIDEADAFLceRn---ktymSEaqRsa-------LNAlLfRTGdqSrdivLvlAtNrpgdl--DsAV  502 (630)
T KOG0742|consen  436 DWAKKSRR-GLLLFIDEADAFLCERN---KTYMSEAQRSA-------LNALLFRTGDQSRDIVLVLATNRPGDL--DSAV  502 (630)
T ss_pred             HHHhhccc-ceEEEehhhHHHHHHhc---hhhhcHHHHHH-------HHHHHHHhcccccceEEEeccCCccch--hHHH
Confidence            99876543 45999999999998431   11122222211       344454555667778888888887643  4578


Q ss_pred             HHhhccceEEEecCC
Q 041690          177 KRWISSIFTVKGDGP  191 (233)
Q Consensus       177 ~~~~~~~~~i~~~~~  191 (233)
                      ..+++.+++++-.|.
T Consensus       503 ~DRide~veFpLPGe  517 (630)
T KOG0742|consen  503 NDRIDEVVEFPLPGE  517 (630)
T ss_pred             HhhhhheeecCCCCh
Confidence            888899999886543

>KOG1434 consensus Meiotic recombination protein Dmc1 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.20  E-value=9.7e-12  Score=100.70  Aligned_cols=176  Identities=13%  Similarity=0.103  Sum_probs=106.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh-----cCCCeEEEEecCCcccccccccccccC----CchhhhcceEE-EEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS-----QSNANVVFMCNRSRLQSKRPYLSQSID----PSSHVFKLIQM-KYVE   87 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~-----~~g~~v~yi~~e~~l~~~~~~~~~~~~----~~~~~~~~i~~-~~~~   87 (233)
                      .-.++.++|.||||||.++.+++..+..     -.+++++||+||++|..  +++.+..+    +.+..++||.. .-..
T Consensus       114 ~m~iTEifGefr~GKTQlshtLcVt~QlPr~~Gg~~Gk~ifIDTEgtFrp--dRi~~IAe~~~~d~d~~LdNI~y~Ra~~  191 (335)
T KOG1434|consen  114 SMSITEIFGEFRCGKTQLSHTLCVTVQLPREMGGVGGKAIFIDTEGTFRP--DRIKDIAERFKVDPDFTLDNILYFRAYN  191 (335)
T ss_pred             chhhHHHcCCCCcCccceeeEEEEEeecchhhCCCCceEEEEecCCccch--HHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence            5567889999999999999988765542     23789999999986543  33433322    44555665543 1111


Q ss_pred             C---HHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeec
Q 041690           88 D---DEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDT  164 (233)
Q Consensus        88 ~---~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~  164 (233)
                      .   .+.+..+-+.+.. .....+||||+|.+.++...      +.++.....++.|..+...+..++++....++++++
T Consensus       192 se~qmelv~~L~~~~se-~g~~rlvIVDsIma~FRvDy------~grgeLseRqqkLn~ml~kl~~laeefnvAVfltNQ  264 (335)
T KOG1434|consen  192 SEEQMELVYLLGDFLSE-HGKYRLVIVDSIMALFRVDY------DGRGELSERQQKLNQMLQKLNKLAEEFNVAVFLTNQ  264 (335)
T ss_pred             hHHHHHHHHHHHHHHhh-cCcEEEEEEeceehheeecc------cccccHHHHHHHHHHHHHHHHHHHHhccEEEEEecc
Confidence            1   2222222222232 23488999999999998422      122233334444555555555666665555565554


Q ss_pred             C------------CCCCchhHHHHHHhhccceEEEecCCccEEEeeccCcc
Q 041690          165 H------------LGNSTRLLYIYKRWISSIFTVKGDGPGSFLLRNKNYSR  203 (233)
Q Consensus       165 ~------------~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~~  203 (233)
                      .            ..-.|.+...|.|-....+.+.. +.++.++.+.-.++
T Consensus       265 vttdpga~~~f~s~~~kp~gGh~~aHAsttRlilrk-grg~eR~Akl~dSP  314 (335)
T KOG1434|consen  265 VTTDPGAGMTFASQDLKPAGGHSWAHASTTRLILRK-GRGDERVAKLYDSP  314 (335)
T ss_pred             eecCCcccccccccccCccccchhhhhhheeEEEEc-CCcceeeeecccCC
Confidence            2            11346677788888887777775 34467777766664

>PRK06893 DNA replication initiation factor; Validated

Probab=99.18  E-value=2.6e-10  Score=93.54  Aligned_cols=37  Identities=16%  Similarity=0.293  Sum_probs=31.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ....++|+||||||||+|+..++.... ..+.++.|++
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~-~~~~~~~y~~   74 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYL-LNQRTAIYIP   74 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCCeEEee
Confidence            345689999999999999999998877 5678899996

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=99.17  E-value=5.6e-10  Score=92.08  Aligned_cols=155  Identities=15%  Similarity=0.161  Sum_probs=83.3

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhh-----------cCCCeEEEEecCCcccccccccc---cccCCchhhhcceEEE
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCAS-----------QSNANVVFMCNRSRLQSKRPYLS---QSIDPSSHVFKLIQMK   84 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~-----------~~g~~v~yi~~e~~l~~~~~~~~---~~~~~~~~~~~~i~~~   84 (233)
                      |.+.+|+||||+|||+|+.++|.+++.           ..+.+|+|++.|.....-..++.   ..++. ....+++.+.
T Consensus         1 g~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~-~~~~~rl~~~   79 (239)
T cd01125           1 GYVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQHLEP-DDAGDRLFID   79 (239)
T ss_pred             CceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCC-cCcccceEEe
Confidence            567899999999999999999988662           13678999998853222111111   11110 0011122111


Q ss_pred             ----------E---ecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh
Q 041690           85 ----------Y---VEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA  151 (233)
Q Consensus        85 ----------~---~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l  151 (233)
                                .   ......+..+.+.+.  ...|++||||++.++...     .  ......   ...   +++.+..+
T Consensus        80 ~g~~~~l~~~~~~~~~~~~~~~~l~~~~~--~~~~~lvviDpl~~~~~~-----~--~~d~~~---~~~---~~~~L~~~  144 (239)
T cd01125          80 SGRIQPISIAREGRIIVVPEFERIIEQLL--IRRIDLVVIDPLVSFHGV-----S--ENDNGA---MDA---VIKALRRI  144 (239)
T ss_pred             ccCCCceecccCCcccccHHHHHHHHHHH--hcCCCEEEECChHHhCCC-----C--cCCHHH---HHH---HHHHHHHH
Confidence                      1   112234444444433  234999999998887321     0  011111   111   33444443


Q ss_pred             h-hcCCcEEEEeecCCC--------CCchhHHHHHHhhccceEEEec
Q 041690          152 N-KKSPCKLLLSDTHLG--------NSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       152 ~-~~~~~vlvi~~~~~~--------~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      . +.+.+++++.+++..        ...++-..+..-.+.++.+.+.
T Consensus       145 a~~~g~avl~v~H~~K~~~~~~~~~~~~rGssal~~~~r~~~~l~~~  191 (239)
T cd01125         145 AAQTGAAILLVHHVRKGSAKDGDTQEAARGASALVDGARWVRALTRM  191 (239)
T ss_pred             HHHhCCEEEEEeccCcccccCcccccccCcHHHHhcccceEEEEeeC
Confidence            3 447788888887633        2234444555556667776653

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=99.16  E-value=5.6e-10  Score=91.77  Aligned_cols=145  Identities=13%  Similarity=0.165  Sum_probs=91.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC---------------CCeEEEEecCCccccccc-----ccccc-----
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQS---------------NANVVFMCNRSRLQSKRP-----YLSQS-----   70 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~---------------g~~v~yi~~e~~l~~~~~-----~~~~~-----   70 (233)
                      .++|+.+.|.||+|+|||||.+.++.-.....               +..+.|+.+...+....+     ++..+     
T Consensus        27 v~~G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~  106 (254)
T COG1121          27 VEKGEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKK  106 (254)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCcccc
Confidence            37999999999999999999998875443221               135777765321111111     11100     


Q ss_pred             --cC--------CchhhhcceEE--------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcch
Q 041690           71 --ID--------PSSHVFKLIQM--------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRG  132 (233)
Q Consensus        71 --~~--------~~~~~~~~i~~--------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~  132 (233)
                        +.        ..+.+++++.+        ..++.++..+-+++.+-..  .|+++++||+.+-.+..           
T Consensus       107 g~~~~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~--~p~lllLDEP~~gvD~~-----------  173 (254)
T COG1121         107 GWFRRLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQ--NPDLLLLDEPFTGVDVA-----------  173 (254)
T ss_pred             cccccccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhcc--CCCEEEecCCcccCCHH-----------
Confidence              00        11223333333        3345566777777766533  39999999999988831           


Q ss_pred             hhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          133 RDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       133 ~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                        ..     ..+++++..++++|.+++++++.-.        ....++|.++.+..
T Consensus       174 --~~-----~~i~~lL~~l~~eg~tIl~vtHDL~--------~v~~~~D~vi~Ln~  214 (254)
T COG1121         174 --GQ-----KEIYDLLKELRQEGKTVLMVTHDLG--------LVMAYFDRVICLNR  214 (254)
T ss_pred             --HH-----HHHHHHHHHHHHCCCEEEEEeCCcH--------HhHhhCCEEEEEcC
Confidence              11     1277888888888888888866321        56778899998886

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=99.15  E-value=7.3e-10  Score=91.31  Aligned_cols=43  Identities=21%  Similarity=0.360  Sum_probs=38.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      ..+|..++|.|+||+|||+|+.+++...+...|.+++|++.|.
T Consensus        10 l~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~   52 (242)
T cd00984          10 LQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEM   52 (242)
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCC
Confidence            3589999999999999999999999999844499999999874

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

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

Probab=99.15  E-value=3.4e-10  Score=91.63  Aligned_cols=142  Identities=14%  Similarity=0.256  Sum_probs=81.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC--Cccc---------ccccccccccC--CchhhhcceE
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR--SRLQ---------SKRPYLSQSID--PSSHVFKLIQ   82 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e--~~l~---------~~~~~~~~~~~--~~~~~~~~i~   82 (233)
                      .++|..+.|.||+|||||||+..++.-.. ..++ .+++...  ..+.         ....++.|.+.  +.-.+.+|+.
T Consensus        28 i~~Ge~vaI~GpSGSGKSTLLniig~ld~-pt~G-~v~i~g~d~~~l~~~~~~~~R~~~iGfvFQ~~nLl~~ltv~ENv~  105 (226)
T COG1136          28 IEAGEFVAIVGPSGSGKSTLLNLLGGLDK-PTSG-EVLINGKDLTKLSEKELAKLRRKKIGFVFQNFNLLPDLTVLENVE  105 (226)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcccC-CCCc-eEEECCEEcCcCCHHHHHHHHHHhEEEECccCCCCCCCCHHHHHH
Confidence            37999999999999999999987764333 3333 3333321  0000         00112222211  1112222222


Q ss_pred             -------------------------E---------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccC
Q 041690           83 -------------------------M---------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYT  128 (233)
Q Consensus        83 -------------------------~---------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~  128 (233)
                                               +         ..++.++..+-.++.+-.  ..|++|+-||++.-++..       
T Consensus       106 lpl~~~~~~~~~~~~~~~~l~~~lgl~~~~~~~~p~eLSGGqqQRVAIARAL~--~~P~iilADEPTgnLD~~-------  176 (226)
T COG1136         106 LPLLIAGKSAGRRKRAAEELLEVLGLEDRLLKKKPSELSGGQQQRVAIARALI--NNPKIILADEPTGNLDSK-------  176 (226)
T ss_pred             hHHHHcCCChhHHHHHHHHHHHhcCChhhhccCCchhcCHHHHHHHHHHHHHh--cCCCeEEeeCccccCChH-------
Confidence                                     1         123334555555554442  239999999999999842       


Q ss_pred             CcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          129 NPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       129 ~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                            ....     +++++..++++ |.+++|+++..         .+..+.++++.+..
T Consensus       177 ------t~~~-----V~~ll~~~~~~~g~tii~VTHd~---------~lA~~~dr~i~l~d  217 (226)
T COG1136         177 ------TAKE-----VLELLRELNKERGKTIIMVTHDP---------ELAKYADRVIELKD  217 (226)
T ss_pred             ------HHHH-----HHHHHHHHHHhcCCEEEEEcCCH---------HHHHhCCEEEEEeC
Confidence                  1112     67778777655 67777776642         34557888888875

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.15  E-value=9.4e-10  Score=87.37  Aligned_cols=150  Identities=11%  Similarity=0.149  Sum_probs=96.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccC----Cchhhhc-ceEEEEe-----
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSID----PSSHVFK-LIQMKYV-----   86 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~----~~~~~~~-~i~~~~~-----   86 (233)
                      +-|+.++|.|+.|+|||.|++++++-.. .+|.++.|++||.   ...+++.|+..    ..+.... ++.+..+     
T Consensus        26 P~GsL~lIEGd~~tGKSvLsqr~~YG~L-~~g~~v~yvsTe~---T~refi~qm~sl~ydv~~~~l~G~l~~~~~~~~~~  101 (235)
T COG2874          26 PVGSLILIEGDNGTGKSVLSQRFAYGFL-MNGYRVTYVSTEL---TVREFIKQMESLSYDVSDFLLSGRLLFFPVNLEPV  101 (235)
T ss_pred             ccCeEEEEECCCCccHHHHHHHHHHHHH-hCCceEEEEEech---hHHHHHHHHHhcCCCchHHHhcceeEEEEeccccc
Confidence            6789999999999999999999999888 8899999999986   44555555432    2222222 3333211     


Q ss_pred             -cCHH----HHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEE
Q 041690           87 -EDDE----EIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLL  161 (233)
Q Consensus        87 -~~~~----~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi  161 (233)
                       +..+    .+..++...+..+  -++|+||+++++....           .    ....+.++..++.+..+|..++++
T Consensus       102 ~~~~~~~~~~L~~l~~~~k~~~--~dViIIDSls~~~~~~-----------~----~~~vl~fm~~~r~l~d~gKvIilT  164 (235)
T COG2874         102 NWGRRSARKLLDLLLEFIKRWE--KDVIIIDSLSAFATYD-----------S----EDAVLNFMTFLRKLSDLGKVIILT  164 (235)
T ss_pred             ccChHHHHHHHHHHHhhHHhhc--CCEEEEecccHHhhcc-----------c----HHHHHHHHHHHHHHHhCCCEEEEE
Confidence             1122    3333333333222  6899999999998741           1    112344677778887888877777


Q ss_pred             eecCCCCCchhHHHHHHhhccceEEEe
Q 041690          162 SDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .+.+.-+ ......++-.++..+.+..
T Consensus       165 vhp~~l~-e~~~~rirs~~d~~l~L~~  190 (235)
T COG2874         165 VHPSALD-EDVLTRIRSACDVYLRLRL  190 (235)
T ss_pred             eChhhcC-HHHHHHHHHhhheeEEEEh
Confidence            6665322 1223455666777776664

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=99.14  E-value=2.7e-10  Score=95.16  Aligned_cols=42  Identities=29%  Similarity=0.572  Sum_probs=38.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      .++|+.++|+|+||||||+|+.||+...+ ..|.+|+||++++
T Consensus        20 ~p~g~~~lI~G~pGsGKT~f~~qfl~~~~-~~ge~vlyvs~~e   61 (260)
T COG0467          20 LPRGSVVLITGPPGTGKTIFALQFLYEGA-REGEPVLYVSTEE   61 (260)
T ss_pred             CcCCcEEEEEcCCCCcHHHHHHHHHHHHH-hcCCcEEEEEecC
Confidence            36999999999999999999999999999 6699999999773

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=99.14  E-value=1.2e-09  Score=84.99  Aligned_cols=134  Identities=10%  Similarity=0.087  Sum_probs=78.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEE-ecCHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKY-VEDDEEIKK   94 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~l~~   94 (233)
                      .++|..+.|.||+|+|||||++.++.... ...+.+ +++... +....        ..+.....+...+ ++..+..+-
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~-~~~G~v-~~~g~~-~~~~~--------~~~~~~~~i~~~~qLS~G~~qrl   91 (163)
T cd03216          23 VRRGEVHALLGENGAGKSTLMKILSGLYK-PDSGEI-LVDGKE-VSFAS--------PRDARRAGIAMVYQLSVGERQMV   91 (163)
T ss_pred             EeCCCEEEEECCCCCCHHHHHHHHhCCCC-CCCeEE-EECCEE-CCcCC--------HHHHHhcCeEEEEecCHHHHHHH
Confidence            37999999999999999999998876544 333443 443221 00000        0001111222222 444555444


Q ss_pred             HHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHH
Q 041690           95 YFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLY  174 (233)
Q Consensus        95 ~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~  174 (233)
                      .+..+-..  .|+++++||+++-++.             ..+..     +.+.++.+++++.+++++++...        
T Consensus        92 ~laral~~--~p~illlDEP~~~LD~-------------~~~~~-----l~~~l~~~~~~~~tiii~sh~~~--------  143 (163)
T cd03216          92 EIARALAR--NARLLILDEPTAALTP-------------AEVER-----LFKVIRRLRAQGVAVIFISHRLD--------  143 (163)
T ss_pred             HHHHHHhc--CCCEEEEECCCcCCCH-------------HHHHH-----HHHHHHHHHHCCCEEEEEeCCHH--------
Confidence            45444322  3999999999999983             11112     55666666556777777655421        


Q ss_pred             HHHHhhccceEEEe
Q 041690          175 IYKRWISSIFTVKG  188 (233)
Q Consensus       175 ~~~~~~~~~~~i~~  188 (233)
                      .+..+.+.++.+..
T Consensus       144 ~~~~~~d~~~~l~~  157 (163)
T cd03216         144 EVFEIADRVTVLRD  157 (163)
T ss_pred             HHHHhCCEEEEEEC
Confidence            46677888888863

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.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=99.14  E-value=8.4e-10  Score=86.56  Aligned_cols=139  Identities=14%  Similarity=0.125  Sum_probs=77.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCc------ccccccccccccC--CchhhhcceEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSR------LQSKRPYLSQSID--PSSHVFKLIQMKYVED   88 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~------l~~~~~~~~~~~~--~~~~~~~~i~~~~~~~   88 (233)
                      .+|..+.|.||+|||||||++.++.... ...+.+. ++.+..      +.....++.+...  ....+.+++.   ++.
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~-~~~G~i~-~~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~~~---LS~   98 (173)
T cd03230          24 EKGEIYGLLGPNGAGKTTLIKIILGLLK-PDSGEIK-VLGKDIKKEPEEVKRRIGYLPEEPSLYENLTVRENLK---LSG   98 (173)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC-CCCeEEE-ECCEEcccchHhhhccEEEEecCCccccCCcHHHHhh---cCH
Confidence            6999999999999999999998876544 2233333 322210      0000111111100  1112222222   333


Q ss_pred             HHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCC
Q 041690           89 DEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGN  168 (233)
Q Consensus        89 ~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~  168 (233)
                      .+..+-.+..+-  -..|+++++||+++-++..             .+..     +.+.+..+.+++.+++++++..   
T Consensus        99 G~~qrv~laral--~~~p~illlDEPt~~LD~~-------------~~~~-----l~~~l~~~~~~g~tiii~th~~---  155 (173)
T cd03230          99 GMKQRLALAQAL--LHDPELLILDEPTSGLDPE-------------SRRE-----FWELLRELKKEGKTILLSSHIL---  155 (173)
T ss_pred             HHHHHHHHHHHH--HcCCCEEEEeCCccCCCHH-------------HHHH-----HHHHHHHHHHCCCEEEEECCCH---
Confidence            444444444433  2239999999999999841             1112     5666666656666666665532   


Q ss_pred             CchhHHHHHHhhccceEEEe
Q 041690          169 STRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~  188 (233)
                           ..+..+.+.++.+..
T Consensus       156 -----~~~~~~~d~i~~l~~  170 (173)
T cd03230         156 -----EEAERLCDRVAILNN  170 (173)
T ss_pred             -----HHHHHhCCEEEEEeC
Confidence                 156677888888763

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>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=99.14  E-value=8.4e-10  Score=86.88  Aligned_cols=126  Identities=17%  Similarity=0.140  Sum_probs=74.1

Q ss_pred             cCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHH
Q 041690           15 ETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKK   94 (233)
Q Consensus        15 ~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~   94 (233)
                      ..++|..+.|.||+|+|||||++.++.... ...+.+.| ...     ......+...             ++..+..+-
T Consensus        21 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~-p~~G~i~~-~g~-----~i~~~~q~~~-------------LSgGq~qrv   80 (177)
T cd03222          21 VVKEGEVIGIVGPNGTGKTTAVKILAGQLI-PNGDNDEW-DGI-----TPVYKPQYID-------------LSGGELQRV   80 (177)
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCCC-CCCcEEEE-CCE-----EEEEEcccCC-------------CCHHHHHHH
Confidence            347999999999999999999998776544 33334433 211     0111111100             222444333


Q ss_pred             HHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcC-CcEEEEeecCCCCCchhH
Q 041690           95 YFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKS-PCKLLLSDTHLGNSTRLL  173 (233)
Q Consensus        95 ~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~-~~vlvi~~~~~~~~~~~~  173 (233)
                      .++.+-  -..|+++++||+++-++..             .+..     +.+.+..+++++ .+++++++..        
T Consensus        81 ~laral--~~~p~lllLDEPts~LD~~-------------~~~~-----l~~~l~~~~~~~~~tiiivsH~~--------  132 (177)
T cd03222          81 AIAAAL--LRNATFYLFDEPSAYLDIE-------------QRLN-----AARAIRRLSEEGKKTALVVEHDL--------  132 (177)
T ss_pred             HHHHHH--hcCCCEEEEECCcccCCHH-------------HHHH-----HHHHHHHHHHcCCCEEEEEECCH--------
Confidence            343333  2239999999999999831             1111     555565555554 6666665532        


Q ss_pred             HHHHHhhccceEEEe
Q 041690          174 YIYKRWISSIFTVKG  188 (233)
Q Consensus       174 ~~~~~~~~~~~~i~~  188 (233)
                      ..+.++.+.++.+..
T Consensus       133 ~~~~~~~d~i~~l~~  147 (177)
T cd03222         133 AVLDYLSDRIHVFEG  147 (177)
T ss_pred             HHHHHhCCEEEEEcC
Confidence            156677888888875

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=99.13  E-value=1.4e-10  Score=92.25  Aligned_cols=136  Identities=21%  Similarity=0.258  Sum_probs=66.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc---------CCCeEEEEecCCcccccccccccccCCc-----hhhhc---
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ---------SNANVVFMCNRSRLQSKRPYLSQSIDPS-----SHVFK---   79 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~---------~g~~v~yi~~e~~l~~~~~~~~~~~~~~-----~~~~~---   79 (233)
                      .+|..++|+||||+|||+++.+++...+..         .+.+|+|++.|........++.......     ....+   
T Consensus        30 ~~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~~~~~~~~~~~~~~~~~~  109 (193)
T PF13481_consen   30 PRGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRALLQDYDDDANLFFVDLSN  109 (193)
T ss_dssp             -TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHHHTTS-HHHHHHHHHH--
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHHhcccCCccceEEeeccc
Confidence            589999999999999999999999988831         4678999998853322222222111110     00100   


Q ss_pred             --ceEEEEe-----cCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh-
Q 041690           80 --LIQMKYV-----EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA-  151 (233)
Q Consensus        80 --~i~~~~~-----~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-  151 (233)
                        .+.+...     .....+..+.+.+... ..+++||||.+..+....       .......      ..+++.+..+ 
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~lvviD~l~~~~~~~-------~~~~~~~------~~~~~~l~~la  175 (193)
T PF13481_consen  110 WGCIRLFEPDSGGPLLDEDLEELEAALKEL-YGPDLVVIDPLQSLHDGD-------ENSNSAV------AQLMQELKRLA  175 (193)
T ss_dssp             E-EE---TTS---TTSHHHHHHHHHHHTT-----SEEEEE-GGGG--S--------TT-HHHH------HHHHHHHHHHH
T ss_pred             cccceeeecccccccchHHHHHHHHHHhhc-CCCcEEEEcCHHHHhcCC-------CCCHHHH------HHHHHHHHHHH
Confidence              1111000     0133455555555431 339999999999999831       1111111      1134444443 


Q ss_pred             hhcCCcEEEEeecCC
Q 041690          152 NKKSPCKLLLSDTHL  166 (233)
Q Consensus       152 ~~~~~~vlvi~~~~~  166 (233)
                      ++.+.+++++.+++.
T Consensus       176 ~~~~~~vi~v~H~~K  190 (193)
T PF13481_consen  176 KEYGVAVILVHHTNK  190 (193)
T ss_dssp             HHH--EEEEEEEE--
T ss_pred             HHcCCEEEEEECCCC
Confidence            345777777777654

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=99.11  E-value=2e-09  Score=79.83  Aligned_cols=92  Identities=18%  Similarity=0.265  Sum_probs=54.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-cccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-QSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++..++|+||||||||++++.++.... ..+..++|++.+........... ...        ................+
T Consensus         1 ~~~~~~l~G~~G~GKTtl~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~   71 (148)
T smart00382        1 PGEVILIVGPPGSGKTTLARALARELG-PPGGGVIYIDGEDILEEVLDQLLLIIV--------GGKKASGSGELRLRLAL   71 (148)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhccC-CCCCCEEEECCEEccccCHHHHHhhhh--------hccCCCCCHHHHHHHHH
Confidence            357899999999999999999887666 33346888875531111100000 000        00000111134455555


Q ss_pred             HHhcccCCCCcEEEEeCCCccccc
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      ..+..  ..+++|+|||+..+...
T Consensus        72 ~~~~~--~~~~viiiDei~~~~~~   93 (148)
T smart00382       72 ALARK--LKPDVLILDEITSLLDA   93 (148)
T ss_pred             HHHHh--cCCCEEEEECCcccCCH
Confidence            55542  22799999999999884

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.10  E-value=1.7e-09  Score=90.33  Aligned_cols=76  Identities=12%  Similarity=0.114  Sum_probs=47.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc---CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ---SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKK   94 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~---~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~   94 (233)
                      ....++|+||||||||++|+.++..+...   ....+++++.       ..+.....+.              ....+.+
T Consensus        41 ~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~-------~~l~~~~~g~--------------~~~~~~~   99 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVER-------ADLVGEYIGH--------------TAQKTRE   99 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecH-------HHhhhhhccc--------------hHHHHHH
Confidence            45678999999999999999998765411   1234444431       1111111111              1445566


Q ss_pred             HHHHhcccCCCCcEEEEeCCCcccc
Q 041690           95 YFAAFHQHDKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        95 ~~~~~~~~~~~p~iIvIDei~~~~~  119 (233)
                      ++..+.     ..+|||||++.+.+
T Consensus       100 ~~~~a~-----~~VL~IDE~~~L~~  119 (261)
T TIGR02881       100 VIKKAL-----GGVLFIDEAYSLAR  119 (261)
T ss_pred             HHHhcc-----CCEEEEechhhhcc
Confidence            666443     67999999998864

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>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=99.09  E-value=1.5e-09  Score=85.50  Aligned_cols=140  Identities=14%  Similarity=0.164  Sum_probs=78.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC--ccc-------ccccccccccC--CchhhhcceEEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS--RLQ-------SKRPYLSQSID--PSSHVFKLIQMKY   85 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~--~l~-------~~~~~~~~~~~--~~~~~~~~i~~~~   85 (233)
                      ++|..+.|.||+|+|||||++.++.... ...+.+. ++...  ...       ....++.+...  ....+.+++... 
T Consensus        24 ~~G~~~~i~G~nGsGKSTLl~~l~G~~~-~~~G~i~-~~g~~~~~~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~l~~~-  100 (178)
T cd03229          24 EAGEIVALLGPSGSGKSTLLRCIAGLEE-PDSGSIL-IDGEDLTDLEDELPPLRRRIGMVFQDFALFPHLTVLENIALG-  100 (178)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC-CCceEEE-ECCEEccccchhHHHHhhcEEEEecCCccCCCCCHHHheeec-
Confidence            6999999999999999999998876544 3333333 32211  000       00011111100  111222333221 


Q ss_pred             ecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeec
Q 041690           86 VEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDT  164 (233)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~  164 (233)
                      ++.++..+-.+..+-  -..|+++++||+++-++.             ..+..     +++.+..++++ +.+++++++.
T Consensus       101 lS~G~~qr~~la~al--~~~p~llilDEP~~~LD~-------------~~~~~-----l~~~l~~~~~~~~~tiii~sH~  160 (178)
T cd03229         101 LSGGQQQRVALARAL--AMDPDVLLLDEPTSALDP-------------ITRRE-----VRALLKSLQAQLGITVVLVTHD  160 (178)
T ss_pred             CCHHHHHHHHHHHHH--HCCCCEEEEeCCcccCCH-------------HHHHH-----HHHHHHHHHHhcCCEEEEEeCC
Confidence            444554444444433  223999999999999983             11112     55666666565 5666666553


Q ss_pred             CCCCCchhHHHHHHhhccceEEE
Q 041690          165 HLGNSTRLLYIYKRWISSIFTVK  187 (233)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~i~  187 (233)
                      ..        .++.+.+.++.+.
T Consensus       161 ~~--------~~~~~~d~i~~l~  175 (178)
T cd03229         161 LD--------EAARLADRVVVLR  175 (178)
T ss_pred             HH--------HHHHhcCEEEEEe
Confidence            21        5667788887775

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.

>CHL00181 cbbX CbbX; Provisional

Probab=99.09  E-value=1.3e-09  Score=92.17  Aligned_cols=77  Identities=14%  Similarity=0.194  Sum_probs=48.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc---CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ---SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIK   93 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~---~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~   93 (233)
                      .+|..++|+||||||||++|+.++..+...   ...++++++       .........+..              .....
T Consensus        57 ~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~-------~~~l~~~~~g~~--------------~~~~~  115 (287)
T CHL00181         57 NPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVT-------RDDLVGQYIGHT--------------APKTK  115 (287)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEec-------HHHHHHHHhccc--------------hHHHH
Confidence            367789999999999999999998876521   123466664       111221111111              23344


Q ss_pred             HHHHHhcccCCCCcEEEEeCCCcccc
Q 041690           94 KYFAAFHQHDKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        94 ~~~~~~~~~~~~p~iIvIDei~~~~~  119 (233)
                      .++..+.     ..+|||||++.+..
T Consensus       116 ~~l~~a~-----ggVLfIDE~~~l~~  136 (287)
T CHL00181        116 EVLKKAM-----GGVLFIDEAYYLYK  136 (287)
T ss_pred             HHHHHcc-----CCEEEEEccchhcc
Confidence            5555432     67999999998865

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=99.09  E-value=1.8e-09  Score=84.74  Aligned_cols=137  Identities=14%  Similarity=0.105  Sum_probs=76.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcc-------cccccccccccC-CchhhhcceEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRL-------QSKRPYLSQSID-PSSHVFKLIQMKYVED   88 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l-------~~~~~~~~~~~~-~~~~~~~~i~~~~~~~   88 (233)
                      .+|..+.|.||+|+|||||++.++.... ...+.+ +++.+...       .....++.+... ....+.+++    ++.
T Consensus        26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~-~~~G~i-~~~g~~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~l----LS~   99 (173)
T cd03246          26 EPGESLAIIGPSGSGKSTLARLILGLLR-PTSGRV-RLDGADISQWDPNELGDHVGYLPQDDELFSGSIAENI----LSG   99 (173)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccC-CCCCeE-EECCEEcccCCHHHHHhheEEECCCCccccCcHHHHC----cCH
Confidence            6999999999999999999998886554 333333 33322100       000011111100 001222232    344


Q ss_pred             HHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCC
Q 041690           89 DEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGN  168 (233)
Q Consensus        89 ~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~  168 (233)
                      .+..+-.+..+-.  ..|+++++||+++-++..             .+..     +++.+..+++++.+++++++...  
T Consensus       100 G~~qrv~la~al~--~~p~~lllDEPt~~LD~~-------------~~~~-----l~~~l~~~~~~~~tii~~sh~~~--  157 (173)
T cd03246         100 GQRQRLGLARALY--GNPRILVLDEPNSHLDVE-------------GERA-----LNQAIAALKAAGATRIVIAHRPE--  157 (173)
T ss_pred             HHHHHHHHHHHHh--cCCCEEEEECCccccCHH-------------HHHH-----HHHHHHHHHhCCCEEEEEeCCHH--
Confidence            4444444444332  239999999999999841             1111     55666666556777776655321  


Q ss_pred             CchhHHHHHHhhccceEEEe
Q 041690          169 STRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~  188 (233)
                            .++ +.+.++.+..
T Consensus       158 ------~~~-~~d~v~~l~~  170 (173)
T cd03246         158 ------TLA-SADRILVLED  170 (173)
T ss_pred             ------HHH-hCCEEEEEEC
Confidence                  333 5787777763

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.09  E-value=8.1e-10  Score=93.43  Aligned_cols=76  Identities=16%  Similarity=0.187  Sum_probs=49.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC---CCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS---NANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKK   94 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~---g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~   94 (233)
                      ++..++|+||||||||++|+.++..+....   ..++++++..       ..+....+..              ...+..
T Consensus        57 ~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~-------~l~~~~~g~~--------------~~~~~~  115 (284)
T TIGR02880        57 PTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRD-------DLVGQYIGHT--------------APKTKE  115 (284)
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHH-------HHhHhhcccc--------------hHHHHH
Confidence            566899999999999999998887776221   2356666421       1111111111              344556


Q ss_pred             HHHHhcccCCCCcEEEEeCCCcccc
Q 041690           95 YFAAFHQHDKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        95 ~~~~~~~~~~~p~iIvIDei~~~~~  119 (233)
                      ++..+.     ..+|||||++.+..
T Consensus       116 ~~~~a~-----~gvL~iDEi~~L~~  135 (284)
T TIGR02880       116 ILKRAM-----GGVLFIDEAYYLYR  135 (284)
T ss_pred             HHHHcc-----CcEEEEechhhhcc
Confidence            666442     68999999998764

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=99.08  E-value=2.5e-09  Score=83.60  Aligned_cols=144  Identities=17%  Similarity=0.282  Sum_probs=83.9

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC-Cccc-ccccccccccC---------CchhhhcceEE-
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR-SRLQ-SKRPYLSQSID---------PSSHVFKLIQM-   83 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e-~~l~-~~~~~~~~~~~---------~~~~~~~~i~~-   83 (233)
                      .++|+.+.|.||+|+|||||++.+..... ...+++.+-... ..+. ...+++.+..+         ....+.+|+.+ 
T Consensus        25 i~~Gef~fl~GpSGAGKSTllkLi~~~e~-pt~G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD~rLL~~~tvyeNVA~p  103 (223)
T COG2884          25 IPKGEFVFLTGPSGAGKSTLLKLIYGEER-PTRGKILVNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVALP  103 (223)
T ss_pred             ecCceEEEEECCCCCCHHHHHHHHHhhhc-CCCceEEECCeecccccccccchhhheeeeEeeeccccccchHhhhhhhh
Confidence            37999999999999999999998876555 333333332211 0000 01111111110         11111222211 


Q ss_pred             --------------------------------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcc
Q 041690           84 --------------------------------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPR  131 (233)
Q Consensus        84 --------------------------------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~  131 (233)
                                                      ..++..+..+-.++.+.  -+.|.+++-||++.-++.           
T Consensus       104 L~v~G~~~~~i~~rV~~~L~~VgL~~k~~~lP~~LSGGEQQRvaIARAi--V~~P~vLlADEPTGNLDp-----------  170 (223)
T COG2884         104 LRVIGKPPREIRRRVSEVLDLVGLKHKARALPSQLSGGEQQRVAIARAI--VNQPAVLLADEPTGNLDP-----------  170 (223)
T ss_pred             hhccCCCHHHHHHHHHHHHHHhccchhhhcCccccCchHHHHHHHHHHH--ccCCCeEeecCCCCCCCh-----------
Confidence                                            22344556665555544  334999999999998883           


Q ss_pred             hhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          132 GRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       132 ~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                        +..+.     +|+++..++..|.+|+|.++...        ++..+-..++.+..
T Consensus       171 --~~s~~-----im~lfeeinr~GtTVl~ATHd~~--------lv~~~~~rvl~l~~  212 (223)
T COG2884         171 --DLSWE-----IMRLFEEINRLGTTVLMATHDLE--------LVNRMRHRVLALED  212 (223)
T ss_pred             --HHHHH-----HHHHHHHHhhcCcEEEEEeccHH--------HHHhccCcEEEEeC
Confidence              33333     88888889898988877765321        55555556666664

>KOG1564 consensus DNA repair protein RHP57 [Replication, recombination and repair]

Probab=99.08  E-value=6.6e-10  Score=91.36  Aligned_cols=144  Identities=20%  Similarity=0.242  Sum_probs=87.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCccccccc-----ccccccCCchh--hhcc----
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKRP-----YLSQSIDPSSH--VFKL----   80 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~~-----~~~~~~~~~~~--~~~~----   80 (233)
                      .-+.++.|+|.+|||||.|++|++..+...     -|+.++||+||..|...+-     .+++.-.....  ..+|    
T Consensus       100 ~~~giTEi~GeSg~GKtQL~lQL~L~VQLp~~~GGL~~~~vYI~TE~~fP~rRL~qL~~~~~~rp~~~~~~~~~~Npgd~  179 (351)
T KOG1564|consen  100 PTDGITEICGESGCGKTQLLLQLSLCVQLPRSHGGLGGGAVYICTESPFPTRRLHQLSHTLPQRPNPEKELNYNDNPGDH  179 (351)
T ss_pred             ccccHHHHhhccCCcHHHHHHHHHHHhhCchhhCCCCCceEEEEcCCCCcHHHHHHHHHhcccCCCcchhhhhccCCCce
Confidence            366788999999999999999998876532     2688999999976655441     11111011110  0112    


Q ss_pred             eEEEEecCHHHHHHHHHHhc---ccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCc
Q 041690           81 IQMKYVEDDEEIKKYFAAFH---QHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPC  157 (233)
Q Consensus        81 i~~~~~~~~~~l~~~~~~~~---~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~  157 (233)
                      |.+....+.+.+........   .......+|||||+.+.++......++     ......+.|..+-..++.++.+...
T Consensus       180 IFv~~~~d~d~l~~iv~~qlPiL~~r~~i~LVIiDSVAa~fR~E~d~~~S-----dl~~r~~~l~rla~~Lr~LA~~~~~  254 (351)
T KOG1564|consen  180 IFVENVHDVDHLLHIVNRQLPILLNRKKIKLVIIDSVAALFRSEFDYNPS-----DLKKRARHLFRLAGKLRQLASKFDL  254 (351)
T ss_pred             EEEEeccchhhHHHHHhhhccceeccCcceEEEEehhhHHHHHHhccChh-----hhhhHHHHHHHHHHHHHHHHHhcCc
Confidence            44444444443333333211   113448999999999999975332221     1113345556666777777777777


Q ss_pred             EEEEeecC
Q 041690          158 KLLLSDTH  165 (233)
Q Consensus       158 vlvi~~~~  165 (233)
                      .+|++++-
T Consensus       255 aVV~~NQV  262 (351)
T KOG1564|consen  255 AVVCANQV  262 (351)
T ss_pred             cEEEeecc
Confidence            77777663

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=99.05  E-value=3.2e-09  Score=82.74  Aligned_cols=130  Identities=18%  Similarity=0.304  Sum_probs=74.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-------CeEEEEecCCcccccccccccccCCchhhhcceEE---EEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-------ANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQM---KYV   86 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-------~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~---~~~   86 (233)
                      .+|..+.|.||+|||||||++.++.......|       ..+.|+..+..+            ....+.+++..   ..+
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~~q~~~~------------~~~tv~~nl~~~~~~~L   92 (166)
T cd03223          25 KPGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFLPQRPYL------------PLGTLREQLIYPWDDVL   92 (166)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEECCCCcc------------ccccHHHHhhccCCCCC
Confidence            79999999999999999999988765542222       223344322100            11133334322   234


Q ss_pred             cCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCC
Q 041690           87 EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHL  166 (233)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~  166 (233)
                      +..+..+-.+..+-.  ..|+++++||+++-++..             ....     +.+.+..+   +.+++++++.. 
T Consensus        93 S~G~~~rv~laral~--~~p~~lllDEPt~~LD~~-------------~~~~-----l~~~l~~~---~~tiiivsh~~-  148 (166)
T cd03223          93 SGGEQQRLAFARLLL--HKPKFVFLDEATSALDEE-------------SEDR-----LYQLLKEL---GITVISVGHRP-  148 (166)
T ss_pred             CHHHHHHHHHHHHHH--cCCCEEEEECCccccCHH-------------HHHH-----HHHHHHHh---CCEEEEEeCCh-
Confidence            445544444444332  239999999999999841             1111     33444333   45666665542 


Q ss_pred             CCCchhHHHHHHhhccceEEEecC
Q 041690          167 GNSTRLLYIYKRWISSIFTVKGDG  190 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~~~  190 (233)
                       .      .. .+.+.++.+...+
T Consensus       149 -~------~~-~~~d~i~~l~~~~  164 (166)
T cd03223         149 -S------LW-KFHDRVLDLDGEG  164 (166)
T ss_pred             -h------HH-hhCCEEEEEcCCC
Confidence             1      22 4788888887643

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=99.05  E-value=1.7e-09  Score=85.31  Aligned_cols=140  Identities=13%  Similarity=0.177  Sum_probs=76.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccc-------cccccccc---CCchhhhcceEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSK-------RPYLSQSI---DPSSHVFKLIQMKYV   86 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~-------~~~~~~~~---~~~~~~~~~i~~~~~   86 (233)
                      .+|..+.|.||+|+|||||++.++.... ...+.+ ++.........       ..++.+.+   +..+. .+ -....+
T Consensus        23 ~~G~~~~l~G~nGsGKStLl~~i~G~~~-~~~G~v-~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~-~~-~~~~~L   98 (180)
T cd03214          23 EAGEIVGILGPNGAGKSTLLKTLAGLLK-PSSGEI-LLDGKDLASLSPKELARKIAYVPQALELLGLAHL-AD-RPFNEL   98 (180)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC-CCCcEE-EECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhH-hc-CCcccC
Confidence            6999999999999999999998876544 333444 44332100000       01111100   10000 00 011233


Q ss_pred             cCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecC
Q 041690           87 EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTH  165 (233)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~  165 (233)
                      +..+..+-.+..+-.  ..|+++++||+++-++..             ...     .+++.+..++++ +.+++++++..
T Consensus        99 S~G~~qrl~laral~--~~p~llllDEP~~~LD~~-------------~~~-----~~~~~l~~~~~~~~~tiii~sh~~  158 (180)
T cd03214          99 SGGERQRVLLARALA--QEPPILLLDEPTSHLDIA-------------HQI-----ELLELLRRLARERGKTVVMVLHDL  158 (180)
T ss_pred             CHHHHHHHHHHHHHh--cCCCEEEEeCCccCCCHH-------------HHH-----HHHHHHHHHHHhcCCEEEEEeCCH
Confidence            444444444443332  239999999999999831             111     155566655555 66666665532


Q ss_pred             CCCCchhHHHHHHhhccceEEEe
Q 041690          166 LGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .        .+..+.+.++.+..
T Consensus       159 ~--------~~~~~~d~~~~l~~  173 (180)
T cd03214         159 N--------LAARYADRVILLKD  173 (180)
T ss_pred             H--------HHHHhCCEEEEEEC
Confidence            1        45677888888874

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.05  E-value=2.3e-09  Score=88.22  Aligned_cols=37  Identities=16%  Similarity=0.131  Sum_probs=32.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+..++|+||||||||+|+..++.... ..|.++.|++
T Consensus        44 ~~~~l~l~Gp~G~GKThLl~a~~~~~~-~~~~~v~y~~   80 (235)
T PRK08084         44 HSGYIYLWSREGAGRSHLLHAACAELS-QRGRAVGYVP   80 (235)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEE
Confidence            456899999999999999999988777 5688999996

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=99.03  E-value=1.6e-09  Score=85.68  Aligned_cols=142  Identities=13%  Similarity=0.120  Sum_probs=76.8

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccc--------ccccccccc-----cCCchhhhcceE
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQ--------SKRPYLSQS-----IDPSSHVFKLIQ   82 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~--------~~~~~~~~~-----~~~~~~~~~~i~   82 (233)
                      .++|..+.|.||+|+|||||++.++.... ...+.+ +++.+....        ....++.+.     +.....+.+++.
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~~-~~~G~i-~~~g~~~~~~~~~~~~~~~i~~~~q~~~~~~~~~~~t~~e~l~  100 (182)
T cd03215          23 VRAGEIVGIAGLVGNGQTELAEALFGLRP-PASGEI-TLDGKPVTRRSPRDAIRAGIAYVPEDRKREGLVLDLSVAENIA  100 (182)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCC-CCCceE-EECCEECCccCHHHHHhCCeEEecCCcccCcccCCCcHHHHHH
Confidence            36999999999999999999998876544 223333 333221000        001111111     001112222222


Q ss_pred             EE-EecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEE
Q 041690           83 MK-YVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLL  161 (233)
Q Consensus        83 ~~-~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi  161 (233)
                      .. .++..+..+-.++.+-  -..|+++++||+++-++..             .+..     +.+.+..+.+++.+++++
T Consensus       101 ~~~~LS~G~~qrl~la~al--~~~p~llllDEP~~~LD~~-------------~~~~-----l~~~l~~~~~~~~tiii~  160 (182)
T cd03215         101 LSSLLSGGNQQKVVLARWL--ARDPRVLILDEPTRGVDVG-------------AKAE-----IYRLIRELADAGKAVLLI  160 (182)
T ss_pred             HHhhcCHHHHHHHHHHHHH--ccCCCEEEECCCCcCCCHH-------------HHHH-----HHHHHHHHHHCCCEEEEE
Confidence            11 1333443333344333  2239999999999999841             1111     555666555556666666


Q ss_pred             eecCCCCCchhHHHHHHhhccceEEE
Q 041690          162 SDTHLGNSTRLLYIYKRWISSIFTVK  187 (233)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~i~  187 (233)
                      ++..        ..+.++.+.++.+.
T Consensus       161 sh~~--------~~~~~~~d~v~~l~  178 (182)
T cd03215         161 SSEL--------DELLGLCDRILVMY  178 (182)
T ss_pred             eCCH--------HHHHHhCCEEEEec
Confidence            5532        14667778877775

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=99.03  E-value=1.5e-09  Score=83.27  Aligned_cols=36  Identities=25%  Similarity=0.509  Sum_probs=28.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVF   53 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~y   53 (233)
                      .+|..++|.||+|||||||.+++|.... ...+.++|
T Consensus        27 ~~Ge~iaitGPSG~GKStllk~va~Lis-p~~G~l~f   62 (223)
T COG4619          27 RAGEFIAITGPSGCGKSTLLKIVASLIS-PTSGTLLF   62 (223)
T ss_pred             cCCceEEEeCCCCccHHHHHHHHHhccC-CCCceEEE
Confidence            6999999999999999999999986555 33333333

>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=99.02  E-value=1.5e-09  Score=88.99  Aligned_cols=57  Identities=5%  Similarity=0.147  Sum_probs=40.8

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      |+++++||+++.++..             .+..     +++.+..++.. +.+++++++.-        ..+..+.+.++
T Consensus       157 P~iliLDEPta~LD~~-------------~~~~-----l~~~l~~L~~~~~~tii~~tHd~--------~~~~~~ad~v~  210 (235)
T COG1122         157 PEILLLDEPTAGLDPK-------------GRRE-----LLELLKKLKEEGGKTIIIVTHDL--------ELVLEYADRVV  210 (235)
T ss_pred             CCEEEEcCCCCCCCHH-------------HHHH-----HHHHHHHHHhcCCCeEEEEeCcH--------HHHHhhCCEEE
Confidence            9999999999999841             1112     67777777777 46777775532        26677788888


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       211 vl~~  214 (235)
T COG1122         211 VLDD  214 (235)
T ss_pred             EEEC
Confidence            8885

>PRK08727 hypothetical protein; Validated

Probab=99.02  E-value=6.2e-09  Score=85.60  Aligned_cols=37  Identities=24%  Similarity=0.357  Sum_probs=32.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ....++|+||+|||||+|+..++.... +.|.++.|++
T Consensus        40 ~~~~l~l~G~~G~GKThL~~a~~~~~~-~~~~~~~y~~   76 (233)
T PRK08727         40 SSDWLYLSGPAGTGKTHLALALCAAAE-QAGRSSAYLP   76 (233)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEEe
Confidence            345699999999999999999998877 6688999996

>PRK04296 thymidine kinase; Provisional

Probab=99.02  E-value=1.4e-08  Score=80.95  Aligned_cols=136  Identities=13%  Similarity=0.072  Sum_probs=74.2

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccc--ccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRP--YLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~--~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      |.+++++||||+||||++.+++.... ..|.+|+++.+.  +..+..  .+...++.      .+.-........+...+
T Consensus         2 g~i~litG~~GsGKTT~~l~~~~~~~-~~g~~v~i~k~~--~d~~~~~~~i~~~lg~------~~~~~~~~~~~~~~~~~   72 (190)
T PRK04296          2 AKLEFIYGAMNSGKSTELLQRAYNYE-ERGMKVLVFKPA--IDDRYGEGKVVSRIGL------SREAIPVSSDTDIFELI   72 (190)
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHHHH-HcCCeEEEEecc--ccccccCCcEecCCCC------cccceEeCChHHHHHHH
Confidence            67899999999999999999998887 568888887431  111110  01000110      00001112222222222


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCC-ch-hHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNS-TR-LLY  174 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~-~~-~~~  174 (233)
                      ..   ....+++|+|||++- ++.            .    +     +.++++.++..+..+++++....-.. +- ...
T Consensus        73 ~~---~~~~~dvviIDEaq~-l~~------------~----~-----v~~l~~~l~~~g~~vi~tgl~~~~~~~~f~~~~  127 (190)
T PRK04296         73 EE---EGEKIDCVLIDEAQF-LDK------------E----Q-----VVQLAEVLDDLGIPVICYGLDTDFRGEPFEGSP  127 (190)
T ss_pred             Hh---hCCCCCEEEEEcccc-CCH------------H----H-----HHHHHHHHHHcCCeEEEEecCcccccCcCchHH
Confidence            22   233489999999954 331            0    1     34455556677888877766532111 00 111


Q ss_pred             HHHHhhccceEEEe
Q 041690          175 IYKRWISSIFTVKG  188 (233)
Q Consensus       175 ~~~~~~~~~~~i~~  188 (233)
                      -+-.+.|.+..+..
T Consensus       128 ~L~~~aD~V~~l~~  141 (190)
T PRK04296        128 YLLALADKVTELKA  141 (190)
T ss_pred             HHHHhcCeEEEeeE
Confidence            34567777777765

>PRK08181 transposase; Validated

Probab=99.01  E-value=2.5e-09  Score=89.46  Aligned_cols=38  Identities=26%  Similarity=0.319  Sum_probs=34.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..+..++|+||||||||+|+..++..++ ..|.+|+|++
T Consensus       104 ~~~~nlll~Gp~GtGKTHLa~Aia~~a~-~~g~~v~f~~  141 (269)
T PRK08181        104 AKGANLLLFGPPGGGKSHLAAAIGLALI-ENGWRVLFTR  141 (269)
T ss_pred             hcCceEEEEecCCCcHHHHHHHHHHHHH-HcCCceeeee
Confidence            4678899999999999999999998887 6789999996

>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=99.00  E-value=7.1e-09  Score=78.95  Aligned_cols=118  Identities=17%  Similarity=0.168  Sum_probs=66.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+|..+.|.||+|+|||||++.++.... ...+. ++++..    ....++.+                ++..+..+-.+
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~-~~~G~-i~~~~~----~~i~~~~~----------------lS~G~~~rv~l   81 (144)
T cd03221          24 NPGDRIGLVGRNGAGKSTLLKLIAGELE-PDEGI-VTWGST----VKIGYFEQ----------------LSGGEKMRLAL   81 (144)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHcCCCC-CCceE-EEECCe----EEEEEEcc----------------CCHHHHHHHHH
Confidence            7999999999999999999998766443 22222 333211    00000111                22233333333


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+-  -..|+++++||+.+-++..             .+..     +.+.++.+   +.+++++++...        ..
T Consensus        82 aral--~~~p~illlDEP~~~LD~~-------------~~~~-----l~~~l~~~---~~til~~th~~~--------~~  130 (144)
T cd03221          82 AKLL--LENPNLLLLDEPTNHLDLE-------------SIEA-----LEEALKEY---PGTVILVSHDRY--------FL  130 (144)
T ss_pred             HHHH--hcCCCEEEEeCCccCCCHH-------------HHHH-----HHHHHHHc---CCEEEEEECCHH--------HH
Confidence            3332  2239999999999999831             1111     44455443   345666554321        45


Q ss_pred             HHhhccceEEE
Q 041690          177 KRWISSIFTVK  187 (233)
Q Consensus       177 ~~~~~~~~~i~  187 (233)
                      ..+.+.++.+.
T Consensus       131 ~~~~d~v~~l~  141 (144)
T cd03221         131 DQVATKIIELE  141 (144)
T ss_pred             HHhCCEEEEEe
Confidence            56677777765

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.

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=99.00  E-value=1.6e-09  Score=87.34  Aligned_cols=67  Identities=18%  Similarity=0.284  Sum_probs=38.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      +-..+++|||||+||||||..+|.    +.+.++.+++.       +. +..                   ..++..++.
T Consensus        49 ~l~h~lf~GPPG~GKTTLA~IIA~----e~~~~~~~~sg-------~~-i~k-------------------~~dl~~il~   97 (233)
T PF05496_consen   49 ALDHMLFYGPPGLGKTTLARIIAN----ELGVNFKITSG-------PA-IEK-------------------AGDLAAILT   97 (233)
T ss_dssp             ---EEEEESSTTSSHHHHHHHHHH----HCT--EEEEEC-------CC---S-------------------CHHHHHHHH
T ss_pred             CcceEEEECCCccchhHHHHHHHh----ccCCCeEeccc-------hh-hhh-------------------HHHHHHHHH
Confidence            456899999999999999998777    44455655541       10 000                   223344444


Q ss_pred             HhcccCCCCcEEEEeCCCcccc
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~  119 (233)
                      .+.  +  .+++|||||..+-.
T Consensus        98 ~l~--~--~~ILFIDEIHRlnk  115 (233)
T PF05496_consen   98 NLK--E--GDILFIDEIHRLNK  115 (233)
T ss_dssp             T----T--T-EEEECTCCC--H
T ss_pred             hcC--C--CcEEEEechhhccH
Confidence            332  2  67999999999876

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

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

Probab=99.00  E-value=2.7e-09  Score=86.57  Aligned_cols=28  Identities=18%  Similarity=0.157  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        27 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   54 (216)
T TIGR00960        27 TKGEMVFLVGHSGAGKSTFLKLILGIEK   54 (216)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=98.99  E-value=5.7e-09  Score=82.20  Aligned_cols=139  Identities=12%  Similarity=0.039  Sum_probs=75.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcc------cccccccccccC-CchhhhcceEEEEecCH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRL------QSKRPYLSQSID-PSSHVFKLIQMKYVEDD   89 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l------~~~~~~~~~~~~-~~~~~~~~i~~~~~~~~   89 (233)
                      ++|..+.|.||+|||||||++.++.... ...+.+ +++.....      .....++.+... ....+.+++ ...++..
T Consensus        26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~-~~~G~i-~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i-~~~LS~G  102 (178)
T cd03247          26 KQGEKIALLGRSGSGKSTLLQLLTGDLK-PQQGEI-TLDGVPVSDLEKALSSLISVLNQRPYLFDTTLRNNL-GRRFSGG  102 (178)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccCC-CCCCEE-EECCEEHHHHHHHHHhhEEEEccCCeeecccHHHhh-cccCCHH
Confidence            7999999999999999999998887554 323333 33322100      000011111100 011222233 2334444


Q ss_pred             HHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCC
Q 041690           90 EEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNS  169 (233)
Q Consensus        90 ~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~  169 (233)
                      +..+-.+..+-.  ..|+++++||+++-++..             .+..     +++.+..+. ++.+++++++...   
T Consensus       103 ~~qrv~laral~--~~p~~lllDEP~~~LD~~-------------~~~~-----l~~~l~~~~-~~~tii~~sh~~~---  158 (178)
T cd03247         103 ERQRLALARILL--QDAPIVLLDEPTVGLDPI-------------TERQ-----LLSLIFEVL-KDKTLIWITHHLT---  158 (178)
T ss_pred             HHHHHHHHHHHh--cCCCEEEEECCcccCCHH-------------HHHH-----HHHHHHHHc-CCCEEEEEecCHH---
Confidence            544444444332  239999999999999841             1111     556665554 4666666654321   


Q ss_pred             chhHHHHHHhhccceEEEe
Q 041690          170 TRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       170 ~~~~~~~~~~~~~~~~i~~  188 (233)
                           .++ +.+.++.+..
T Consensus       159 -----~~~-~~d~~~~l~~  171 (178)
T cd03247         159 -----GIE-HMDKILFLEN  171 (178)
T ss_pred             -----HHH-hCCEEEEEEC
Confidence                 233 4677777763

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

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

Probab=98.99  E-value=3.9e-09  Score=84.97  Aligned_cols=29  Identities=28%  Similarity=0.172  Sum_probs=25.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   51 (205)
T cd03226          23 LYAGEIIALTGKNGAGKTTLAKILAGLIK   51 (205)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            37999999999999999999998876543

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.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=98.98  E-value=4.2e-09  Score=85.23  Aligned_cols=28  Identities=21%  Similarity=0.224  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   50 (213)
T cd03235          23 KPGEFLAIVGPNGAGKSTLLKAILGLLK   50 (213)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCCCC
Confidence            7999999999999999999998876543

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=98.98  E-value=6.2e-09  Score=84.34  Aligned_cols=73  Identities=14%  Similarity=0.126  Sum_probs=47.8

Q ss_pred             CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCC
Q 041690           88 DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHL  166 (233)
Q Consensus        88 ~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~  166 (233)
                      .++..+-.++.+-  ...|+++++||+++.++.               ..+   +.+++++..+++. +.+.++|++.- 
T Consensus       144 GGQ~QRiaIARAL--~~~PklLIlDEptSaLD~---------------siQ---a~IlnlL~~l~~~~~lt~l~IsHdl-  202 (252)
T COG1124         144 GGQRQRIAIARAL--IPEPKLLILDEPTSALDV---------------SVQ---AQILNLLLELKKERGLTYLFISHDL-  202 (252)
T ss_pred             hhHHHHHHHHHHh--ccCCCEEEecCchhhhcH---------------HHH---HHHHHHHHHHHHhcCceEEEEeCcH-
Confidence            3444444444443  223999999999999983               122   2267777776655 55666676532 


Q ss_pred             CCCchhHHHHHHhhccceEEEe
Q 041690          167 GNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                             -+.++++++++.++.
T Consensus       203 -------~~v~~~cdRi~Vm~~  217 (252)
T COG1124         203 -------ALVEHMCDRIAVMDN  217 (252)
T ss_pred             -------HHHHHHhhheeeeeC
Confidence                   278999999888885

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=98.98  E-value=1.1e-08  Score=78.81  Aligned_cols=132  Identities=12%  Similarity=0.139  Sum_probs=74.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEE-EecCHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMK-YVEDDEEIKKY   95 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~l~~~   95 (233)
                      .+|..+.|.||+|+|||||++.++.... ...+. +++..+.....          ........+.+. .++..+..+-.
T Consensus        23 ~~g~~~~i~G~nGsGKStll~~l~g~~~-~~~G~-i~~~~~~~~~~----------~~~~~~~~i~~~~qlS~G~~~r~~   90 (157)
T cd00267          23 KAGEIVALVGPNGSGKSTLLRAIAGLLK-PTSGE-ILIDGKDIAKL----------PLEELRRRIGYVPQLSGGQRQRVA   90 (157)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC-CCccE-EEECCEEcccC----------CHHHHHhceEEEeeCCHHHHHHHH
Confidence            6999999999999999999998876544 22333 34442210000          000001112111 13434444433


Q ss_pred             HHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHH
Q 041690           96 FAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYI  175 (233)
Q Consensus        96 ~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~  175 (233)
                      +..+-.  ..|+++++||+++-++..             .+.     .+.+.+...+..+.+++++++..        ..
T Consensus        91 l~~~l~--~~~~i~ilDEp~~~lD~~-------------~~~-----~l~~~l~~~~~~~~tii~~sh~~--------~~  142 (157)
T cd00267          91 LARALL--LNPDLLLLDEPTSGLDPA-------------SRE-----RLLELLRELAEEGRTVIIVTHDP--------EL  142 (157)
T ss_pred             HHHHHh--cCCCEEEEeCCCcCCCHH-------------HHH-----HHHHHHHHHHHCCCEEEEEeCCH--------HH
Confidence            443332  239999999999999831             111     15555655555556666665542        15


Q ss_pred             HHHhhccceEEEe
Q 041690          176 YKRWISSIFTVKG  188 (233)
Q Consensus       176 ~~~~~~~~~~i~~  188 (233)
                      .+.+++.++.+..
T Consensus       143 ~~~~~d~i~~l~~  155 (157)
T cd00267         143 AELAADRVIVLKD  155 (157)
T ss_pred             HHHhCCEEEEEeC
Confidence            5666788877763

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.

>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins

Probab=98.97  E-value=6.5e-09  Score=89.43  Aligned_cols=159  Identities=16%  Similarity=0.323  Sum_probs=89.7

Q ss_pred             ccccccccccccccCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC---cccccccccccccCCchhhh
Q 041690            2 IESFFDGNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS---RLQSKRPYLSQSIDPSSHVF   78 (233)
Q Consensus         2 ~~~ff~~~~~~~~~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~---~l~~~~~~~~~~~~~~~~~~   78 (233)
                      |++||..+        .|...||-|.||||||+|+..+...++.  ...++||+++-   .++.........++ ...+.
T Consensus         1 ~~~FF~~~--------~G~TLLIKG~PGTGKTtfaLelL~~l~~--~~~v~YISTRVd~d~vy~~y~~~~~~i~-~~~vl   69 (484)
T PF07088_consen    1 IKRFFTQE--------PGQTLLIKGEPGTGKTTFALELLNSLKD--HGNVMYISTRVDQDTVYEMYPWIEESID-PTNVL   69 (484)
T ss_pred             CchhhcCC--------CCcEEEEecCCCCCceeeehhhHHHHhc--cCCeEEEEeccCHHHHHHhhhhhccccC-hhhhh
Confidence            57899888        9999999999999999999999887772  46799999871   11111100000000 00000


Q ss_pred             c----ceE-------EEEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHH
Q 041690           79 K----LIQ-------MKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNA  147 (233)
Q Consensus        79 ~----~i~-------~~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  147 (233)
                      +    .+.       ..+-...+.+..+++.+.... ...+|++||.++++....  .+.+.+.+  ..     ....++
T Consensus        70 DatQd~~~~~~~~~vp~~~l~~ds~~~f~~~i~~~~-k~~iI~~DSWdaiieyla--~~~~~~ed--~e-----~l~~dL  139 (484)
T PF07088_consen   70 DATQDPFELPLDKDVPFERLDIDSFRDFVDKINEAG-KKPIIAFDSWDAIIEYLA--EEHDEPED--IE-----TLTNDL  139 (484)
T ss_pred             hhccchhhccccccCcccccCHHHHHHHHHHhhhcc-cCcEEEEecHHHHHHHhh--hhhcCcHH--HH-----HHHHHH
Confidence            0    000       011112445666666443222 256999999777666321  11111111  11     113344


Q ss_pred             HHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEE
Q 041690          148 ITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVK  187 (233)
Q Consensus       148 ~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~  187 (233)
                      +..+...+..++++.++....      .+++++|-|+.+.
T Consensus       140 v~lard~g~~LIlVsEsa~~~------~LdYivDGVVTL~  173 (484)
T PF07088_consen  140 VELARDMGINLILVSESAENE------PLDYIVDGVVTLQ  173 (484)
T ss_pred             HHHHhhcCceEEEEEecCCCC------cchheeeeEEEEE
Confidence            434456678888888876544      4677788777775

GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=98.97  E-value=4.3e-09  Score=85.46  Aligned_cols=28  Identities=32%  Similarity=0.258  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   56 (218)
T cd03266          29 KPGEVTGLLGPNGAGKTTTLRMLAGLLE   56 (218)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCcC
Confidence            6999999999999999999998876544

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

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

Probab=98.96  E-value=9.8e-09  Score=83.64  Aligned_cols=29  Identities=28%  Similarity=0.368  Sum_probs=25.1

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.+|.-..
T Consensus        26 v~~GEfvsilGpSGcGKSTLLriiAGL~~   54 (248)
T COG1116          26 VEKGEFVAILGPSGCGKSTLLRLIAGLEK   54 (248)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998875443

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=98.96  E-value=5.5e-09  Score=81.62  Aligned_cols=124  Identities=12%  Similarity=0.177  Sum_probs=68.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccc-ccccccccCCchhhhcceEEEEecCHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSK-RPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAF   99 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~-~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~~   99 (233)
                      .++|.|+||||||++|.+++..    .+.+++|+.+...+... ..++.......     .-.+...+....+.+.+...
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~----~~~~~~y~at~~~~d~em~~rI~~H~~~R-----~~~w~t~E~~~~l~~~l~~~   71 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAE----LGGPVTYIATAEAFDDEMAERIARHRKRR-----PAHWRTIETPRDLVSALKEL   71 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh----cCCCeEEEEccCcCCHHHHHHHHHHHHhC-----CCCceEeecHHHHHHHHHhc
Confidence            3789999999999999998763    56799999876433111 11100000000     00112223344555555422


Q ss_pred             cccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeec
Q 041690          100 HQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDT  164 (233)
Q Consensus       100 ~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~  164 (233)
                         . .+++|+||+++.+.......    ....-.....   ..+..++..+++.+.++++|++-
T Consensus        72 ---~-~~~~VLIDclt~~~~n~l~~----~~~~~~~~~~---~~i~~l~~~l~~~~~~~viVsnE  125 (169)
T cd00544          72 ---D-PGDVVLIDCLTLWVTNLLFA----DLEEWEAAIA---DEIDALLAAVRNKPGTLILVSNE  125 (169)
T ss_pred             ---C-CCCEEEEEcHhHHHHHhCCC----ccccchhHHH---HHHHHHHHHHHcCCCcEEEEECC
Confidence               1 37899999999998853211    0000001111   12455666666777777777654

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=98.96  E-value=6.6e-09  Score=86.11  Aligned_cols=145  Identities=14%  Similarity=0.142  Sum_probs=78.9

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC------CCeEEEEecCCcccc---cccccccc---cCC----chhhhc
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQS------NANVVFMCNRSRLQS---KRPYLSQS---IDP----SSHVFK   79 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~------g~~v~yi~~e~~l~~---~~~~~~~~---~~~----~~~~~~   79 (233)
                      ..+|..+.|.||+|||||||++.++.......      +..+.|+........   ..+.+...   ...    ...+++
T Consensus        22 i~~Ge~~~i~G~NGsGKSTLlk~L~G~~~p~~G~i~~~g~~i~~~~q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~~l~  101 (246)
T cd03237          22 ISESEVIGILGPNGIGKTTFIKMLAGVLKPDEGDIEIELDTVSYKPQYIKADYEGTVRDLLSSITKDFYTHPYFKTEIAK  101 (246)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCCcCCCCeEEECCceEEEecccccCCCCCCHHHHHHHHhhhccccHHHHHHHHH
Confidence            46899999999999999999998876544222      234556554311100   00111000   000    011111


Q ss_pred             ceEE--------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh
Q 041690           80 LIQM--------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA  151 (233)
Q Consensus        80 ~i~~--------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l  151 (233)
                      .+.+        ..++.++..+-.++.+-  -..|+++++||+++.++..             .+..     +.+.+..+
T Consensus       102 ~l~l~~~~~~~~~~LSgGe~qrv~iaraL--~~~p~llllDEPt~~LD~~-------------~~~~-----l~~~l~~~  161 (246)
T cd03237         102 PLQIEQILDREVPELSGGELQRVAIAACL--SKDADIYLLDEPSAYLDVE-------------QRLM-----ASKVIRRF  161 (246)
T ss_pred             HcCCHHHhhCChhhCCHHHHHHHHHHHHH--hcCCCEEEEeCCcccCCHH-------------HHHH-----HHHHHHHH
Confidence            1111        12233344443444333  2239999999999999841             1112     55556555


Q ss_pred             hh-cCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          152 NK-KSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       152 ~~-~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .+ .+.+++++++..        ..+..+.+.++.+.+
T Consensus       162 ~~~~~~tiiivsHd~--------~~~~~~~d~i~~l~~  191 (246)
T cd03237         162 AENNEKTAFVVEHDI--------IMIDYLADRLIVFEG  191 (246)
T ss_pred             HHhcCCEEEEEeCCH--------HHHHHhCCEEEEEcC
Confidence            44 366777776542        156777888888865

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

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=98.96  E-value=8.5e-09  Score=80.68  Aligned_cols=135  Identities=13%  Similarity=0.157  Sum_probs=71.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccc-------cccccccccC-CchhhhcceEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQS-------KRPYLSQSID-PSSHVFKLIQMKYVED   88 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~-------~~~~~~~~~~-~~~~~~~~i~~~~~~~   88 (233)
                      ++|..+.|.||+|+|||||++.++.... ...+.+ ++..+..-..       ...++.+... ....+.+++    ++.
T Consensus        26 ~~G~~~~l~G~nGsGKstLl~~i~G~~~-~~~G~i-~~~g~~~~~~~~~~~~~~i~~~~~~~~~~~~t~~e~l----LS~   99 (171)
T cd03228          26 KPGEKVAIVGPSGSGKSTLLKLLLRLYD-PTSGEI-LIDGVDLRDLDLESLRKNIAYVPQDPFLFSGTIRENI----LSG   99 (171)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCCC-CCCCEE-EECCEEhhhcCHHHHHhhEEEEcCCchhccchHHHHh----hCH
Confidence            7999999999999999999998876554 333444 3333210000       0001111000 001122222    333


Q ss_pred             HHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCC
Q 041690           89 DEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGN  168 (233)
Q Consensus        89 ~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~  168 (233)
                      .+..+-.+..+-  -..|+++++||+++-++..             .+.     .+++.+..+.+ +.+++++++...  
T Consensus       100 G~~~rl~la~al--~~~p~llllDEP~~gLD~~-------------~~~-----~l~~~l~~~~~-~~tii~~sh~~~--  156 (171)
T cd03228         100 GQRQRIAIARAL--LRDPPILILDEATSALDPE-------------TEA-----LILEALRALAK-GKTVIVIAHRLS--  156 (171)
T ss_pred             HHHHHHHHHHHH--hcCCCEEEEECCCcCCCHH-------------HHH-----HHHHHHHHhcC-CCEEEEEecCHH--
Confidence            443333333332  2239999999999999841             111     15556655543 555665544321  


Q ss_pred             CchhHHHHHHhhccceEEE
Q 041690          169 STRLLYIYKRWISSIFTVK  187 (233)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~  187 (233)
                            .++. .+.++.+.
T Consensus       157 ------~~~~-~d~~~~l~  168 (171)
T cd03228         157 ------TIRD-ADRIIVLD  168 (171)
T ss_pred             ------HHHh-CCEEEEEc
Confidence                  2334 67776664

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.96  E-value=1.4e-08  Score=82.65  Aligned_cols=38  Identities=18%  Similarity=0.256  Sum_probs=32.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..+..++|+||||||||+++++++.... ..+.+++|++
T Consensus        36 ~~~~~lll~G~~G~GKT~la~~~~~~~~-~~~~~~~~i~   73 (226)
T TIGR03420        36 KGDRFLYLWGESGSGKSHLLQAACAAAE-ERGKSAIYLP   73 (226)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHH-hcCCcEEEEe
Confidence            4678899999999999999999988766 5577889986

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=98.96  E-value=8.1e-09  Score=82.51  Aligned_cols=143  Identities=14%  Similarity=0.137  Sum_probs=78.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh--hhcCCCeEEEEecCCc----ccccccccccccC--CchhhhcceEE----E
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC--ASQSNANVVFMCNRSR----LQSKRPYLSQSID--PSSHVFKLIQM----K   84 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~--~~~~g~~v~yi~~e~~----l~~~~~~~~~~~~--~~~~~~~~i~~----~   84 (233)
                      .+|..+.|.||+|||||||++.++...  . ...+.+. ++.+..    ......++.+...  ....+.+++.+    .
T Consensus        33 ~~Ge~~~l~G~nGsGKStLl~~i~Gl~~~~-~~~G~i~-~~g~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~i~~~~~~~  110 (194)
T cd03213          33 KPGELTAIMGPSGAGKSTLLNALAGRRTGL-GVSGEVL-INGRPLDKRSFRKIIGYVPQDDILHPTLTVRETLMFAAKLR  110 (194)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCCCC-CCceEEE-ECCEeCchHhhhheEEEccCcccCCCCCcHHHHHHHHHHhc
Confidence            799999999999999999999887655  4 3333333 322210    0000111111110  11122222211    1


Q ss_pred             EecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeec
Q 041690           85 YVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDT  164 (233)
Q Consensus        85 ~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~  164 (233)
                      .++..+..+-.+..+-.  ..|+++++||+++-++..             .+..     +++.+..+.+++.+++++++.
T Consensus       111 ~LS~G~~qrv~laral~--~~p~illlDEP~~~LD~~-------------~~~~-----l~~~l~~~~~~~~tiii~sh~  170 (194)
T cd03213         111 GLSGGERKRVSIALELV--SNPSLLFLDEPTSGLDSS-------------SALQ-----VMSLLRRLADTGRTIICSIHQ  170 (194)
T ss_pred             cCCHHHHHHHHHHHHHH--cCCCEEEEeCCCcCCCHH-------------HHHH-----HHHHHHHHHhCCCEEEEEecC
Confidence            33444444444443332  239999999999999841             1111     555666665567777777664


Q ss_pred             CCCCCchhHHHHHHhhccceEEEe
Q 041690          165 HLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      ..       .....+.+.++.+..
T Consensus       171 ~~-------~~~~~~~d~v~~l~~  187 (194)
T cd03213         171 PS-------SEIFELFDKLLLLSQ  187 (194)
T ss_pred             ch-------HHHHHhcCEEEEEeC
Confidence            21       135567888888864

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>PRK05642 DNA replication initiation factor; Validated

Probab=98.95  E-value=7.8e-09  Score=85.07  Aligned_cols=36  Identities=19%  Similarity=0.255  Sum_probs=31.1

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ..++|+||+|+|||+|+..++.... ..+.+++|++.
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~-~~~~~v~y~~~   81 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFE-QRGEPAVYLPL   81 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEeeH
Confidence            6789999999999999998887766 55789999973

>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=98.95  E-value=5.1e-09  Score=84.71  Aligned_cols=28  Identities=25%  Similarity=0.334  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        25 ~~G~~~~i~G~nGsGKSTLl~~l~G~~~   52 (214)
T cd03292          25 SAGEFVFLVGPSGAGKSTLLKLIYKEEL   52 (214)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876543

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK06526 transposase; Provisional

Probab=98.95  E-value=4.7e-09  Score=87.27  Aligned_cols=38  Identities=26%  Similarity=0.416  Sum_probs=33.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +.+..++|+||||||||+|+..++...+ ..|.+|.|++
T Consensus        96 ~~~~nlll~Gp~GtGKThLa~al~~~a~-~~g~~v~f~t  133 (254)
T PRK06526         96 TGKENVVFLGPPGTGKTHLAIGLGIRAC-QAGHRVLFAT  133 (254)
T ss_pred             hcCceEEEEeCCCCchHHHHHHHHHHHH-HCCCchhhhh
Confidence            5677899999999999999999998888 6788898875

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=98.95  E-value=4.9e-09  Score=84.86  Aligned_cols=28  Identities=29%  Similarity=0.362  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        26 ~~G~~~~l~G~nGsGKSTLl~~i~Gl~~   53 (214)
T TIGR02673        26 RKGEFLFLTGPSGAGKTTLLKLLYGALT   53 (214)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

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.

>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=98.94  E-value=1.3e-08  Score=76.02  Aligned_cols=38  Identities=29%  Similarity=0.370  Sum_probs=32.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+..++|+||||||||++++.++.... ..+.+++|++.
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~-~~~~~v~~~~~   55 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELF-RPGAPFLYLNA   55 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhh-cCCCCeEEEeh
Confidence            577899999999999999999988776 55778888863

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.

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]

Probab=98.94  E-value=8.1e-09  Score=81.51  Aligned_cols=142  Identities=16%  Similarity=0.131  Sum_probs=81.2

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccC---------CchhhhcceEE---
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSID---------PSSHVFKLIQM---   83 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~---------~~~~~~~~i~~---   83 (233)
                      .+.|+++.|.||+|+||||+++.++.-+...  ...++++.-+.. ..+..+.+..+         ..-.+.++|..   
T Consensus        25 ae~Gei~GlLG~NGAGKTT~LRmiatlL~P~--~G~v~idg~d~~-~~p~~vrr~IGVl~~e~glY~RlT~rEnl~~Fa~  101 (245)
T COG4555          25 AEEGEITGLLGENGAGKTTLLRMIATLLIPD--SGKVTIDGVDTV-RDPSFVRRKIGVLFGERGLYARLTARENLKYFAR  101 (245)
T ss_pred             eccceEEEEEcCCCCCchhHHHHHHHhccCC--CceEEEeecccc-cChHHHhhhcceecCCcChhhhhhHHHHHHHHHH
Confidence            3799999999999999999999988766533  335666543211 11111111110         00001111110   


Q ss_pred             -----------------------EE-------ecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchh
Q 041690           84 -----------------------KY-------VEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGR  133 (233)
Q Consensus        84 -----------------------~~-------~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~  133 (233)
                                             .+       .+..-..+-.++.+..  ..|+++++||+++-++-             
T Consensus       102 L~~l~~~~~kari~~l~k~l~l~~~~~rRv~~~S~G~kqkV~iARAlv--h~P~i~vlDEP~sGLDi-------------  166 (245)
T COG4555         102 LNGLSRKEIKARIAELSKRLQLLEYLDRRVGEFSTGMKQKVAIARALV--HDPSILVLDEPTSGLDI-------------  166 (245)
T ss_pred             HhhhhhhHHHHHHHHHHHHhChHHHHHHHHhhhchhhHHHHHHHHHHh--cCCCeEEEcCCCCCccH-------------
Confidence                                   00       0011111112222222  22999999999998883             


Q ss_pred             hHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          134 DLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       134 ~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                           .+...+++.+..++..|.+++.-++..        .-.+..+|+++.|..
T Consensus       167 -----~~~r~~~dfi~q~k~egr~viFSSH~m--------~EvealCDrvivlh~  208 (245)
T COG4555         167 -----RTRRKFHDFIKQLKNEGRAVIFSSHIM--------QEVEALCDRVIVLHK  208 (245)
T ss_pred             -----HHHHHHHHHHHHhhcCCcEEEEecccH--------HHHHHhhheEEEEec
Confidence                 233448889988888888777765532        245667888888875

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=98.94  E-value=9.2e-09  Score=83.25  Aligned_cols=28  Identities=36%  Similarity=0.388  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        24 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   51 (213)
T cd03259          24 EPGEFLALLGPSGCGKTTLLRLIAGLER   51 (213)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

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.

>PRK12377 putative replication protein; Provisional

Probab=98.93  E-value=7.1e-09  Score=85.76  Aligned_cols=37  Identities=19%  Similarity=0.211  Sum_probs=33.0

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ...++|+||||||||+|+.+++..+. ..|.+|+|++.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~-~~g~~v~~i~~  137 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLL-AKGRSVIVVTV  137 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH-HcCCCeEEEEH
Confidence            46799999999999999999999888 67889999973

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=98.93  E-value=1.1e-08  Score=82.73  Aligned_cols=28  Identities=21%  Similarity=0.323  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        24 ~~G~~~~l~G~nGsGKSTLl~~l~G~~~   51 (213)
T cd03262          24 KKGEVVVIIGPSGSGKSTLLRCINLLEE   51 (213)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

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

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=98.93  E-value=6.5e-09  Score=83.94  Aligned_cols=28  Identities=25%  Similarity=0.135  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        24 ~~G~~~~i~G~nGsGKSTLl~~l~G~~~   51 (210)
T cd03269          24 EKGEIFGLLGPNGAGKTTTIRMILGIIL   51 (210)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998886543

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.93  E-value=2.2e-08  Score=81.89  Aligned_cols=38  Identities=18%  Similarity=0.269  Sum_probs=32.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..+..++|+||||||||+|+..++.... ..+..+.|++
T Consensus        40 ~~~~~~~l~G~~G~GKT~La~ai~~~~~-~~~~~~~~i~   77 (227)
T PRK08903         40 VADRFFYLWGEAGSGRSHLLQALVADAS-YGGRNARYLD   77 (227)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEEe
Confidence            3567899999999999999999988776 5678899986

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=98.92  E-value=1.2e-08  Score=82.73  Aligned_cols=29  Identities=28%  Similarity=0.283  Sum_probs=25.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|+|||||++.++....
T Consensus        21 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   49 (213)
T TIGR01277        21 VADGEIVAIMGPSGAGKSTLLNLIAGFIE   49 (213)
T ss_pred             EeCCcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            36999999999999999999998886554

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=98.92  E-value=1.2e-08  Score=82.45  Aligned_cols=28  Identities=32%  Similarity=0.363  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   51 (213)
T cd03301          24 ADGEFVVLLGPSGCGKTTTLRMIAGLEE   51 (213)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998886543

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.

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=98.92  E-value=1e-08  Score=85.25  Aligned_cols=143  Identities=15%  Similarity=0.169  Sum_probs=77.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-------CeEEEEecCCccccc-----ccccccccCC----chhhhcc
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-------ANVVFMCNRSRLQSK-----RPYLSQSIDP----SSHVFKL   80 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-------~~v~yi~~e~~l~~~-----~~~~~~~~~~----~~~~~~~   80 (233)
                      .+|..+.|.||+|+|||||++.++.......|       ..+.|+..+..+...     ..++....+.    ...+++.
T Consensus        28 ~~Ge~~~I~G~NGsGKSTLl~~i~Gl~~p~~G~i~~~~~~~i~~v~q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~  107 (251)
T PRK09544         28 KPGKILTLLGPNGAGKSTLVRVVLGLVAPDEGVIKRNGKLRIGYVPQKLYLDTTLPLTVNRFLRLRPGTKKEDILPALKR  107 (251)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCccCEEEeccccccccccChhHHHHHhccccccHHHHHHHHHH
Confidence            79999999999999999999988765432222       245666544211110     0010000000    0111111


Q ss_pred             eEE--------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhh
Q 041690           81 IQM--------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHAN  152 (233)
Q Consensus        81 i~~--------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~  152 (233)
                      +.+        ..++.++..+-.+..+-  -..|+++++||+++-++..             ....     +++.+..+.
T Consensus       108 ~gl~~~~~~~~~~LSgGq~qrv~laral--~~~p~lllLDEPt~~LD~~-------------~~~~-----l~~~L~~~~  167 (251)
T PRK09544        108 VQAGHLIDAPMQKLSGGETQRVLLARAL--LNRPQLLVLDEPTQGVDVN-------------GQVA-----LYDLIDQLR  167 (251)
T ss_pred             cCChHHHhCChhhCCHHHHHHHHHHHHH--hcCCCEEEEeCCCcCCCHH-------------HHHH-----HHHHHHHHH
Confidence            111        12233333333444333  2239999999999999841             1111     555565555


Q ss_pred             hc-CCcEEEEeecCCCCCchhHHHHHHhhccceEEE
Q 041690          153 KK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVK  187 (233)
Q Consensus       153 ~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~  187 (233)
                      ++ +.+++++++...        .+..+.+.++.+.
T Consensus       168 ~~~g~tiiivsH~~~--------~i~~~~d~i~~l~  195 (251)
T PRK09544        168 RELDCAVLMVSHDLH--------LVMAKTDEVLCLN  195 (251)
T ss_pred             HhcCCEEEEEecCHH--------HHHHhCCEEEEEC
Confidence            54 666766655421        5567778888775

>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=98.92  E-value=9.7e-09  Score=83.56  Aligned_cols=28  Identities=32%  Similarity=0.400  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        28 ~~G~~~~i~G~nGsGKSTLl~~l~Gl~~   55 (220)
T cd03293          28 EEGEFVALVGPSGCGKSTLLRIIAGLER   55 (220)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

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.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=98.92  E-value=8.7e-09  Score=83.06  Aligned_cols=28  Identities=21%  Similarity=0.113  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        24 ~~G~~~~i~G~nGsGKSTLl~~l~Gl~~   51 (208)
T cd03268          24 KKGEIYGFLGPNGAGKTTTMKIILGLIK   51 (208)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCcC
Confidence            6999999999999999999998876543

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.91  E-value=1.1e-08  Score=81.59  Aligned_cols=144  Identities=15%  Similarity=0.130  Sum_probs=74.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh-hcCCCeEEEEecCCc---ccccccccccccC--CchhhhcceEE----EEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA-SQSNANVVFMCNRSR---LQSKRPYLSQSID--PSSHVFKLIQM----KYV   86 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~-~~~g~~v~yi~~e~~---l~~~~~~~~~~~~--~~~~~~~~i~~----~~~   86 (233)
                      .+|..+.|.||+|||||||++.++.... ....+. ++++.+..   +.....++.+...  ....+.+++.+    ..+
T Consensus        31 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~~~G~-i~~~g~~~~~~~~~~i~~~~q~~~~~~~~tv~~~l~~~~~~~~L  109 (192)
T cd03232          31 KPGTLTALMGESGAGKTTLLDVLAGRKTAGVITGE-ILINGRPLDKNFQRSTGYVEQQDVHSPNLTVREALRFSALLRGL  109 (192)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhCCCcCCCcceE-EEECCEehHHHhhhceEEecccCccccCCcHHHHHHHHHHHhcC
Confidence            7999999999999999999998874321 011222 23332210   0000111111100  11112222211    123


Q ss_pred             cCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCC
Q 041690           87 EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHL  166 (233)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~  166 (233)
                      +..+..+-.+..+-  -..|+++++||+++-++.             ..+..     +++.+..+++.+.+++++++...
T Consensus       110 SgGe~qrv~la~al--~~~p~vlllDEP~~~LD~-------------~~~~~-----l~~~l~~~~~~~~tiiivtH~~~  169 (192)
T cd03232         110 SVEQRKRLTIGVEL--AAKPSILFLDEPTSGLDS-------------QAAYN-----IVRFLKKLADSGQAILCTIHQPS  169 (192)
T ss_pred             CHHHhHHHHHHHHH--hcCCcEEEEeCCCcCCCH-------------HHHHH-----HHHHHHHHHHcCCEEEEEEcCCh
Confidence            33444333344333  223999999999999984             11112     55566665555777777765421


Q ss_pred             CCCchhHHHHHHhhccceEEEe
Q 041690          167 GNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                             ....++++.++.+..
T Consensus       170 -------~~~~~~~d~i~~l~~  184 (192)
T cd03232         170 -------ASIFEKFDRLLLLKR  184 (192)
T ss_pred             -------HHHHhhCCEEEEEcC
Confidence                   023556787777753

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=98.91  E-value=1e-08  Score=84.49  Aligned_cols=29  Identities=24%  Similarity=0.271  Sum_probs=25.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   52 (241)
T cd03256          24 INPGEFVALIGPSGAGKSTLLRCLNGLVE   52 (241)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCcC
Confidence            37999999999999999999998876543

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=98.91  E-value=9.5e-09  Score=83.42  Aligned_cols=28  Identities=21%  Similarity=0.241  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        28 ~~G~~~~l~G~nGsGKSTLl~~i~Gl~~   55 (218)
T cd03255          28 EKGEFVAIVGPSGSGKSTLLNILGGLDR   55 (218)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHhCCcC
Confidence            7999999999999999999998876544

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.

>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=98.91  E-value=8.8e-09  Score=84.49  Aligned_cols=28  Identities=18%  Similarity=0.049  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        29 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   56 (233)
T cd03258          29 PKGEIFGIIGRSGAGKSTLIRCINGLER   56 (233)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876554

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.91  E-value=9.8e-09  Score=82.93  Aligned_cols=28  Identities=25%  Similarity=0.316  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        25 ~~G~~~~l~G~nGsGKSTLl~~l~G~~~   52 (211)
T cd03225          25 KKGEFVLIVGPNGSGKSTLLRLLNGLLG   52 (211)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            6999999999999999999998876543

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.

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=98.91  E-value=1.4e-08  Score=83.82  Aligned_cols=28  Identities=25%  Similarity=0.304  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        27 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   54 (241)
T PRK10895         27 NSGEIVGLLGPNGAGKTTTFYMVVGIVP   54 (241)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998886543

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=98.91  E-value=1.5e-08  Score=83.49  Aligned_cols=28  Identities=32%  Similarity=0.281  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   53 (239)
T cd03296          26 PSGELVALLGPSGSGKTTLLRLIAGLER   53 (239)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>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=98.91  E-value=9.6e-09  Score=83.57  Aligned_cols=27  Identities=26%  Similarity=0.205  Sum_probs=24.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|+|||||++.++...
T Consensus        24 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          24 RRGEIFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            699999999999999999999887644

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.

>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=98.90  E-value=1.1e-08  Score=83.86  Aligned_cols=28  Identities=25%  Similarity=0.291  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   51 (232)
T cd03218          24 KQGEIVGLLGPNGAGKTTTFYMIVGLVK   51 (232)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998875543

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.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.90  E-value=1.5e-08  Score=82.21  Aligned_cols=28  Identities=29%  Similarity=0.236  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        35 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   62 (214)
T PRK13543         35 DAGEALLVQGDNGAGKTTLLRVLAGLLH   62 (214)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876544

>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=98.90  E-value=8.9e-09  Score=84.61  Aligned_cols=29  Identities=24%  Similarity=0.248  Sum_probs=25.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   51 (235)
T cd03261          23 VRRGEILAIIGPSGSGKSTLLRLIVGLLR   51 (235)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998876543

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.

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=98.90  E-value=1.3e-08  Score=83.06  Aligned_cols=28  Identities=25%  Similarity=0.234  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        24 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   51 (223)
T TIGR03740        24 PKNSVYGLLGPNGAGKSTLLKMITGILR   51 (223)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=98.90  E-value=2.7e-08  Score=81.62  Aligned_cols=29  Identities=24%  Similarity=0.228  Sum_probs=25.2

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus        22 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   50 (232)
T PRK10771         22 VERGERVAILGPSGAGKSTLLNLIAGFLT   50 (232)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            36999999999999999999998876544

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=98.90  E-value=7.8e-09  Score=88.39  Aligned_cols=28  Identities=25%  Similarity=0.116  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|.++.|.||+|+|||||++.++....
T Consensus        31 ~~Gei~gllGpNGaGKSTLl~~l~Gl~~   58 (306)
T PRK13537         31 QRGECFGLLGPNGAGKTTTLRMLLGLTH   58 (306)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            6999999999999999999998886544

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=98.89  E-value=1.1e-08  Score=83.99  Aligned_cols=28  Identities=29%  Similarity=0.236  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   51 (236)
T cd03219          24 RPGEIHGLIGPNGAGKTTLFNLISGFLR   51 (236)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHcCCCC
Confidence            7999999999999999999998875443

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=98.89  E-value=1.4e-08  Score=82.64  Aligned_cols=108  Identities=20%  Similarity=0.264  Sum_probs=63.3

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      ...+.||||+|+|||+|+.+++...... .+.+|+|++.+.       +.........             ...+..+..
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~-------f~~~~~~~~~-------------~~~~~~~~~   93 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEE-------FIREFADALR-------------DGEIEEFKD   93 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHH-------HHHHHHHHHH-------------TTSHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHH-------HHHHHHHHHH-------------cccchhhhh
Confidence            3468999999999999999998877633 578899997432       1110000000             001112222


Q ss_pred             HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCC
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLG  167 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~  167 (233)
                      ..   . ..++++||+++.+...              ..++.   .++.++..+...|..+++.+.....
T Consensus        94 ~~---~-~~DlL~iDDi~~l~~~--------------~~~q~---~lf~l~n~~~~~~k~li~ts~~~P~  142 (219)
T PF00308_consen   94 RL---R-SADLLIIDDIQFLAGK--------------QRTQE---ELFHLFNRLIESGKQLILTSDRPPS  142 (219)
T ss_dssp             HH---C-TSSEEEEETGGGGTTH--------------HHHHH---HHHHHHHHHHHTTSEEEEEESS-TT
T ss_pred             hh---h-cCCEEEEecchhhcCc--------------hHHHH---HHHHHHHHHHhhCCeEEEEeCCCCc
Confidence            22   2 2889999999887652              11222   2566666666777777666655433

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=98.89  E-value=1.4e-08  Score=83.72  Aligned_cols=28  Identities=21%  Similarity=0.287  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        26 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   53 (243)
T TIGR02315        26 NPGEFVAIIGPSGAGKSTLLRCINRLVE   53 (243)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCcC
Confidence            7999999999999999999998875443

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.

>PF13479 AAA_24: AAA domain

Probab=98.89  E-value=2.9e-08  Score=80.47  Aligned_cols=147  Identities=15%  Similarity=0.182  Sum_probs=80.4

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAA   98 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~   98 (233)
                      +-.++||||||+|||+++..+         .+.+|+++|....... .+.           ......+.+.+.+.+.+..
T Consensus         3 ~~~~lIyG~~G~GKTt~a~~~---------~k~l~id~E~g~~~~~-~~~-----------~~~~i~i~s~~~~~~~~~~   61 (213)
T PF13479_consen    3 PIKILIYGPPGSGKTTLAASL---------PKPLFIDTENGSDSLK-FLD-----------DGDVIPITSWEDFLEALDE   61 (213)
T ss_pred             ceEEEEECCCCCCHHHHHHhC---------CCeEEEEeCCCccchh-hhc-----------CCCeeCcCCHHHHHHHHHH
Confidence            456899999999999999844         5789999885211111 110           0000112246666666655


Q ss_pred             hcccCCCCcEEEEeCCCcccccc---cc------ccccCCcchhhHHHHHHHHHHHHHHHH-hhhcCCcEEEEeecCCC-
Q 041690           99 FHQHDKIPTAVVVDDFGDLFDDR---TC------QERYTNPRGRDLAMVRTLALCYNAITH-ANKKSPCKLLLSDTHLG-  167 (233)
Q Consensus        99 ~~~~~~~p~iIvIDei~~~~~~~---~~------~~~~~~~~~~~~~~~~~l~~l~~~~~~-l~~~~~~vlvi~~~~~~-  167 (233)
                      +.......+.||||+++.+...-   ..      ..+.+... ....+...-..+.+++.. ++..+..||++++.... 
T Consensus        62 l~~~~~~y~tiVIDsis~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~yg~~~~~~~~~i~~l~~~~~~~VI~tah~~~~~  140 (213)
T PF13479_consen   62 LEEDEADYDTIVIDSISWLEDMCLEYICRQNKKKIKRSGDPD-YGKGYGELQQEFMRFIDKLLNALGKNVIFTAHAKEEE  140 (213)
T ss_pred             HHhccCCCCEEEEECHHHHHHHHHHHHhhhhcccccccCCCc-ccchHHHHHHHHHHHHHHHHHHCCCcEEEEEEEEEEE
Confidence            43334458999999998874421   11      01111111 011121111224444544 33478889888875311 


Q ss_pred             -------------CCchhHHHHHHhhccceEEE
Q 041690          168 -------------NSTRLLYIYKRWISSIFTVK  187 (233)
Q Consensus       168 -------------~~~~~~~~~~~~~~~~~~i~  187 (233)
                                   ........+..++|.+.++.
T Consensus       141 ~~~~~~~~~~~~~l~~k~~~~l~~~~D~V~~l~  173 (213)
T PF13479_consen  141 DEDGGKYTRYKPKLGKKVRNELPGWFDVVGRLR  173 (213)
T ss_pred             cCCCCceeEEeeccChhHHhhhhecccEEEEEE
Confidence                         12234456788999996665

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=98.89  E-value=2e-08  Score=83.72  Aligned_cols=29  Identities=31%  Similarity=0.444  Sum_probs=25.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   52 (255)
T PRK11248         24 LESGELLVVLGPSGCGKTTLLNLIAGFVP   52 (255)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998876543

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=98.89  E-value=2.4e-08  Score=80.73  Aligned_cols=29  Identities=31%  Similarity=0.288  Sum_probs=25.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|+|||||++.++....
T Consensus        21 i~~Ge~~~l~G~nGsGKSTLl~~l~gl~~   49 (211)
T cd03298          21 FAQGEITAIVGPSGSGKSTLLNLIAGFET   49 (211)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998876543

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>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=98.89  E-value=2e-08  Score=78.95  Aligned_cols=25  Identities=16%  Similarity=0.302  Sum_probs=22.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a   40 (233)
                      ..+|..+.|.||+|||||||++.++
T Consensus        18 i~~G~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          18 IPLNVLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHh
Confidence            3699999999999999999999764

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.

>PRK09183 transposase/IS protein; Provisional

Probab=98.88  E-value=7.7e-08  Score=80.31  Aligned_cols=39  Identities=26%  Similarity=0.430  Sum_probs=34.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+++..++|+||||||||+|+..++...+ ..|.+|.|++
T Consensus        99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~-~~G~~v~~~~  137 (259)
T PRK09183         99 IERNENIVLLGPSGVGKTHLAIALGYEAV-RAGIKVRFTT  137 (259)
T ss_pred             hhcCCeEEEEeCCCCCHHHHHHHHHHHHH-HcCCeEEEEe
Confidence            46788999999999999999999987766 6788999986

>PRK10908 cell division protein FtsE; Provisional

Probab=98.88  E-value=1.6e-08  Score=82.44  Aligned_cols=28  Identities=21%  Similarity=0.245  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   53 (222)
T PRK10908         26 RPGEMAFLTGHSGAGKSTLLKLICGIER   53 (222)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998875543

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=98.88  E-value=9.1e-09  Score=87.81  Aligned_cols=29  Identities=17%  Similarity=0.154  Sum_probs=25.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|..+.|.||+|||||||++.++....
T Consensus        16 i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~~   44 (302)
T TIGR01188        16 VREGEVFGFLGPNGAGKTTTIRMLTTLLR   44 (302)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998876544

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=98.88  E-value=1.2e-08  Score=82.57  Aligned_cols=40  Identities=15%  Similarity=0.119  Sum_probs=30.2

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+|.++.|.||+|||||||++.+........|  -++++++
T Consensus        31 V~~Gei~~iiGgSGsGKStlLr~I~Gll~P~~G--eI~i~G~   70 (263)
T COG1127          31 VPRGEILAILGGSGSGKSTLLRLILGLLRPDKG--EILIDGE   70 (263)
T ss_pred             ecCCcEEEEECCCCcCHHHHHHHHhccCCCCCC--eEEEcCc
Confidence            379999999999999999999988776653322  3444443

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=98.88  E-value=1.3e-08  Score=86.95  Aligned_cols=29  Identities=17%  Similarity=0.083  Sum_probs=25.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|+|||||++.++....
T Consensus        27 i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~~   55 (303)
T TIGR01288        27 IARGECFGLLGPNGAGKSTIARMLLGMIS   55 (303)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998876543

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=98.88  E-value=1.8e-08  Score=84.07  Aligned_cols=28  Identities=25%  Similarity=0.312  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        36 ~~Ge~~~I~G~NGsGKSTLlk~l~Gl~~   63 (257)
T PRK11247         36 PAGQFVAVVGRSGCGKSTLLRLLAGLET   63 (257)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            6999999999999999999998876544

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.87  E-value=3.2e-08  Score=79.52  Aligned_cols=144  Identities=12%  Similarity=0.124  Sum_probs=74.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhh--cCCCeEEEEecCCc------ccccccccccccC--CchhhhcceEE---
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCAS--QSNANVVFMCNRSR------LQSKRPYLSQSID--PSSHVFKLIQM---   83 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~--~~g~~v~yi~~e~~------l~~~~~~~~~~~~--~~~~~~~~i~~---   83 (233)
                      .+|..+.|.||+|||||||++.++.....  ...+. ++++....      ......+..+...  ....+.+++..   
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~~~~G~-i~i~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~l~~~~~  109 (202)
T cd03233          31 KPGEMVLVLGRPGSGCSTLLKALANRTEGNVSVEGD-IHYNGIPYKEFAEKYPGEIIYVSEEDVHFPTLTVRETLDFALR  109 (202)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHhcccCCCCCCcceE-EEECCEECccchhhhcceEEEEecccccCCCCcHHHHHhhhhh
Confidence            79999999999999999999988765431  11222 23332210      0000111111100  11112222211   


Q ss_pred             -------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-C
Q 041690           84 -------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-S  155 (233)
Q Consensus        84 -------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~  155 (233)
                             ..++..+..+-.+..+-.  ..|+++++||+++-++.             ..+..     +++.+..+.+. +
T Consensus       110 ~~~~~~~~~LS~Ge~qrl~laral~--~~p~llllDEPt~~LD~-------------~~~~~-----~~~~l~~~~~~~~  169 (202)
T cd03233         110 CKGNEFVRGISGGERKRVSIAEALV--SRASVLCWDNSTRGLDS-------------STALE-----ILKCIRTMADVLK  169 (202)
T ss_pred             hccccchhhCCHHHHHHHHHHHHHh--hCCCEEEEcCCCccCCH-------------HHHHH-----HHHHHHHHHHhCC
Confidence                   122334443333443332  23999999999999984             11112     55666666554 3


Q ss_pred             CcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          156 PCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       156 ~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .+++++++. ..+      .+.++.+.++.+..
T Consensus       170 ~t~ii~~~h-~~~------~~~~~~d~i~~l~~  195 (202)
T cd03233         170 TTTFVSLYQ-ASD------EIYDLFDKVLVLYE  195 (202)
T ss_pred             CEEEEEEcC-CHH------HHHHhCCeEEEEEC
Confidence            444444332 211      45667888888875

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=98.87  E-value=3.1e-08  Score=79.53  Aligned_cols=143  Identities=11%  Similarity=0.097  Sum_probs=76.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh-hhcCCCeEEEEecCCc--ccc------cccccccccC--CchhhhcceEE--
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC-ASQSNANVVFMCNRSR--LQS------KRPYLSQSID--PSSHVFKLIQM--   83 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~-~~~~g~~v~yi~~e~~--l~~------~~~~~~~~~~--~~~~~~~~i~~--   83 (233)
                      .+|..+.|.||+|+|||||++.++... .....+.+ +++.+..  ...      ...++.+...  ....+.+.+..  
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~p~~G~i-~~~g~~~~~~~~~~~~~~~i~~v~q~~~~~~~~~~~~~l~~~~  102 (200)
T cd03217          24 KKGEVHALMGPNGSGKSTLAKTIMGHPKYEVTEGEI-LFKGEDITDLPPEERARLGIFLAFQYPPEIPGVKNADFLRYVN  102 (200)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCcCCCCccEE-EECCEECCcCCHHHHhhCcEEEeecChhhccCccHHHHHhhcc
Confidence            799999999999999999999887652 11222333 3333210  000      0001111100  00011111110  


Q ss_pred             EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEee
Q 041690           84 KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSD  163 (233)
Q Consensus        84 ~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~  163 (233)
                      ..++..+..+-.+..+-  -..|+++++||+++-++..             ...     .+++.+..+++++.+++++++
T Consensus       103 ~~LS~G~~qrv~laral--~~~p~illlDEPt~~LD~~-------------~~~-----~l~~~L~~~~~~~~tiii~sh  162 (200)
T cd03217         103 EGFSGGEKKRNEILQLL--LLEPDLAILDEPDSGLDID-------------ALR-----LVAEVINKLREEGKSVLIITH  162 (200)
T ss_pred             ccCCHHHHHHHHHHHHH--hcCCCEEEEeCCCccCCHH-------------HHH-----HHHHHHHHHHHCCCEEEEEec
Confidence            12333444444444333  2239999999999999831             111     155666666555666777655


Q ss_pred             cCCCCCchhHHHHHH-hhccceEEEe
Q 041690          164 THLGNSTRLLYIYKR-WISSIFTVKG  188 (233)
Q Consensus       164 ~~~~~~~~~~~~~~~-~~~~~~~i~~  188 (233)
                      ..       . ...+ +.+.++.+..
T Consensus       163 ~~-------~-~~~~~~~d~i~~l~~  180 (200)
T cd03217         163 YQ-------R-LLDYIKPDRVHVLYD  180 (200)
T ss_pred             CH-------H-HHHHhhCCEEEEEEC
Confidence            32       1 4556 6898888874

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.87  E-value=5.5e-09  Score=92.71  Aligned_cols=139  Identities=23%  Similarity=0.211  Sum_probs=89.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      -+-..+|+.||||+|||+||.++|.    ..+.+++-+..       ++-+ .++.++.            ....+++.|
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~----~S~FPFvKiiS-------pe~m-iG~sEsa------------Kc~~i~k~F  591 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIAL----SSDFPFVKIIS-------PEDM-IGLSESA------------KCAHIKKIF  591 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHh----hcCCCeEEEeC-------hHHc-cCccHHH------------HHHHHHHHH
Confidence            3556889999999999999997766    66777777641       1111 1111111            155788889


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      +.+.  ++.-++||||+++.+++...-++|.       ...+  |..++-+++....+|...+++++++.....+.+ -+
T Consensus       592 ~DAY--kS~lsiivvDdiErLiD~vpIGPRf-------SN~v--lQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m-~i  659 (744)
T KOG0741|consen  592 EDAY--KSPLSIIVVDDIERLLDYVPIGPRF-------SNLV--LQALLVLLKKQPPKGRKLLIFGTTSRREVLQEM-GI  659 (744)
T ss_pred             HHhh--cCcceEEEEcchhhhhcccccCchh-------hHHH--HHHHHHHhccCCCCCceEEEEecccHHHHHHHc-CH
Confidence            8776  4447999999999999975444443       3322  222444555555668888999988866544433 23


Q ss_pred             HHhhccceEEEecCC
Q 041690          177 KRWISSIFTVKGDGP  191 (233)
Q Consensus       177 ~~~~~~~~~i~~~~~  191 (233)
                      -..|+..++++....
T Consensus       660 ~~~F~~~i~Vpnl~~  674 (744)
T KOG0741|consen  660 LDCFSSTIHVPNLTT  674 (744)
T ss_pred             HHhhhheeecCccCc
Confidence            345677888886433

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=98.87  E-value=1.5e-08  Score=83.57  Aligned_cols=28  Identities=29%  Similarity=0.284  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   53 (242)
T PRK11124         26 PQGETLVLLGPSGAGKSSLLRVLNLLEM   53 (242)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=98.86  E-value=1.5e-08  Score=87.85  Aligned_cols=28  Identities=18%  Similarity=0.116  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        29 ~~Gei~gIiG~sGaGKSTLlr~I~gl~~   56 (343)
T TIGR02314        29 PAGQIYGVIGASGAGKSTLIRCVNLLER   56 (343)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876544

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>PRK13651 cobalt transporter ATP-binding subunit; Provisional

Probab=98.86  E-value=2.2e-08  Score=85.56  Aligned_cols=57  Identities=16%  Similarity=0.173  Sum_probs=40.3

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             .+..     +++.+..+++.+.+++++++..        ..+.++.++++.
T Consensus       184 P~lLlLDEPt~~LD~~-------------~~~~-----l~~~l~~l~~~g~tiiivtHd~--------~~~~~~adrv~v  237 (305)
T PRK13651        184 PDFLVFDEPTAGLDPQ-------------GVKE-----ILEIFDNLNKQGKTIILVTHDL--------DNVLEWTKRTIF  237 (305)
T ss_pred             CCEEEEeCCCCCCCHH-------------HHHH-----HHHHHHHHHHCCCEEEEEeeCH--------HHHHHhCCEEEE
Confidence            9999999999999841             1111     5666666666677887776642        145678899988


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       238 l~~  240 (305)
T PRK13651        238 FKD  240 (305)
T ss_pred             EEC
Confidence            864

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.86  E-value=1.7e-08  Score=83.98  Aligned_cols=28  Identities=25%  Similarity=0.260  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        29 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   56 (255)
T PRK11300         29 REQEIVSLIGPNGAGKTTVFNCLTGFYK   56 (255)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHhCCcC
Confidence            6999999999999999999998876543

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=98.86  E-value=2.4e-08  Score=81.02  Aligned_cols=139  Identities=16%  Similarity=0.111  Sum_probs=80.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEE-------------
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQM-------------   83 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~-------------   83 (233)
                      .+|..+-|.|++|+|||||++.++.......| + +.+..+-   ...--+..++++.-.-.+|+.+             
T Consensus        51 ~~Ge~vGiiG~NGaGKSTLlkliaGi~~Pt~G-~-v~v~G~v---~~li~lg~Gf~pelTGreNi~l~~~~~G~~~~ei~  125 (249)
T COG1134          51 YKGERVGIIGHNGAGKSTLLKLIAGIYKPTSG-K-VKVTGKV---APLIELGAGFDPELTGRENIYLRGLILGLTRKEID  125 (249)
T ss_pred             eCCCEEEEECCCCCcHHHHHHHHhCccCCCCc-e-EEEcceE---ehhhhcccCCCcccchHHHHHHHHHHhCccHHHHH
Confidence            69999999999999999999988765553222 2 2222110   0000011111111111111111             


Q ss_pred             --------------------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHH
Q 041690           84 --------------------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLAL  143 (233)
Q Consensus        84 --------------------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  143 (233)
                                          +..++.-..+-.|..+.  ...|++++|||+-+.-+..+               +   ..
T Consensus       126 ~~~~eIieFaELG~fi~~PvktYSSGM~aRLaFsia~--~~~pdILllDEvlavGD~~F---------------~---~K  185 (249)
T COG1134         126 EKVDEIIEFAELGDFIDQPVKTYSSGMYARLAFSVAT--HVEPDILLLDEVLAVGDAAF---------------Q---EK  185 (249)
T ss_pred             HHHHHHHHHHHHHHHhhCchhhccHHHHHHHHHhhhh--hcCCCEEEEehhhhcCCHHH---------------H---HH
Confidence                                22333444555555443  22399999999988887421               1   11


Q ss_pred             HHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          144 CYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       144 l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      ..+.+..+.+++.+++++++...        ....|++.+++++.
T Consensus       186 ~~~rl~e~~~~~~tiv~VSHd~~--------~I~~~Cd~~i~l~~  222 (249)
T COG1134         186 CLERLNELVEKNKTIVLVSHDLG--------AIKQYCDRAIWLEH  222 (249)
T ss_pred             HHHHHHHHHHcCCEEEEEECCHH--------HHHHhcCeeEEEeC
Confidence            44555555567788888877532        78999999999986

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.86  E-value=1.9e-08  Score=84.68  Aligned_cols=57  Identities=12%  Similarity=0.258  Sum_probs=39.8

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             .+..     +++.+..+++++.+++++++...        ...+|.+.++.
T Consensus       157 p~llllDEPt~~LD~~-------------~~~~-----l~~~l~~~~~~g~tili~tH~~~--------~~~~~~d~i~~  210 (274)
T PRK13647        157 PDVIVLDEPMAYLDPR-------------GQET-----LMEILDRLHNQGKTVIVATHDVD--------LAAEWADQVIV  210 (274)
T ss_pred             CCEEEEECCCcCCCHH-------------HHHH-----HHHHHHHHHHCCCEEEEEeCCHH--------HHHHhCCEEEE
Confidence            9999999999999841             1112     56666666556777777755321        56678899888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       211 l~~  213 (274)
T PRK13647        211 LKE  213 (274)
T ss_pred             EEC
Confidence            864

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=98.86  E-value=1.9e-08  Score=83.33  Aligned_cols=27  Identities=26%  Similarity=0.309  Sum_probs=24.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        27 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~   53 (250)
T PRK11264         27 KPGEVVAIIGPSGSGKTTLLRCINLLE   53 (250)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            699999999999999999999887544

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=98.86  E-value=1.3e-08  Score=87.82  Aligned_cols=70  Identities=19%  Similarity=0.196  Sum_probs=48.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      .-..+++||||||||||||+.++.    ..+..+..++.-                            ....+.++++++
T Consensus        47 ~l~SmIl~GPPG~GKTTlA~liA~----~~~~~f~~~sAv----------------------------~~gvkdlr~i~e   94 (436)
T COG2256          47 HLHSMILWGPPGTGKTTLARLIAG----TTNAAFEALSAV----------------------------TSGVKDLREIIE   94 (436)
T ss_pred             CCceeEEECCCCCCHHHHHHHHHH----hhCCceEEeccc----------------------------cccHHHHHHHHH
Confidence            456789999999999999997776    334555555411                            111567777777


Q ss_pred             Hhccc--CCCCcEEEEeCCCcccc
Q 041690           98 AFHQH--DKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        98 ~~~~~--~~~p~iIvIDei~~~~~  119 (233)
                      .+...  ..+-.++|||||..|-.
T Consensus        95 ~a~~~~~~gr~tiLflDEIHRfnK  118 (436)
T COG2256          95 EARKNRLLGRRTILFLDEIHRFNK  118 (436)
T ss_pred             HHHHHHhcCCceEEEEehhhhcCh
Confidence            66332  12246999999998877

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=98.86  E-value=1e-08  Score=80.22  Aligned_cols=125  Identities=13%  Similarity=0.151  Sum_probs=68.0

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccc-cccccccccCCchhhhcceEEEEecCHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQS-KRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAA   98 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~-~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~   98 (233)
                      ..++|.||||||||++|.+++..    .+.+++|+.+-..+.. ...++........     -.+..++....+.+++..
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~----~~~~~~~iat~~~~~~e~~~ri~~h~~~R~-----~~w~t~E~~~~l~~~i~~   72 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQ----SGLQVLYIATAQPFDDEMAARIAHHRQRRP-----AHWQTVEEPLDLAELLRA   72 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHH----cCCCcEeCcCCCCChHHHHHHHHHHHhcCC-----CCCeEecccccHHHHHHh
Confidence            46899999999999999988763    3567899986531111 0011100000000     001122223345555443


Q ss_pred             hcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCC
Q 041690           99 FHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHL  166 (233)
Q Consensus        99 ~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~  166 (233)
                      .   ...+.+|+||+++.+......     .....  .+.   ..+..++..+++.+.++++|++...
T Consensus        73 ~---~~~~~~VlID~Lt~~~~n~l~-----~~~~~--~~~---~~l~~li~~L~~~~~tvVlVs~Evg  127 (170)
T PRK05800         73 D---AAPGRCVLVDCLTTWVTNLLF-----EEGEE--AIA---AEIDALLAALQQLPAKIILVTNEVG  127 (170)
T ss_pred             h---cCCCCEEEehhHHHHHHHHhc-----ccchH--HHH---HHHHHHHHHHHcCCCCEEEEEcCCc
Confidence            1   122679999999999874211     00001  111   1245566667777888888877653

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=98.86  E-value=2e-08  Score=84.37  Aligned_cols=28  Identities=21%  Similarity=0.194  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        48 ~~Ge~~~l~G~nGsGKSTLl~~L~Gl~~   75 (269)
T cd03294          48 REGEIFVIMGLSGSGKSTLLRCINRLIE   75 (269)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876544

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=98.85  E-value=2.1e-08  Score=83.53  Aligned_cols=57  Identities=9%  Similarity=0.141  Sum_probs=40.1

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             ...     .+++.+..+++.+.+++++++...        .+..+.+.++.
T Consensus       171 p~llllDEPt~~LD~~-------------~~~-----~l~~~l~~l~~~g~tiiivsH~~~--------~~~~~~d~i~~  224 (257)
T PRK10619        171 PEVLLFDEPTSALDPE-------------LVG-----EVLRIMQQLAEEGKTMVVVTHEMG--------FARHVSSHVIF  224 (257)
T ss_pred             CCEEEEeCCcccCCHH-------------HHH-----HHHHHHHHHHhcCCEEEEEeCCHH--------HHHHhcCEEEE
Confidence            9999999999999841             111     266666666666777777766321        56677888888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       225 l~~  227 (257)
T PRK10619        225 LHQ  227 (257)
T ss_pred             EEC
Confidence            874

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=98.85  E-value=1.6e-08  Score=87.78  Aligned_cols=28  Identities=18%  Similarity=0.120  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        29 ~~Gei~~iiG~nGsGKSTLlk~L~Gl~~   56 (343)
T PRK11153         29 PAGEIFGVIGASGAGKSTLIRCINLLER   56 (343)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=98.85  E-value=2e-08  Score=82.48  Aligned_cols=28  Identities=36%  Similarity=0.390  Sum_probs=25.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|+|||||++.++....
T Consensus        24 ~~Ge~~~i~G~nGsGKSTLl~~l~g~~~   51 (232)
T cd03300          24 KEGEFFTLLGPSGCGKTTLLRLIAGFET   51 (232)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            6999999999999999999998876554

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=98.85  E-value=2.7e-08  Score=82.00  Aligned_cols=28  Identities=21%  Similarity=0.298  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        25 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   52 (240)
T PRK09493         25 DQGEVVVIIGPSGSGKSTLLRCINKLEE   52 (240)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998886543

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=98.85  E-value=2.1e-08  Score=81.92  Aligned_cols=28  Identities=25%  Similarity=0.097  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        46 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   73 (224)
T cd03220          46 PRGERIGLIGRNGAGKSTLLRLLAGIYP   73 (224)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.84  E-value=7.6e-08  Score=82.86  Aligned_cols=38  Identities=21%  Similarity=0.168  Sum_probs=33.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+..++|+||||+|||+|+..+|..+. ..|.+|+|++.
T Consensus       182 ~~~~Lll~G~~GtGKThLa~aIa~~l~-~~g~~V~y~t~  219 (329)
T PRK06835        182 NNENLLFYGNTGTGKTFLSNCIAKELL-DRGKSVIYRTA  219 (329)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH-HCCCeEEEEEH
Confidence            457899999999999999999999888 67899999973

>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.84  E-value=3.2e-08  Score=82.82  Aligned_cols=143  Identities=16%  Similarity=0.220  Sum_probs=81.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC--cc-----cccc---cccccccC--CchhhhcceEE
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS--RL-----QSKR---PYLSQSID--PSSHVFKLIQM   83 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~--~l-----~~~~---~~~~~~~~--~~~~~~~~i~~   83 (233)
                      .++|.++-|.|.+|+|||||.+.+  +...+....-+++++.+  .+     ...+   ..+.|.+.  .+..+.+|+.+
T Consensus        29 I~~GeI~GIIG~SGAGKSTLiR~i--N~Le~PtsG~v~v~G~di~~l~~~~Lr~~R~~IGMIFQhFnLLssrTV~~NvA~  106 (339)
T COG1135          29 IPKGEIFGIIGYSGAGKSTLLRLI--NLLERPTSGSVFVDGQDLTALSEAELRQLRQKIGMIFQHFNLLSSRTVFENVAF  106 (339)
T ss_pred             EcCCcEEEEEcCCCCcHHHHHHHH--hccCCCCCceEEEcCEecccCChHHHHHHHhhccEEeccccccccchHHhhhhh
Confidence            379999999999999999999955  33323333445555431  01     1111   11222222  22344444443


Q ss_pred             ---------------------------------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCc
Q 041690           84 ---------------------------------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNP  130 (233)
Q Consensus        84 ---------------------------------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~  130 (233)
                                                       ..++.++..+-.++.+-  ...|++++.||.++.++..         
T Consensus       107 PLeiag~~k~ei~~RV~elLelVgL~dk~~~yP~qLSGGQKQRVaIARAL--a~~P~iLL~DEaTSALDP~---------  175 (339)
T COG1135         107 PLELAGVPKAEIKQRVAELLELVGLSDKADRYPAQLSGGQKQRVAIARAL--ANNPKILLCDEATSALDPE---------  175 (339)
T ss_pred             hHhhcCCCHHHHHHHHHHHHHHcCChhhhccCchhcCcchhhHHHHHHHH--hcCCCEEEecCccccCChH---------
Confidence                                             01112222333333222  3349999999999999842         


Q ss_pred             chhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          131 RGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       131 ~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                          ..     ..++++++.++++ |.++++|++.        |.+.++.++++..++.
T Consensus       176 ----TT-----~sIL~LL~~In~~lglTIvlITHE--------m~Vvk~ic~rVavm~~  217 (339)
T COG1135         176 ----TT-----QSILELLKDINRELGLTIVLITHE--------MEVVKRICDRVAVLDQ  217 (339)
T ss_pred             ----HH-----HHHHHHHHHHHHHcCCEEEEEech--------HHHHHHHhhhheEeeC
Confidence                11     1155666666544 8888888775        2377778888777774

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=98.84  E-value=3e-08  Score=86.47  Aligned_cols=29  Identities=31%  Similarity=0.389  Sum_probs=25.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus        27 i~~Ge~~~llG~sGsGKSTLLr~iaGl~~   55 (356)
T PRK11650         27 VADGEFIVLVGPSGCGKSTLLRMVAGLER   55 (356)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHCCCC
Confidence            36999999999999999999998876544

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.84  E-value=1.5e-08  Score=79.89  Aligned_cols=40  Identities=28%  Similarity=0.415  Sum_probs=32.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +.+..++|+||||+|||+||..++.++. ..|.+|.|++..
T Consensus        45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~-~~g~~v~f~~~~   84 (178)
T PF01695_consen   45 ENGENLILYGPPGTGKTHLAVAIANEAI-RKGYSVLFITAS   84 (178)
T ss_dssp             SC--EEEEEESTTSSHHHHHHHHHHHHH-HTT--EEEEEHH
T ss_pred             ccCeEEEEEhhHhHHHHHHHHHHHHHhc-cCCcceeEeecC
Confidence            5788999999999999999999999888 689999999744

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=98.84  E-value=2.6e-08  Score=81.70  Aligned_cols=29  Identities=24%  Similarity=0.302  Sum_probs=25.2

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|+|||||++.++....
T Consensus         8 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   36 (230)
T TIGR01184         8 IQQGEFISLIGHSGCGKSTLLNLISGLAQ   36 (230)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            35899999999999999999998876544

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=98.84  E-value=3.7e-08  Score=79.06  Aligned_cols=27  Identities=22%  Similarity=0.330  Sum_probs=24.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..|+.++|.||+|||||||+++++...
T Consensus        23 ~~g~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          23 EKKNGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            467899999999999999999998655

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=98.84  E-value=2.6e-08  Score=81.30  Aligned_cols=28  Identities=29%  Similarity=0.234  Sum_probs=24.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus         4 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   31 (223)
T TIGR03771         4 DKGELLGLLGPNGAGKTTLLRAILGLIP   31 (223)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            5899999999999999999998876543

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.83  E-value=2.8e-08  Score=82.00  Aligned_cols=35  Identities=20%  Similarity=0.291  Sum_probs=31.9

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..++|+|+||||||+|+..++..+. ..|.+|+|++
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~-~~g~~v~~it  134 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELL-LRGKSVLIIT  134 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEE
Confidence            5799999999999999999999887 6789999996

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=98.83  E-value=2.1e-08  Score=81.58  Aligned_cols=29  Identities=28%  Similarity=0.177  Sum_probs=25.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   51 (222)
T cd03224          23 VPEGEIVALLGRNGAGKTTLLKTIMGLLP   51 (222)
T ss_pred             EcCCeEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998775443

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.

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=98.83  E-value=1.9e-08  Score=85.39  Aligned_cols=29  Identities=34%  Similarity=0.248  Sum_probs=25.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|.++.|.||+|+|||||.+.++....
T Consensus        28 i~~Gei~gllG~NGAGKTTllk~l~gl~~   56 (293)
T COG1131          28 VEPGEIFGLLGPNGAGKTTLLKILAGLLK   56 (293)
T ss_pred             EcCCeEEEEECCCCCCHHHHHHHHhCCcC
Confidence            37999999999999999999998876554

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=98.83  E-value=1.9e-08  Score=87.13  Aligned_cols=28  Identities=18%  Similarity=0.100  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|+|||||++.++....
T Consensus        65 ~~Gei~gLlGpNGaGKSTLl~~L~Gl~~   92 (340)
T PRK13536         65 ASGECFGLLGPNGAGKSTIARMILGMTS   92 (340)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCCC
Confidence            6999999999999999999998876544

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=98.83  E-value=2.1e-08  Score=81.52  Aligned_cols=28  Identities=21%  Similarity=0.213  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        29 ~~G~~~~i~G~nGsGKSTLl~~i~G~~~   56 (221)
T TIGR02211        29 GKGEIVAIVGSSGSGKSTLLHLLGGLDN   56 (221)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

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.

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.83  E-value=2.1e-08  Score=84.30  Aligned_cols=28  Identities=29%  Similarity=0.530  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   52 (271)
T PRK13638         25 SLSPVTGLVGANGCGKSTLFMNLSGLLR   52 (271)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCCCC
Confidence            7999999999999999999998875443

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=98.83  E-value=3.4e-08  Score=86.08  Aligned_cols=28  Identities=29%  Similarity=0.242  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        22 ~~Ge~~~l~G~nGsGKSTLl~~iaGl~~   49 (352)
T PRK11144         22 PAQGITAIFGRSGAGKTSLINAISGLTR   49 (352)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=98.83  E-value=2.7e-08  Score=87.15  Aligned_cols=28  Identities=32%  Similarity=0.492  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        27 ~~Ge~~~l~G~nGsGKSTLL~~iaGl~~   54 (369)
T PRK11000         27 HEGEFVVFVGPSGCGKSTLLRMIAGLED   54 (369)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

>PRK08116 hypothetical protein; Validated

Probab=98.83  E-value=2.9e-08  Score=83.29  Aligned_cols=37  Identities=27%  Similarity=0.217  Sum_probs=32.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+..++|+|+||+|||+|+.+++..+. ..+.+++|++
T Consensus       113 ~~~gl~l~G~~GtGKThLa~aia~~l~-~~~~~v~~~~  149 (268)
T PRK08116        113 ENVGLLLWGSVGTGKTYLAACIANELI-EKGVPVIFVN  149 (268)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEE
Confidence            455799999999999999999998887 5588999996

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=98.82  E-value=4.9e-08  Score=86.27  Aligned_cols=28  Identities=29%  Similarity=0.324  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|+|||||++.++....
T Consensus        27 ~~Geiv~liGpNGaGKSTLLk~LaGll~   54 (402)
T PRK09536         27 REGSLVGLVGPNGAGKTTLLRAINGTLT   54 (402)
T ss_pred             CCCCEEEEECCCCchHHHHHHHHhcCCC
Confidence            7999999999999999999998876544

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=98.82  E-value=3.4e-08  Score=82.73  Aligned_cols=28  Identities=29%  Similarity=0.438  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   58 (265)
T PRK10253         31 PDGHFTAIIGPNGCGKSTLLRTLSRLMT   58 (265)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHcCCCC
Confidence            6999999999999999999998876543

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.82  E-value=3e-08  Score=81.82  Aligned_cols=28  Identities=21%  Similarity=0.268  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        27 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   54 (241)
T PRK14250         27 EGGAIYTIVGPSGAGKSTLIKLINRLID   54 (241)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=98.82  E-value=3.7e-08  Score=82.02  Aligned_cols=28  Identities=32%  Similarity=0.309  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   52 (256)
T TIGR03873        25 PPGSLTGLLGPNGSGKSTLLRLLAGALR   52 (256)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHcCCCC
Confidence            6999999999999999999998876543

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=98.82  E-value=4.3e-08  Score=82.09  Aligned_cols=28  Identities=25%  Similarity=0.250  Sum_probs=24.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        35 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   62 (265)
T PRK10575         35 PAGKVTGLIGHNGSGKSTLLKMLGRHQP   62 (265)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCCCC
Confidence            6999999999999999999998876543

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=98.82  E-value=3.2e-08  Score=86.39  Aligned_cols=28  Identities=32%  Similarity=0.392  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        29 ~~Ge~~~llGpsGsGKSTLLr~iaGl~~   56 (362)
T TIGR03258        29 EAGELLALIGKSGCGKTTLLRAIAGFVK   56 (362)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6899999999999999999998876443

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=98.81  E-value=3e-08  Score=80.81  Aligned_cols=28  Identities=32%  Similarity=0.421  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        32 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~~   59 (224)
T TIGR02324        32 NAGECVALSGPSGAGKSTLLKSLYANYL   59 (224)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876544

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.81  E-value=5e-08  Score=82.73  Aligned_cols=28  Identities=25%  Similarity=0.220  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        30 ~~Ge~v~i~G~nGsGKSTLl~~l~Gl~~   57 (288)
T PRK13643         30 KKGSYTALIGHTGSGKSTLLQHLNGLLQ   57 (288)
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            7999999999999999999998876544

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

Probab=98.81  E-value=2.9e-08  Score=85.11  Aligned_cols=29  Identities=31%  Similarity=0.407  Sum_probs=24.9

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+.|..+.|.||+|||||||++.+|--..
T Consensus        26 i~~Gef~vllGPSGcGKSTlLr~IAGLe~   54 (338)
T COG3839          26 IEDGEFVVLLGPSGCGKSTLLRMIAGLEE   54 (338)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998875433

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.81  E-value=4.4e-08  Score=89.67  Aligned_cols=143  Identities=19%  Similarity=0.205  Sum_probs=80.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+...++|+||+|||||+|++.++.......-..+.|++.+. +....  +           +++       ...+...|
T Consensus       429 ~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~-l~~~~--~-----------e~i-------Qk~l~~vf  487 (952)
T KOG0735|consen  429 FRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCST-LDGSS--L-----------EKI-------QKFLNNVF  487 (952)
T ss_pred             cccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechh-ccchh--H-----------HHH-------HHHHHHHH
Confidence            466789999999999999999999877744455677776432 10100  0           000       33455555


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHH-HHHHHHHHhhhcCCcEEEEeecCCCCCchhHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLA-LCYNAITHANKKSPCKLLLSDTHLGNSTRLLYI  175 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~  175 (233)
                      ..+.  ...|++|++|+++.++....      ...++.......+. .+.+.+....+.+..+.+|+....-........
T Consensus       488 se~~--~~~PSiIvLDdld~l~~~s~------~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~  559 (952)
T KOG0735|consen  488 SEAL--WYAPSIIVLDDLDCLASASS------NENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLV  559 (952)
T ss_pred             HHHH--hhCCcEEEEcchhhhhccCc------ccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhc
Confidence            5544  44599999999999998311      11111111222222 233555544455666566655432211111224


Q ss_pred             HHHhhccceEEEe
Q 041690          176 YKRWISSIFTVKG  188 (233)
Q Consensus       176 ~~~~~~~~~~i~~  188 (233)
                      ..++|..+++++.
T Consensus       560 s~~~Fq~~~~L~a  572 (952)
T KOG0735|consen  560 SPLLFQIVIALPA  572 (952)
T ss_pred             CccceEEEEecCC
Confidence            4556777777765

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=98.80  E-value=2.5e-08  Score=79.32  Aligned_cols=29  Identities=21%  Similarity=0.257  Sum_probs=25.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus        15 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   43 (190)
T TIGR01166        15 AERGEVLALLGANGAGKSTLLLHLNGLLR   43 (190)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            36999999999999999999998875443

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.

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=98.80  E-value=3.5e-08  Score=81.92  Aligned_cols=28  Identities=21%  Similarity=0.224  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        24 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   51 (252)
T TIGR03005        24 AAGEKVALIGPSGSGKSTILRILMTLEP   51 (252)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876544

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.80  E-value=3.4e-08  Score=79.79  Aligned_cols=73  Identities=12%  Similarity=0.178  Sum_probs=46.7

Q ss_pred             CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCC
Q 041690           88 DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHL  166 (233)
Q Consensus        88 ~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~  166 (233)
                      ..+..+-.++.+-.++  |++|+-||+.+.++..             .+..     +|+.++.++++ |.|+++.-++- 
T Consensus       150 GGQQQRVaIARaL~Q~--pkiILADEPvasLDp~-------------~a~~-----Vm~~l~~in~~~g~Tvi~nLH~v-  208 (258)
T COG3638         150 GGQQQRVAIARALVQQ--PKIILADEPVASLDPE-------------SAKK-----VMDILKDINQEDGITVIVNLHQV-  208 (258)
T ss_pred             cchhHHHHHHHHHhcC--CCEEecCCcccccChh-------------hHHH-----HHHHHHHHHHHcCCEEEEEechH-
Confidence            3344444444433222  9999999999999842             1112     77888877665 56665554432 


Q ss_pred             CCCchhHHHHHHhhccceEEEe
Q 041690          167 GNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                       +      +..+|+++++-+..
T Consensus       209 -d------lA~~Y~~Riigl~~  223 (258)
T COG3638         209 -D------LAKKYADRIIGLKA  223 (258)
T ss_pred             -H------HHHHHHhhheEecC
Confidence             2      67888999988874

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=98.80  E-value=5.3e-08  Score=81.24  Aligned_cols=28  Identities=21%  Similarity=0.356  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   53 (258)
T PRK13548         26 RPGEVVAILGPNGAGKSTLLRALSGELS   53 (258)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876544

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=98.80  E-value=4.2e-08  Score=81.66  Aligned_cols=28  Identities=43%  Similarity=0.566  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        26 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   53 (255)
T PRK11231         26 PTGKITALIGPNGCGKSTLLKCFARLLT   53 (255)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCcC
Confidence            6999999999999999999998876543

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=98.80  E-value=4e-08  Score=85.48  Aligned_cols=28  Identities=32%  Similarity=0.399  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        30 ~~Ge~~~llGpsGsGKSTLLr~IaGl~~   57 (351)
T PRK11432         30 KQGTMVTLLGPSGCGKTTVLRLVAGLEK   57 (351)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHCCCC
Confidence            6999999999999999999998875444

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=98.80  E-value=3.5e-08  Score=81.37  Aligned_cols=28  Identities=18%  Similarity=0.312  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        26 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   53 (242)
T TIGR03411        26 DPGELRVIIGPNGAGKTTMMDVITGKTR   53 (242)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998886543

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=98.80  E-value=3e-08  Score=80.14  Aligned_cols=27  Identities=30%  Similarity=0.268  Sum_probs=23.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++| .+.|.||+|||||||++.++....
T Consensus        24 ~~g-~~~i~G~nGsGKSTLl~~l~Gl~~   50 (211)
T cd03264          24 GPG-MYGLLGPNGAGKTTLMRILATLTP   50 (211)
T ss_pred             cCC-cEEEECCCCCCHHHHHHHHhCCCC
Confidence            568 999999999999999998875443

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.

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=98.80  E-value=3.5e-08  Score=79.20  Aligned_cols=28  Identities=29%  Similarity=0.292  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        24 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   51 (201)
T cd03231          24 AAGEALQVTGPNGSGKTTLLRILAGLSP   51 (201)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876544

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.80  E-value=3.6e-08  Score=81.09  Aligned_cols=28  Identities=29%  Similarity=0.267  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   56 (237)
T PRK11614         29 NQGEIVTLIGANGAGKTTLLGTLCGDPR   56 (237)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHcCCCC
Confidence            7999999999999999999998875443

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=98.80  E-value=3.9e-08  Score=82.66  Aligned_cols=28  Identities=21%  Similarity=0.162  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        31 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   58 (272)
T PRK15056         31 PGGSIAALVGVNGSGKSTLFKALMGFVR   58 (272)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=98.79  E-value=3.9e-08  Score=85.66  Aligned_cols=28  Identities=36%  Similarity=0.400  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        28 ~~Ge~~~l~GpsGsGKSTLLr~iaGl~~   55 (353)
T TIGR03265        28 KKGEFVCLLGPSGCGKTTLLRIIAGLER   55 (353)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCC
Confidence            6899999999999999999998886544

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=98.79  E-value=4e-08  Score=86.21  Aligned_cols=28  Identities=32%  Similarity=0.379  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        38 ~~Ge~~~LlGpsGsGKSTLLr~IaGl~~   65 (375)
T PRK09452         38 NNGEFLTLLGPSGCGKTTVLRLIAGFET   65 (375)
T ss_pred             eCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            6999999999999999999998876443

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=98.79  E-value=6.5e-08  Score=78.53  Aligned_cols=130  Identities=10%  Similarity=0.060  Sum_probs=65.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      .+..++|||+||+||||+|+++    +    .+.+.++.+.    ....+......     +-+.+....+.+.+.+.+.
T Consensus        11 ~~~~~liyG~~G~GKtt~a~~~----~----~~~~~~~~d~----~~~~l~g~~~~-----~v~~~d~~~~~~~~~d~l~   73 (220)
T TIGR01618        11 IPNMYLIYGKPGTGKTSTIKYL----P----GKTLVLSFDM----SSKVLIGDENV-----DIADHDDMPPIQAMVEFYV   73 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHhc----C----CCCEEEeccc----cchhccCCCCC-----ceeecCCCCCHHHHHHHHH
Confidence            3467999999999999999955    2    2344454332    11111000000     0011111122344444444


Q ss_pred             HhcccCCCCcEEEEeCCCcccccccc--ccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeec
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTC--QERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDT  164 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~  164 (233)
                      .+......++.||||+++.+...-..  .............+...-..+.+.+..+...+..++++++.
T Consensus        74 ~~~~~~~~ydtVVIDsI~~l~~~~~~~~~r~~k~~~~~~~~yg~~~~~fl~~l~~L~~~g~nII~tAhe  142 (220)
T TIGR01618        74 MQNIQAVKYDNIVIDNISALQNLWLENIGRAAKNGQPELQHYQKLDLWFLDLLTVLKESNKNIYATAWE  142 (220)
T ss_pred             HHHhccccCCEEEEecHHHHHHHHHHHHhhhcCCCCcccccHHHHHHHHHHHHHHHHhCCCcEEEEEee
Confidence            44333444899999999997662100  00000100011111111123556677777788889888876

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=98.79  E-value=4.5e-08  Score=79.31  Aligned_cols=27  Identities=26%  Similarity=0.175  Sum_probs=23.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+ ..+.|.||+|+|||||++.++....
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G~~~   48 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAGLEK   48 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhCCCC
Confidence            57 9999999999999999998876544

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.

>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional

Probab=98.79  E-value=4.3e-08  Score=86.59  Aligned_cols=28  Identities=14%  Similarity=0.172  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        52 ~~Gei~~LvG~NGsGKSTLLr~I~Gl~~   79 (400)
T PRK10070         52 EEGEIFVIMGLSGSGKSTMVRLLNRLIE   79 (400)
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCCC
Confidence            7999999999999999999998876554

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=98.79  E-value=3.5e-08  Score=80.21  Aligned_cols=28  Identities=25%  Similarity=0.094  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   53 (220)
T cd03263          26 YKGEIFGLLGHNGAGKTTTLKMLTGELR   53 (220)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876544

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.

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=98.79  E-value=5.8e-08  Score=81.33  Aligned_cols=28  Identities=18%  Similarity=0.065  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        48 ~~Ge~~~liG~NGsGKSTLlk~L~Gl~~   75 (264)
T PRK13546         48 YEGDVIGLVGINGSGKSTLSNIIGGSLS   75 (264)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCcC
Confidence            6999999999999999999998876544

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=98.79  E-value=2.9e-08  Score=79.79  Aligned_cols=28  Identities=18%  Similarity=0.170  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        22 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   49 (206)
T TIGR03608        22 EKGKMYAIIGESGSGKSTLLNIIGLLEK   49 (206)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            6999999999999999999998886544

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.

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=98.79  E-value=3.5e-08  Score=90.10  Aligned_cols=28  Identities=25%  Similarity=0.277  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        35 ~~Ge~~~liG~NGsGKSTLl~~l~Gl~~   62 (510)
T PRK15439         35 HAGEVHALLGGNGAGKSTLMKIIAGIVP   62 (510)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998875443

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.79  E-value=3.5e-08  Score=83.60  Aligned_cols=28  Identities=14%  Similarity=0.148  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~L~Gl~~   58 (286)
T PRK13646         31 EQGKYYAIVGQTGSGKSTLIQNINALLK   58 (286)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            6999999999999999999998876544

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=98.79  E-value=5.2e-08  Score=80.25  Aligned_cols=28  Identities=29%  Similarity=0.293  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~~   51 (237)
T TIGR00968        24 PTGSLVALLGPSGSGKSTLLRIIAGLEQ   51 (237)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            6999999999999999999998886544

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.79  E-value=4.1e-08  Score=82.74  Aligned_cols=28  Identities=21%  Similarity=0.262  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        28 ~~Ge~~~i~G~NGsGKSTLl~~l~Gl~~   55 (277)
T PRK13652         28 PRNSRIAVIGPNGAGKSTLFRHFNGILK   55 (277)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876544

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=98.79  E-value=4.7e-08  Score=85.27  Aligned_cols=29  Identities=24%  Similarity=0.155  Sum_probs=25.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus        20 i~~Gei~~l~G~nGsGKSTLl~~iaGl~~   48 (354)
T TIGR02142        20 LPGQGVTAIFGRSGSGKTTLIRLIAGLTR   48 (354)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998876544

This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=98.79  E-value=4.1e-08  Score=82.43  Aligned_cols=28  Identities=36%  Similarity=0.372  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   58 (269)
T PRK11831         31 PRGKITAIMGPSGIGKTTLLRLIGGQIA   58 (269)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.78  E-value=4e-08  Score=83.40  Aligned_cols=28  Identities=18%  Similarity=0.164  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   58 (290)
T PRK13634         31 PSGSYVAIIGHTGSGKSTLLQHLNGLLQ   58 (290)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            7999999999999999999998876544

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=98.78  E-value=5.2e-08  Score=78.49  Aligned_cols=93  Identities=24%  Similarity=0.261  Sum_probs=55.6

Q ss_pred             CCCE-EEEEcCCCCcHHHHHHHHHHHhhhc----CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHH
Q 041690           18 VDPI-TLLSGPPCCGKTSLLFQFAYNCASQ----SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEI   92 (233)
Q Consensus        18 ~g~~-~ll~GppGsGKTtLa~~~a~~~~~~----~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l   92 (233)
                      .|-. +|+.|||||||||+++-+|...+..    ...+|..|++..++.....-.+|.       .-...+..++....-
T Consensus       135 ~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~-------~~g~R~dVld~cpk~  207 (308)
T COG3854         135 NGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQH-------GRGRRMDVLDPCPKA  207 (308)
T ss_pred             cCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchh-------hhhhhhhhcccchHH
Confidence            4444 9999999999999999999877743    367899998654332211001110       001111222223333


Q ss_pred             HHHHHHhcccCCCCcEEEEeCCCcccc
Q 041690           93 KKYFAAFHQHDKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        93 ~~~~~~~~~~~~~p~iIvIDei~~~~~  119 (233)
                      ..++..++  ...|+++++|||....+
T Consensus       208 ~gmmmaIr--sm~PEViIvDEIGt~~d  232 (308)
T COG3854         208 EGMMMAIR--SMSPEVIIVDEIGTEED  232 (308)
T ss_pred             HHHHHHHH--hcCCcEEEEeccccHHH
Confidence            33444443  33499999999988776

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.78  E-value=4.5e-08  Score=84.18  Aligned_cols=57  Identities=11%  Similarity=0.108  Sum_probs=39.8

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             .+..     +++.+..++.++.+++++++...        .+.++.+.++.
T Consensus       195 p~iLLLDEPtsgLD~~-------------~~~~-----l~~~L~~l~~~g~TiiivtHd~~--------~~~~~adri~v  248 (320)
T PRK13631        195 PEILIFDEPTAGLDPK-------------GEHE-----MMQLILDAKANNKTVFVITHTME--------HVLEVADEVIV  248 (320)
T ss_pred             CCEEEEECCccCCCHH-------------HHHH-----HHHHHHHHHHCCCEEEEEecCHH--------HHHHhCCEEEE
Confidence            9999999999999841             1112     56666666666777777766421        45677888888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       249 l~~  251 (320)
T PRK13631        249 MDK  251 (320)
T ss_pred             EEC
Confidence            874

>PF13173 AAA_14: AAA domain

Probab=98.78  E-value=5.3e-08  Score=72.55  Aligned_cols=35  Identities=34%  Similarity=0.563  Sum_probs=29.6

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +..++|+||.||||||++++++....  ...+++|++
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi~   36 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL--PPENILYIN   36 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc--ccccceeec
Confidence            46799999999999999999987555  457799997

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=98.78  E-value=3.8e-08  Score=85.89  Aligned_cols=29  Identities=14%  Similarity=0.108  Sum_probs=25.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|..+.|.||+|||||||++.++....
T Consensus        16 i~~Gei~~l~G~sGsGKSTLLr~L~Gl~~   44 (363)
T TIGR01186        16 IAKGEIFVIMGLSGSGKSTTVRMLNRLIE   44 (363)
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhCCCC
Confidence            37999999999999999999998876554

This model describes the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits these transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L.lact

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.78  E-value=5.3e-08  Score=82.51  Aligned_cols=28  Identities=18%  Similarity=0.128  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~i~G~nGaGKSTLl~~l~Gl~~   58 (287)
T PRK13637         31 EDGEFVGLIGHTGSGKSTLIQHLNGLLK   58 (287)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            6999999999999999999998876543

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.78  E-value=4.3e-08  Score=87.78  Aligned_cols=37  Identities=22%  Similarity=0.312  Sum_probs=32.2

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..++|+||||+|||+|+..++..+. ..+.+++|++.+
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~-~~~~~v~yi~~~  178 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALR-ESGGKILYVRSE  178 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHH-HcCCCEEEeeHH
Confidence            5689999999999999999998877 568899999743

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=98.78  E-value=4.8e-08  Score=85.10  Aligned_cols=28  Identities=32%  Similarity=0.275  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        26 ~~Ge~~~llGpsGsGKSTLLr~IaGl~~   53 (353)
T PRK10851         26 PSGQMVALLGPSGSGKTTLLRIIAGLEH   53 (353)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998886544

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=98.78  E-value=4.4e-08  Score=79.99  Aligned_cols=28  Identities=18%  Similarity=0.037  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   56 (228)
T cd03257          29 KKGETLGLVGESGSGKSTLARAILGLLK   56 (228)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998886543

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.

>PRK06921 hypothetical protein; Provisional

Probab=98.78  E-value=6.8e-08  Score=80.91  Aligned_cols=38  Identities=26%  Similarity=0.290  Sum_probs=33.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+..++|+||||+|||+|+..++..+....|.+|+|++
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~  153 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP  153 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence            46789999999999999999999988733388999997

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.78  E-value=3.8e-08  Score=83.08  Aligned_cols=28  Identities=14%  Similarity=0.124  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~   58 (280)
T PRK13649         31 EDGSYTAFIGHTGSGKSTIMQLLNGLHV   58 (280)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=98.77  E-value=3.5e-08  Score=84.21  Aligned_cols=28  Identities=18%  Similarity=0.170  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        26 ~~Gei~~l~G~NGaGKTTLl~~l~Gl~~   53 (301)
T TIGR03522        26 QKGRIVGFLGPNGAGKSTTMKIITGYLP   53 (301)
T ss_pred             eCCeEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=98.77  E-value=4.3e-08  Score=86.82  Aligned_cols=42  Identities=19%  Similarity=0.252  Sum_probs=33.0

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecC
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTH  165 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~  165 (233)
                      |.+||+||+++-++..           .+.  .     +.+.+..++++|.++++|++..
T Consensus       491 P~lvVLDEPNsNLD~~-----------GE~--A-----L~~Ai~~~k~rG~~vvviaHRP  532 (580)
T COG4618         491 PFLVVLDEPNSNLDSE-----------GEA--A-----LAAAILAAKARGGTVVVIAHRP  532 (580)
T ss_pred             CcEEEecCCCCCcchh-----------HHH--H-----HHHHHHHHHHcCCEEEEEecCH
Confidence            9999999999999841           222  2     6677888889999999997753

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=98.77  E-value=5.1e-08  Score=81.47  Aligned_cols=28  Identities=29%  Similarity=0.405  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        28 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   55 (262)
T PRK09984         28 HHGEMVALLGPSGSGKSTLLRHLSGLIT   55 (262)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            6999999999999999999998886543

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.77  E-value=5.4e-08  Score=82.29  Aligned_cols=28  Identities=18%  Similarity=0.194  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        30 ~~Ge~~~i~G~nGaGKSTLl~~i~Gl~~   57 (283)
T PRK13636         30 KKGEVTAILGGNGAGKSTLFQNLNGILK   57 (283)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            6999999999999999999998876544

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=98.77  E-value=8.2e-08  Score=79.17  Aligned_cols=27  Identities=26%  Similarity=0.320  Sum_probs=24.5

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ..+|..+.|.||+|||||||++.++..
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        23 VKKGEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            379999999999999999999988765

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.77  E-value=4.7e-08  Score=82.32  Aligned_cols=28  Identities=25%  Similarity=0.398  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        26 ~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~   53 (275)
T PRK13639         26 EKGEMVALLGPNGAGKSTLFLHFNGILK   53 (275)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=98.76  E-value=1.4e-07  Score=84.23  Aligned_cols=41  Identities=24%  Similarity=0.371  Sum_probs=37.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..++|.|+||+|||+|+.+++.+.+...|.+|+|++.|
T Consensus       192 ~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlE  232 (421)
T TIGR03600       192 VKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLE  232 (421)
T ss_pred             CCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECC
Confidence            69999999999999999999999988875678999999977

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.76  E-value=5.1e-08  Score=86.54  Aligned_cols=39  Identities=26%  Similarity=0.319  Sum_probs=31.7

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcC-CCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQS-NANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~-g~~v~yi~~e   57 (233)
                      ...++|+||||+|||+|+..++..+.... +.+++|++.+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~  175 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSE  175 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHH
Confidence            45789999999999999999998776322 6789999743

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=98.76  E-value=4.4e-08  Score=89.42  Aligned_cols=28  Identities=21%  Similarity=0.163  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        29 ~~Ge~~~liG~nGsGKSTLl~~i~Gl~~   56 (510)
T PRK09700         29 YPGEIHALLGENGAGKSTLMKVLSGIHE   56 (510)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHcCCcC
Confidence            6999999999999999999998875543

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=98.76  E-value=3.9e-08  Score=80.71  Aligned_cols=28  Identities=18%  Similarity=0.196  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        33 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   60 (233)
T PRK11629         33 GEGEMMAIVGSSGSGKSTLLHLLGGLDT   60 (233)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876543

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=98.76  E-value=6.1e-08  Score=77.61  Aligned_cols=28  Identities=29%  Similarity=0.272  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        24 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   51 (198)
T TIGR01189        24 NAGEALQVTGPNGIGKTTLLRILAGLLR   51 (198)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

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.

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=98.76  E-value=5.4e-08  Score=80.32  Aligned_cols=28  Identities=21%  Similarity=0.232  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|+|||||++.++....
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   52 (242)
T cd03295          25 AKGEFLVLIGPSGSGKTTTMKMINRLIE   52 (242)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876543

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=98.76  E-value=7.4e-08  Score=79.24  Aligned_cols=28  Identities=25%  Similarity=0.228  Sum_probs=24.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        23 ~~Ge~~~i~G~nG~GKStLl~~l~G~~~   50 (235)
T cd03299          23 ERGDYFVILGPTGSGKSVLLETIAGFIK   50 (235)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCcC
Confidence            6999999999999999999998876544

ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=98.76  E-value=5.3e-08  Score=88.72  Aligned_cols=28  Identities=14%  Similarity=0.153  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        28 ~~Ge~~~l~G~NGsGKSTLl~~l~G~~~   55 (501)
T PRK10762         28 YPGRVMALVGENGAGKSTMMKVLTGIYT   55 (501)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.76  E-value=4.9e-08  Score=82.38  Aligned_cols=28  Identities=11%  Similarity=-0.022  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   58 (279)
T PRK13650         31 KQGEWLSIIGHNGSGKSTTVRLIDGLLE   58 (279)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876544

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.75  E-value=4.7e-08  Score=89.66  Aligned_cols=38  Identities=18%  Similarity=0.248  Sum_probs=31.7

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEEecC
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFMCNR   57 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi~~e   57 (233)
                      ..++|||++|+|||+|+..++..+... .+.+|+|++.+
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitae  353 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSE  353 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH
Confidence            458999999999999999999887632 47899999744

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=98.75  E-value=8.9e-08  Score=79.67  Aligned_cols=28  Identities=14%  Similarity=-0.022  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        27 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   54 (254)
T PRK10418         27 QRGRVLALVGGSGSGKSLTCAAALGILP   54 (254)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=98.75  E-value=5.4e-08  Score=79.55  Aligned_cols=28  Identities=25%  Similarity=0.158  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        34 ~~Ge~~~i~G~nGsGKSTLl~~i~Gl~~   61 (228)
T PRK10584         34 KRGETIALIGESGSGKSTLLAILAGLDD   61 (228)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCCC
Confidence            7999999999999999999998886543

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=98.75  E-value=6.4e-08  Score=79.22  Aligned_cols=28  Identities=25%  Similarity=0.180  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   51 (230)
T TIGR03410        24 PKGEVTCVLGRNGVGKTTLLKTLMGLLP   51 (230)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876544

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.75  E-value=4.4e-08  Score=81.47  Aligned_cols=38  Identities=26%  Similarity=0.428  Sum_probs=35.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +.+..++++||||+|||.|+.+++..++ ..|.+|+|++
T Consensus       103 ~~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~sv~f~~  140 (254)
T COG1484         103 ERGENLVLLGPPGVGKTHLAIAIGNELL-KAGISVLFIT  140 (254)
T ss_pred             ccCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEE
Confidence            3678999999999999999999999999 8899999996

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.75  E-value=5e-08  Score=87.74  Aligned_cols=39  Identities=26%  Similarity=0.301  Sum_probs=31.9

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcC-CCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQS-NANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~-g~~v~yi~~e   57 (233)
                      ...++|+||||+|||+|+..++..+.... +.+++|++.+
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~  187 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE  187 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence            35689999999999999999998877332 6789999743

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=98.75  E-value=7.2e-08  Score=79.29  Aligned_cols=28  Identities=21%  Similarity=0.284  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   52 (236)
T TIGR03864        25 RPGEFVALLGPNGAGKSTLFSLLTRLYV   52 (236)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCcC
Confidence            6999999999999999999998875443

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>TIGR00665 DnaB replicative DNA helicase

Probab=98.75  E-value=7.5e-08  Score=86.20  Aligned_cols=41  Identities=24%  Similarity=0.396  Sum_probs=37.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..++|.|+||+|||+|+.+++...+...|.+|+|++-|
T Consensus       193 ~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlE  233 (434)
T TIGR00665       193 QPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLE  233 (434)
T ss_pred             CCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCc
Confidence            68999999999999999999999999885568899999977

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.75  E-value=1.3e-07  Score=84.81  Aligned_cols=38  Identities=18%  Similarity=0.267  Sum_probs=31.1

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEEecC
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFMCNR   57 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi~~e   57 (233)
                      ..++||||||+|||+|+..++..+... .+.+++|++.+
T Consensus       131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~  169 (440)
T PRK14088        131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE  169 (440)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence            469999999999999999999877632 36789999743

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.75  E-value=5e-08  Score=78.48  Aligned_cols=28  Identities=32%  Similarity=0.377  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        25 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   52 (204)
T PRK13538         25 NAGELVQIEGPNGAGKTSLLRILAGLAR   52 (204)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876544

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.74  E-value=5.4e-08  Score=82.55  Aligned_cols=28  Identities=14%  Similarity=0.148  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        35 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   62 (289)
T PRK13645         35 KKNKVTCVIGTTGSGKSTMIQLTNGLII   62 (289)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876554

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=98.74  E-value=6.2e-08  Score=81.43  Aligned_cols=134  Identities=13%  Similarity=0.212  Sum_probs=73.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhh---------cCCCeEEEEecCCcccccccc---cccccCCchhhhcceEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCAS---------QSNANVVFMCNRSRLQSKRPY---LSQSIDPSSHVFKLIQMK   84 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~---------~~g~~v~yi~~e~~l~~~~~~---~~~~~~~~~~~~~~i~~~   84 (233)
                      ..|-.++|+|++|+||||++++++.+++.         ..-++|+||+-|..-+....+   +...++.+..-..++.+.
T Consensus        87 r~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsPadvrn~dlt  166 (402)
T COG3598          87 RKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSPADVRNMDLT  166 (402)
T ss_pred             hcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCChHhhhheecc
Confidence            57788999999999999999999877652         124689999977311111111   111222222222244331


Q ss_pred             Eec---------CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-
Q 041690           85 YVE---------DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-  154 (233)
Q Consensus        85 ~~~---------~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-  154 (233)
                      -++         ....++.....+.  +..|++||||.+-+++...   +   ....+       ...+.+.++.+... 
T Consensus       167 d~~Gaa~~~d~l~pkl~rRfek~~~--Q~rp~~vViDp~v~f~~G~---s---~s~vq-------v~~fi~~~rkla~~l  231 (402)
T COG3598         167 DVSGAADESDVLSPKLYRRFEKILE--QKRPDFVVIDPFVAFYEGK---S---ISDVQ-------VKEFIKKTRKLARNL  231 (402)
T ss_pred             ccccCCCccccccHHHHHHHHHHHH--HhCCCeEEEcchhhhcCCc---c---chhHH-------HHHHHHHHHHHHHhc
Confidence            111         1123333333333  4449999999999999742   1   11122       22245555555444 


Q ss_pred             CCcEEEEeecC
Q 041690          155 SPCKLLLSDTH  165 (233)
Q Consensus       155 ~~~vlvi~~~~  165 (233)
                      ++.++.+-+++
T Consensus       232 ~caIiy~hHts  242 (402)
T COG3598         232 ECAIIYIHHTS  242 (402)
T ss_pred             CCeEEEEeccc
Confidence            45555565554

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=98.74  E-value=1.2e-07  Score=77.40  Aligned_cols=28  Identities=21%  Similarity=0.267  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~l~G~nGsGKSTLlk~l~G~~~   58 (226)
T cd03234          31 ESGQVMAILGSSGSGKTTLLDAISGRVE   58 (226)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHhCccC
Confidence            6999999999999999999998876543

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=98.74  E-value=2.1e-07  Score=75.00  Aligned_cols=28  Identities=14%  Similarity=0.169  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        32 ~~G~~~~i~G~nGsGKSTLl~~l~Gl~~   59 (207)
T cd03369          32 KAGEKIGIVGRTGAGKSTLILALFRFLE   59 (207)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            6999999999999999999998876543

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>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=98.73  E-value=1.7e-07  Score=76.51  Aligned_cols=27  Identities=37%  Similarity=0.489  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        24 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          24 PKGEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            699999999999999999999988766

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).

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.73  E-value=8.9e-08  Score=81.14  Aligned_cols=28  Identities=21%  Similarity=0.279  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        31 ~~Ge~~~iiG~NGaGKSTLl~~l~Gl~~   58 (287)
T PRK13641         31 EEGSFVALVGHTGSGKSTLMQHFNALLK   58 (287)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876544

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

Probab=98.73  E-value=3.5e-08  Score=85.03  Aligned_cols=29  Identities=34%  Similarity=0.395  Sum_probs=25.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|..+.|.||+||||||+++.+|--..
T Consensus        28 i~~Gef~~lLGPSGcGKTTlLR~IAGfe~   56 (352)
T COG3842          28 IKKGEFVTLLGPSGCGKTTLLRMIAGFEQ   56 (352)
T ss_pred             ecCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998875444

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=98.73  E-value=7.5e-08  Score=80.72  Aligned_cols=29  Identities=17%  Similarity=0.082  Sum_probs=25.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|..+.|.||+|||||||++.++....
T Consensus        36 i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~~   64 (267)
T PRK15112         36 LREGQTLAIIGENGSGKSTLAKMLAGMIE   64 (267)
T ss_pred             ecCCCEEEEEcCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998886554

>PRK13409 putative ATPase RIL; Provisional

Probab=98.73  E-value=9.2e-08  Score=88.63  Aligned_cols=144  Identities=15%  Similarity=0.183  Sum_probs=80.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCC-----eEEEEecCCccccc---ccccccc---cCC---chhhhcceE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNA-----NVVFMCNRSRLQSK---RPYLSQS---IDP---SSHVFKLIQ   82 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~-----~v~yi~~e~~l~~~---~~~~~~~---~~~---~~~~~~~i~   82 (233)
                      .+|.++.|.||+|+|||||++.++.......|.     ++.|+..+..+...   .+.+...   ...   ...+++.+.
T Consensus       363 ~~Geiv~l~G~NGsGKSTLlk~L~Gl~~p~~G~I~~~~~i~y~~Q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~L~~l~  442 (590)
T PRK13409        363 YEGEVIGIVGPNGIGKTTFAKLLAGVLKPDEGEVDPELKISYKPQYIKPDYDGTVEDLLRSITDDLGSSYYKSEIIKPLQ  442 (590)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEEeeeEEEecccccCCCCCcHHHHHHHHhhhcChHHHHHHHHHHCC
Confidence            689999999999999999999887654422221     23455443111000   0000000   000   011111111


Q ss_pred             E--------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc
Q 041690           83 M--------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK  154 (233)
Q Consensus        83 ~--------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~  154 (233)
                      +        ..++.++..+-.++.+-.  ..|+++++||+++.++.             ..+..     +++.++.+.++
T Consensus       443 l~~~~~~~~~~LSGGe~QRvaiAraL~--~~p~llLLDEPt~~LD~-------------~~~~~-----l~~~l~~l~~~  502 (590)
T PRK13409        443 LERLLDKNVKDLSGGELQRVAIAACLS--RDADLYLLDEPSAHLDV-------------EQRLA-----VAKAIRRIAEE  502 (590)
T ss_pred             CHHHHhCCcccCCHHHHHHHHHHHHHh--cCCCEEEEeCCccCCCH-------------HHHHH-----HHHHHHHHHHh
Confidence            1        234445555555554432  23999999999999984             12222     56667666554


Q ss_pred             -CCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          155 -SPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       155 -~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                       +.+++++++..        ....++.+.++.+.+
T Consensus       503 ~g~tviivsHD~--------~~~~~~aDrvivl~~  529 (590)
T PRK13409        503 REATALVVDHDI--------YMIDYISDRLMVFEG  529 (590)
T ss_pred             CCCEEEEEeCCH--------HHHHHhCCEEEEEcC
Confidence             67777776531        145666777777764

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=98.73  E-value=1.6e-07  Score=75.47  Aligned_cols=41  Identities=20%  Similarity=0.319  Sum_probs=30.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-----CeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-----ANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-----~~v~yi~~e   57 (233)
                      ++|..+.|.||+|||||||++.++.......|     +.+.|+...
T Consensus        29 ~~G~~~~i~G~nG~GKSTLl~~i~G~~~~~~G~i~~~g~i~~~~q~   74 (204)
T cd03250          29 PKGELVAIVGPVGSGKSSLLSALLGELEKLSGSVSVPGSIAYVSQE   74 (204)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCcCCCCCCeEEEcCEEEEEecC
Confidence            79999999999999999999988765542323     135666544

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK05748 replicative DNA helicase; Provisional

Probab=98.73  E-value=2.8e-07  Score=82.86  Aligned_cols=176  Identities=12%  Similarity=0.120  Sum_probs=95.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-ccc------------cCCch--------
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-SQS------------IDPSS--------   75 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~~~------------~~~~~--------   75 (233)
                      .+|..++|.|+||+|||+|+.+++...+...|.+|+|++-|..-..-..++ ...            +...+        
T Consensus       201 ~~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEms~~~l~~R~l~~~~~v~~~~i~~~~l~~~e~~~~~~a~  280 (448)
T PRK05748        201 QPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMGAESLVMRMLCAEGNIDAQRLRTGQLTDDDWPKLTIAM  280 (448)
T ss_pred             CCCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCCCHHHHHHHHHHHhcCCCHHHhhcCCCCHHHHHHHHHHH
Confidence            699999999999999999999999998856689999999773111111111 000            00000        


Q ss_pred             -hhhc-ceEEEEec--CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh
Q 041690           76 -HVFK-LIQMKYVE--DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA  151 (233)
Q Consensus        76 -~~~~-~i~~~~~~--~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l  151 (233)
                       ...+ ++.+....  ....++.....+......+++||||.++.+-...   ..   ...+.    ..+..+...++.+
T Consensus       281 ~~l~~~~~~i~d~~~~ti~~i~~~~r~~~~~~~~~~~vvIDyL~li~~~~---~~---~~~r~----~~i~~i~~~LK~l  350 (448)
T PRK05748        281 GSLSDAPIYIDDTPGIKVTEIRARCRRLAQEHGGLGLILIDYLQLIQGSG---RS---GENRQ----QEVSEISRSLKAL  350 (448)
T ss_pred             HHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccchhcCCCC---CC---CcCHH----HHHHHHHHHHHHH
Confidence             0000 22222111  1233444333332211148999999998774311   10   01111    2233455555554


Q ss_pred             hh-cCCcEEEEeecCCC------CCchhH-----HHHHHhhccceEEEec----------CCccEEEeeccCc
Q 041690          152 NK-KSPCKLLLSDTHLG------NSTRLL-----YIYKRWISSIFTVKGD----------GPGSFLLRNKNYS  202 (233)
Q Consensus       152 ~~-~~~~vlvi~~~~~~------~~~~~~-----~~~~~~~~~~~~i~~~----------~~~~~~l~~~~~~  202 (233)
                      ++ .+.+++++++.+++      ..|...     -.++...|.++.+..+          +..+.++.++++.
T Consensus       351 Ake~~i~vi~lsQlnr~~~~r~~k~p~lsdlr~Sg~Ieq~AD~v~~l~r~~~~~~~~~~~~~~e~~v~K~R~G  423 (448)
T PRK05748        351 AKELKVPVIALSQLSRGVEQRQDKRPVMSDIRESGSIEQDADIVAFLYRDDYYDEETENKNTIEIIIAKQRNG  423 (448)
T ss_pred             HHHhCCeEEEecccChhHhhcCCCCCChHHHHhhcchhcCCCEEEEEecccccCccccCCCceEEEEeccCCC
Confidence            44 47778888877753      123211     1235556777666532          2235777777765

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=98.73  E-value=9.7e-08  Score=78.25  Aligned_cols=29  Identities=14%  Similarity=0.059  Sum_probs=25.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|..+.|.||+|+|||||++.++....
T Consensus         9 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   37 (230)
T TIGR02770         9 LKRGEVLALVGESGSGKSLTCLAILGLLP   37 (230)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            35899999999999999999999887654

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=98.73  E-value=1.3e-07  Score=76.80  Aligned_cols=28  Identities=21%  Similarity=0.150  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        28 ~~G~~~~i~G~nGsGKSTLl~~i~G~~~   55 (220)
T cd03245          28 RAGEKVAIIGRVGSGKSTLLKLLAGLYK   55 (220)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCcC
Confidence            7999999999999999999998876543

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=98.72  E-value=8.7e-08  Score=78.32  Aligned_cols=40  Identities=18%  Similarity=0.223  Sum_probs=30.2

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++|..+.+.||+||||||+++.+-....  ....-++++.+
T Consensus        24 I~~gef~vliGpSGsGKTTtLkMINrLie--pt~G~I~i~g~   63 (309)
T COG1125          24 IEEGEFLVLIGPSGSGKTTTLKMINRLIE--PTSGEILIDGE   63 (309)
T ss_pred             ecCCeEEEEECCCCCcHHHHHHHHhcccC--CCCceEEECCe
Confidence            37999999999999999999997754433  33445666655

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.72  E-value=8.1e-08  Score=77.04  Aligned_cols=28  Identities=29%  Similarity=0.208  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        25 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~~   52 (200)
T PRK13540         25 PAGGLLHLKGSNGAGKTTLLKLIAGLLN   52 (200)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            6999999999999999999998876543

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=98.72  E-value=1.1e-07  Score=86.30  Aligned_cols=28  Identities=18%  Similarity=0.135  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        27 ~~Ge~~~liG~nGsGKSTLl~~l~G~~~   54 (490)
T PRK10938         27 NAGDSWAFVGANGSGKSALARALAGELP   54 (490)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            7999999999999999999998876544

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=98.72  E-value=1.8e-07  Score=76.77  Aligned_cols=28  Identities=18%  Similarity=0.222  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        25 ~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~   52 (236)
T cd03253          25 PAGKKVAIVGPSGSGKSTILRLLFRFYD   52 (236)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            6999999999999999999998886554

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=98.72  E-value=1.1e-07  Score=83.51  Aligned_cols=28  Identities=32%  Similarity=0.307  Sum_probs=24.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        43 ~~Ge~~~llGpsGsGKSTLLr~IaGl~~   70 (377)
T PRK11607         43 YKGEIFALLGASGCGKSTLLRMLAGFEQ   70 (377)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            6999999999999999999998875443

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=98.72  E-value=1.2e-07  Score=76.03  Aligned_cols=25  Identities=24%  Similarity=0.413  Sum_probs=21.7

Q ss_pred             CCC-CEEEEEcCCCCcHHHHHHHHHH
Q 041690           17 HVD-PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        17 ~~g-~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .++ +.++|+||+|+|||||+++++.
T Consensus        25 ~~~~~~~~ltG~Ng~GKStll~~i~~   50 (200)
T cd03280          25 GENKRVLVITGPNAGGKTVTLKTLGL   50 (200)
T ss_pred             CCCceEEEEECCCCCChHHHHHHHHH
Confidence            455 5799999999999999999883

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=98.72  E-value=1.8e-07  Score=77.01  Aligned_cols=28  Identities=18%  Similarity=0.275  Sum_probs=25.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        27 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~~   54 (238)
T cd03249          27 PPGKTVALVGSSGCGKSTVVSLLERFYD   54 (238)
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHhccCC
Confidence            7999999999999999999998886554

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.71  E-value=8.3e-08  Score=77.40  Aligned_cols=28  Identities=32%  Similarity=0.331  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   53 (207)
T PRK13539         26 AAGEALVLTGPNGSGKTTLLRLIAGLLP   53 (207)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876544

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.71  E-value=1.3e-07  Score=82.38  Aligned_cols=42  Identities=21%  Similarity=0.343  Sum_probs=34.9

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-CeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-ANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-~~v~yi~~e   57 (233)
                      ..+|.+++|.||+|+||||++..++.......| .+|.+++++
T Consensus       134 ~~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D  176 (374)
T PRK14722        134 MERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTD  176 (374)
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecc
Confidence            357899999999999999999999987664445 688888755

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=98.71  E-value=2.2e-07  Score=75.96  Aligned_cols=28  Identities=32%  Similarity=0.560  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   58 (225)
T PRK10247         31 RAGEFKLITGPSGCGKSTLLKIVASLIS   58 (225)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            6999999999999999999998876543

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=98.71  E-value=1e-07  Score=79.85  Aligned_cols=28  Identities=21%  Similarity=0.143  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        35 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   62 (265)
T TIGR02769        35 EEGETVGLLGRSGCGKSTLARLLLGLEK   62 (265)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.71  E-value=1e-07  Score=76.12  Aligned_cols=28  Identities=36%  Similarity=0.415  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   51 (195)
T PRK13541         24 LPSAITYIKGANGCGKSSLLRMIAGIMQ   51 (195)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            6999999999999999999998876544

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.71  E-value=7e-08  Score=81.44  Aligned_cols=28  Identities=14%  Similarity=-0.001  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        31 ~~Ge~~~i~G~nGaGKSTLl~~i~G~~~   58 (279)
T PRK13635         31 YEGEWVAIVGHNGSGKSTLAKLLNGLLL   58 (279)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            7999999999999999999998876544

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=98.71  E-value=1.3e-07  Score=77.03  Aligned_cols=27  Identities=33%  Similarity=0.425  Sum_probs=24.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|+|||||++.++...
T Consensus        29 ~~G~~~~I~G~nGsGKStLl~~l~G~~   55 (220)
T TIGR02982        29 NPGEIVILTGPSGSGKTTLLTLIGGLR   55 (220)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            699999999999999999999887544

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=98.71  E-value=1.2e-07  Score=78.14  Aligned_cols=28  Identities=25%  Similarity=0.188  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|+|||||++.++....
T Consensus        45 ~~Ge~~~i~G~NGsGKSTLl~~i~Gl~~   72 (236)
T cd03267          45 EKGEIVGFIGPNGAGKTTTLKILSGLLQ   72 (236)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCcC
Confidence            6999999999999999999998876543

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.71  E-value=4.3e-08  Score=78.11  Aligned_cols=26  Identities=35%  Similarity=0.544  Sum_probs=23.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +++.++.|.||+|||||||++.+-.-
T Consensus        31 ~~~~VTAlIGPSGcGKST~LR~lNRm   56 (253)
T COG1117          31 PKNKVTALIGPSGCGKSTLLRCLNRM   56 (253)
T ss_pred             cCCceEEEECCCCcCHHHHHHHHHhh
Confidence            68999999999999999999977543

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=98.71  E-value=3.9e-07  Score=76.05  Aligned_cols=175  Identities=12%  Similarity=0.147  Sum_probs=93.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccc------------cccc-cCC---------c
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPY------------LSQS-IDP---------S   74 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~------------~~~~-~~~---------~   74 (233)
                      .+|..++|.|+||+|||+|+.+++...+...+.+|+|++.|..-+.-..+            +..+ +..         .
T Consensus        17 ~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~~~l~~R~la~~s~v~~~~i~~g~l~~~e~~~~~~~~   96 (259)
T PF03796_consen   17 RPGELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSEEELAARLLARLSGVPYNKIRSGDLSDEEFERLQAAA   96 (259)
T ss_dssp             -TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-HHHHHHHHHHHHHTSTHHHHHCCGCHHHHHHHHHHHH
T ss_pred             CcCcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCHHHHHHHHHHHhhcchhhhhhccccCHHHHHHHHHHH
Confidence            58999999999999999999999999995557999999987211110000            0000 000         0


Q ss_pred             hhhhc-ceEEEEec--CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh
Q 041690           75 SHVFK-LIQMKYVE--DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA  151 (233)
Q Consensus        75 ~~~~~-~i~~~~~~--~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l  151 (233)
                      ....+ .+.+....  ..+.+......+.......++||||-++.+-...    ...+   +...    +..+...++.+
T Consensus        97 ~~l~~~~l~i~~~~~~~~~~i~~~i~~~~~~~~~~~~v~IDyl~ll~~~~----~~~~---~~~~----~~~i~~~Lk~l  165 (259)
T PF03796_consen   97 EKLSDLPLYIEDTPSLTIDDIESKIRRLKREGKKVDVVFIDYLQLLKSED----SSDN---RRQE----IGEISRELKAL  165 (259)
T ss_dssp             HHHHTSEEEEEESSS-BHHHHHHHHHHHHHHSTTEEEEEEEEGGGSBTSC----SSSC---CHHH----HHHHHHHHHHH
T ss_pred             HHHhhCcEEEECCCCCCHHHHHHHHHHHHhhccCCCEEEechHHHhcCCC----CCCC---HHHH----HHHHHHHHHHH
Confidence            00111 23332221  2445555555443332447899999998776631    1111   1111    12233334433


Q ss_pred             h-hcCCcEEEEeecCCC------CCchhH-----HHHHHhhccceEEEecC----------CccEEEeeccCc
Q 041690          152 N-KKSPCKLLLSDTHLG------NSTRLL-----YIYKRWISSIFTVKGDG----------PGSFLLRNKNYS  202 (233)
Q Consensus       152 ~-~~~~~vlvi~~~~~~------~~~~~~-----~~~~~~~~~~~~i~~~~----------~~~~~l~~~~~~  202 (233)
                      + +.+.+++++++.++.      ..|...     -.++...+.++.+..+.          .-+..+.+.++.
T Consensus       166 A~~~~i~vi~~sQlnr~~~~~~~~~p~l~dl~~sg~Ie~~AD~vl~l~r~~~~~~~~~~~~~~~l~v~KnR~G  238 (259)
T PF03796_consen  166 AKELNIPVIALSQLNREAEDREDKRPSLSDLRESGAIEQDADVVLFLHRDEKYDEDRDDKGEAELIVAKNRNG  238 (259)
T ss_dssp             HHHHTSEEEEEEEBSGGGGGSSSCS--HHHHCSTSSHHHH-SEEEEEEEHCHCHCCSSCTTEEEEEEEEESSS
T ss_pred             HHHcCCeEEEccccChhhhcccccccchhhhhhhHHHHHHHhhhhhhccchhhccccCCCCeEEEEEEecCCC
Confidence            3 347777777776642      123211     13567778888888631          113566666654

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=98.71  E-value=1.5e-07  Score=77.96  Aligned_cols=26  Identities=23%  Similarity=0.333  Sum_probs=24.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|||||||++.++..
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (248)
T PRK09580         25 RPGEVHAIMGPNGSGKSTLSATLAGR   50 (248)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            69999999999999999999988765

>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional

Probab=98.71  E-value=1.3e-07  Score=81.57  Aligned_cols=28  Identities=18%  Similarity=0.235  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        39 ~~Ge~~~IvG~sGsGKSTLl~~l~gl~~   66 (327)
T PRK11308         39 ERGKTLAVVGESGCGKSTLARLLTMIET   66 (327)
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHcCCC
Confidence            7999999999999999999998876544

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.70  E-value=1.4e-07  Score=79.24  Aligned_cols=28  Identities=11%  Similarity=0.031  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        33 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   60 (271)
T PRK13632         33 NEGEYVAILGHNGSGKSTISKILTGLLK   60 (271)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876544

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=98.70  E-value=8.6e-08  Score=87.87  Aligned_cols=28  Identities=21%  Similarity=0.253  Sum_probs=25.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g~~~  386 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTGLLD  386 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876554

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=98.70  E-value=8.8e-08  Score=79.81  Aligned_cols=35  Identities=20%  Similarity=0.174  Sum_probs=28.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeE
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANV   51 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v   51 (233)
                      ..+|..+.|.||+|||||||++.++.... ...+.+
T Consensus        23 i~~Ge~~~IvG~nGsGKSTLlk~l~Gl~~-p~~G~I   57 (255)
T cd03236          23 PREGQVLGLVGPNGIGKSTALKILAGKLK-PNLGKF   57 (255)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCcC-CCCceE
Confidence            57999999999999999999998887665 334444

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLIs have an N-terminal Fe-S domain and two nucleotide binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.70  E-value=1.4e-07  Score=79.20  Aligned_cols=28  Identities=14%  Similarity=0.006  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|+|||||++.++....
T Consensus        33 ~~Ge~~~I~G~nGsGKSTLl~~i~Gl~~   60 (269)
T PRK13648         33 PKGQWTSIVGHNGSGKSTIAKLMIGIEK   60 (269)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876544

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.70  E-value=7.9e-08  Score=80.94  Aligned_cols=28  Identities=14%  Similarity=0.102  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|+|||||++.++....
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   53 (274)
T PRK13644         26 KKGEYIGIIGKNGSGKSTLALHLNGLLR   53 (274)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998886544

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=98.70  E-value=1.5e-07  Score=85.85  Aligned_cols=146  Identities=17%  Similarity=0.233  Sum_probs=82.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-------CCCeEEEEecCCcccccc--cc--cccc---cCCc--hhhhcc
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-------SNANVVFMCNRSRLQSKR--PY--LSQS---IDPS--SHVFKL   80 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-------~g~~v~yi~~e~~l~~~~--~~--~~~~---~~~~--~~~~~~   80 (233)
                      ++|..++|.||+|||||+|.+.+|....-.       .+...+|+..+..+....  +.  ++..   ..+.  ..++..
T Consensus       417 ~~G~~llI~G~SG~GKTsLlRaiaGLWP~g~G~I~~P~~~~~lflpQ~PY~p~GtLre~l~YP~~~~~~~d~~l~~vL~~  496 (604)
T COG4178         417 RPGERLLITGESGAGKTSLLRALAGLWPWGSGRISMPADSALLFLPQRPYLPQGTLREALCYPNAAPDFSDAELVAVLHK  496 (604)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccCccCCCceecCCCCceEEecCCCCCCCccHHHHHhCCCCCCCCChHHHHHHHHH
Confidence            699999999999999999999888655411       234478887663222211  00  0110   1000  011111


Q ss_pred             eEE--------------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHH
Q 041690           81 IQM--------------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYN  146 (233)
Q Consensus        81 i~~--------------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  146 (233)
                      +..              .-++.++..+-.|+.+-.++  |+++|+||.++-++..             ....     ++.
T Consensus       497 vgL~~L~~rl~~~~~W~~vLS~GEqQRlafARilL~k--P~~v~LDEATsALDe~-------------~e~~-----l~q  556 (604)
T COG4178         497 VGLGDLAERLDEEDRWDRVLSGGEQQRLAFARLLLHK--PKWVFLDEATSALDEE-------------TEDR-----LYQ  556 (604)
T ss_pred             cCcHHHHHHHhccCcHhhhcChhHHHHHHHHHHHHcC--CCEEEEecchhccChH-------------HHHH-----HHH
Confidence            111              23455667777777665444  9999999999999841             1111     334


Q ss_pred             HHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEecCCc
Q 041690          147 AITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGDGPG  192 (233)
Q Consensus       147 ~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  192 (233)
                      .++.- =.+.++|-|++.+         .+.++....+++...+.+
T Consensus       557 ~l~~~-lp~~tvISV~Hr~---------tl~~~h~~~l~l~~~~~~  592 (604)
T COG4178         557 LLKEE-LPDATVISVGHRP---------TLWNFHSRQLELLDDAGG  592 (604)
T ss_pred             HHHhh-CCCCEEEEeccch---------hhHHHHhhheeecccccc
Confidence            44210 0355555555543         355566667777765443

>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional

Probab=98.70  E-value=1.4e-07  Score=81.51  Aligned_cols=28  Identities=18%  Similarity=0.138  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.|++|||||||++.++....
T Consensus        40 ~~Ge~~~ivG~sGsGKSTL~~~l~Gl~~   67 (330)
T PRK09473         40 RAGETLGIVGESGSGKSQTAFALMGLLA   67 (330)
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCCC
Confidence            7999999999999999999998886554

>PRK03695 vitamin B12-transporter ATPase; Provisional

Probab=98.69  E-value=1.7e-07  Score=77.68  Aligned_cols=28  Identities=32%  Similarity=0.375  Sum_probs=24.5

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+|..+.|.||+|||||||++.++...
T Consensus        19 i~~Gei~~l~G~nGsGKSTLl~~l~Gl~   46 (248)
T PRK03695         19 VRAGEILHLVGPNGAGKSTLLARMAGLL   46 (248)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            3699999999999999999999887543

>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional

Probab=98.69  E-value=1.1e-07  Score=82.24  Aligned_cols=28  Identities=14%  Similarity=0.109  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        45 ~~Ge~~~lvG~sGsGKSTLlk~i~Gl~~   72 (331)
T PRK15079         45 YEGETLGVVGESGCGKSTFARAIIGLVK   72 (331)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCC
Confidence            7999999999999999999998886544

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=98.69  E-value=1.4e-07  Score=78.57  Aligned_cols=28  Identities=25%  Similarity=0.240  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        30 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   57 (258)
T PRK11701         30 YPGEVLGIVGESGSGKTTLLNALSARLA   57 (258)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998886543

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.68  E-value=1.7e-07  Score=77.34  Aligned_cols=127  Identities=13%  Similarity=0.144  Sum_probs=69.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC-ccc--ccccccccc---cCCchhhhcceEEEEecCH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS-RLQ--SKRPYLSQS---IDPSSHVFKLIQMKYVEDD   89 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~-~l~--~~~~~~~~~---~~~~~~~~~~i~~~~~~~~   89 (233)
                      ..+|..+.|.|++||||||+++.++.-.. ..++.+.|=...- .+.  ...+.+...   .+..+..+.+-- ..++.+
T Consensus        36 i~~ge~~glVGESG~GKSTlgr~i~~L~~-pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryP-helSGG  113 (268)
T COG4608          36 IKEGETLGLVGESGCGKSTLGRLILGLEE-PTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYP-HELSGG  113 (268)
T ss_pred             EcCCCEEEEEecCCCCHHHHHHHHHcCcC-CCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCC-cccCch
Confidence            37999999999999999999998876554 4455566532110 000  001111110   011111100000 223334


Q ss_pred             HHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeec
Q 041690           90 EEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDT  164 (233)
Q Consensus        90 ~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~  164 (233)
                      +..+-.++.+...+  |++||.||+.+.++.             .  .+.+   +.+++..+.+. +.+.++|++.
T Consensus       114 QrQRi~IARALal~--P~liV~DEpvSaLDv-------------S--iqaq---IlnLL~dlq~~~~lt~lFIsHD  169 (268)
T COG4608         114 QRQRIGIARALALN--PKLIVADEPVSALDV-------------S--VQAQ---ILNLLKDLQEELGLTYLFISHD  169 (268)
T ss_pred             hhhhHHHHHHHhhC--CcEEEecCchhhcch-------------h--HHHH---HHHHHHHHHHHhCCeEEEEEEE
Confidence            55555555444223  999999999999984             1  1111   45555555444 7777888764

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=98.68  E-value=9.9e-08  Score=87.07  Aligned_cols=28  Identities=21%  Similarity=0.258  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        29 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   56 (506)
T PRK13549         29 RAGEIVSLCGENGAGKSTLMKVLSGVYP   56 (506)
T ss_pred             eCCeEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

>TIGR03415 ABC_choXWV_ATP choline ABC transporter, ATP-binding protein

Probab=98.68  E-value=1.3e-07  Score=82.96  Aligned_cols=28  Identities=29%  Similarity=0.218  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        48 ~~Gei~~I~G~nGsGKSTLlr~L~Gl~~   75 (382)
T TIGR03415        48 EEGEICVLMGLSGSGKSSLLRAVNGLNP   75 (382)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            6999999999999999999998876554

Members of this protein family are the ATP-binding subunit of a three-protein transporter. This family belongs, more broadly, to the family of proline and glycine-betaine transporters, but members have been identified by direct characterization and by bioinformatic means as choline transporters. Many species have several closely-related members of this family, probably with variable abilities to act additionally on related quaternary amines.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.68  E-value=1.5e-07  Score=84.43  Aligned_cols=39  Identities=26%  Similarity=0.211  Sum_probs=31.4

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhh-cCCCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCAS-QSNANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~-~~g~~v~yi~~e   57 (233)
                      ...++|+|++|+|||+|++.++..+.. ..+.+++|++.+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~  180 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGD  180 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence            356899999999999999988876552 347899999744

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=98.68  E-value=3.1e-07  Score=75.34  Aligned_cols=29  Identities=21%  Similarity=0.248  Sum_probs=25.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|+|||||++.++....
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   53 (234)
T cd03251          25 IPAGETVALVGPSGSGKSTLVNLIPRFYD   53 (234)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            36999999999999999999998876554

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.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.67  E-value=1.5e-07  Score=83.79  Aligned_cols=34  Identities=29%  Similarity=0.270  Sum_probs=25.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ....++|+|||||||||+++.++...    +..++.++
T Consensus        35 ~~~~ilL~GppGtGKTtLA~~ia~~~----~~~~~~l~   68 (413)
T PRK13342         35 RLSSMILWGPPGTGKTTLARIIAGAT----DAPFEALS   68 (413)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHh----CCCEEEEe
Confidence            44578999999999999999887643    34455543

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=98.67  E-value=1.3e-07  Score=87.78  Aligned_cols=27  Identities=33%  Similarity=0.276  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus       374 ~~G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        374 PAGQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            799999999999999999999888766

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=98.67  E-value=1.8e-07  Score=76.93  Aligned_cols=28  Identities=14%  Similarity=0.112  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   53 (237)
T cd03252          26 KPGEVVGIVGRSGSGKSTLTKLIQRFYV   53 (237)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCcC
Confidence            7999999999999999999998886544

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=98.67  E-value=1.7e-07  Score=84.80  Aligned_cols=28  Identities=21%  Similarity=0.058  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        48 ~~GEivgIiGpNGSGKSTLLkiLaGLl~   75 (549)
T PRK13545         48 PEGEIVGIIGLNGSGKSTLSNLIAGVTM   75 (549)
T ss_pred             eCCCEEEEEcCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876544

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=98.67  E-value=1.1e-07  Score=77.70  Aligned_cols=28  Identities=21%  Similarity=0.272  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        27 ~~G~~~~i~G~nGsGKSTLl~~l~G~~~   54 (229)
T cd03254          27 KPGETVAIVGPTGAGKTTLINLLMRFYD   54 (229)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCcC
Confidence            7999999999999999999998886554

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=98.67  E-value=4e-07  Score=74.02  Aligned_cols=28  Identities=25%  Similarity=0.259  Sum_probs=25.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|....|+||+|+|||||++.++....
T Consensus        55 ~~ge~W~I~G~NGsGKTTLL~ll~~~~~   82 (257)
T COG1119          55 NPGEHWAIVGPNGAGKTTLLSLLTGEHP   82 (257)
T ss_pred             cCCCcEEEECCCCCCHHHHHHHHhcccC
Confidence            7999999999999999999998876655

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=98.66  E-value=2e-07  Score=84.77  Aligned_cols=28  Identities=25%  Similarity=0.189  Sum_probs=24.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        22 ~~Ge~~~liG~nGsGKSTLl~~l~Gl~~   49 (491)
T PRK10982         22 RPHSIHALMGENGAGKSTLLKCLFGIYQ   49 (491)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHcCCCC
Confidence            6999999999999999999998876443

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=98.66  E-value=1.8e-07  Score=85.51  Aligned_cols=57  Identities=12%  Similarity=0.082  Sum_probs=39.7

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             ....     +++.+..+.+.+.+++++++...        ....+.+.++.
T Consensus       428 p~lLlLDEPt~~LD~~-------------~~~~-----l~~~l~~l~~~g~tvi~vsHd~~--------~~~~~~d~i~~  481 (510)
T PRK09700        428 PEVIIFDEPTRGIDVG-------------AKAE-----IYKVMRQLADDGKVILMVSSELP--------EIITVCDRIAV  481 (510)
T ss_pred             CCEEEECCCCCCcCHH-------------HHHH-----HHHHHHHHHHCCCEEEEEcCCHH--------HHHhhCCEEEE
Confidence            9999999999999841             1112     56666666566777777765321        56677888888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       482 l~~  484 (510)
T PRK09700        482 FCE  484 (510)
T ss_pred             EEC
Confidence            874

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=98.66  E-value=1.6e-07  Score=78.75  Aligned_cols=28  Identities=21%  Similarity=0.227  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        36 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   63 (268)
T PRK10419         36 KSGETVALLGRSGCGKSTLARLLVGLES   63 (268)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998875443

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=98.66  E-value=1.8e-07  Score=85.22  Aligned_cols=28  Identities=25%  Similarity=0.315  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        28 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   55 (501)
T PRK11288         28 RAGQVHALMGENGAGKSTLLKILSGNYQ   55 (501)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876443

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.65  E-value=1.9e-07  Score=78.99  Aligned_cols=28  Identities=18%  Similarity=0.019  Sum_probs=25.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~I~G~nGaGKSTLl~~l~G~~~   58 (282)
T PRK13640         31 PRGSWTALIGHNGSGKSTISKLINGLLL   58 (282)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            6999999999999999999998886654

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=98.65  E-value=2.2e-07  Score=83.81  Aligned_cols=38  Identities=21%  Similarity=0.167  Sum_probs=31.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+|..+.|.|++|||||||++.++.... ..++.+.|..
T Consensus       315 ~~GE~lglVGeSGsGKSTlar~i~gL~~-P~~G~i~~~g  352 (539)
T COG1123         315 REGETLGLVGESGSGKSTLARILAGLLP-PSSGSIIFDG  352 (539)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC-CCCceEEEeC
Confidence            7999999999999999999998886665 4566666654

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.65  E-value=1.6e-07  Score=80.24  Aligned_cols=37  Identities=22%  Similarity=0.141  Sum_probs=33.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+.+++|+||+|+|||+|+..++..++ ..|.+|.|+.
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~-~~g~~v~~~~  191 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELA-KKGVSSTLLH  191 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEEE
Confidence            467899999999999999999999998 7789999985

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=98.65  E-value=2.4e-07  Score=74.69  Aligned_cols=37  Identities=24%  Similarity=0.287  Sum_probs=29.1

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEE
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVF   53 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~y   53 (233)
                      .++|.++.|.||+|+||||+++.++-... ...+.+.|
T Consensus        26 v~~Geiv~llG~NGaGKTTlLkti~Gl~~-~~~G~I~~   62 (237)
T COG0410          26 VERGEIVALLGRNGAGKTTLLKTIMGLVR-PRSGRIIF   62 (237)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCC-CCCeeEEE
Confidence            37999999999999999999998876555 33444544

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=98.64  E-value=2.1e-07  Score=80.39  Aligned_cols=28  Identities=18%  Similarity=0.064  Sum_probs=25.1

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+|..+.|.||+|||||||++.++...
T Consensus        30 i~~Ge~~~ivG~sGsGKSTLl~~i~Gl~   57 (330)
T PRK15093         30 LTEGEIRGLVGESGSGKSLIAKAICGVT   57 (330)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHHccC
Confidence            3799999999999999999999887654

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=98.64  E-value=1.7e-07  Score=86.88  Aligned_cols=28  Identities=14%  Similarity=0.127  Sum_probs=25.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       367 ~~G~~~aIvG~sGsGKSTLl~ll~gl~~  394 (582)
T PRK11176        367 PAGKTVALVGRSGSGKSTIANLLTRFYD  394 (582)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccC
Confidence            6999999999999999999998887665

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=98.64  E-value=2.8e-07  Score=77.53  Aligned_cols=29  Identities=28%  Similarity=0.298  Sum_probs=25.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus        24 i~~Ge~~~l~G~nGsGKSTLl~~laG~~~   52 (272)
T PRK13547         24 IEPGRVTALLGRNGAGKSTLLKALAGDLT   52 (272)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998876543

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=98.64  E-value=2.1e-07  Score=77.24  Aligned_cols=28  Identities=25%  Similarity=0.171  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        27 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   54 (253)
T TIGR02323        27 YPGEVLGIVGESGSGKSTLLGCLAGRLA   54 (253)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998876544

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=98.63  E-value=2.9e-07  Score=84.29  Aligned_cols=28  Identities=14%  Similarity=0.094  Sum_probs=25.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+|..+.|.||+|||||||++.++...
T Consensus        23 i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   50 (520)
T TIGR03269        23 IEEGEVLGILGRSGAGKSVLMHVLRGMD   50 (520)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            3799999999999999999999988764

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.63  E-value=3.1e-07  Score=76.19  Aligned_cols=27  Identities=37%  Similarity=0.443  Sum_probs=24.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        27 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         27 PDNTITALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            699999999999999999999887654

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=98.63  E-value=1.8e-07  Score=75.16  Aligned_cols=26  Identities=23%  Similarity=0.411  Sum_probs=23.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..++|+||+|+|||||+++++..
T Consensus        27 ~~~~~~~l~G~Ng~GKStll~~i~~~   52 (202)
T cd03243          27 GSGRLLLITGPNMGGKSTYLRSIGLA   52 (202)
T ss_pred             cCCeEEEEECCCCCccHHHHHHHHHH
Confidence            46789999999999999999999843

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=98.63  E-value=3.1e-07  Score=76.92  Aligned_cols=29  Identities=28%  Similarity=0.288  Sum_probs=25.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+.|..+.+.||+|||||||++.+|--..
T Consensus        25 i~~Ge~vaLlGpSGaGKsTlLRiIAGLe~   53 (345)
T COG1118          25 IKSGELVALLGPSGAGKSTLLRIIAGLET   53 (345)
T ss_pred             ecCCcEEEEECCCCCcHHHHHHHHhCcCC
Confidence            36999999999999999999998875443

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=98.63  E-value=2.2e-07  Score=88.28  Aligned_cols=82  Identities=20%  Similarity=0.250  Sum_probs=52.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC------CCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS------NANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEE   91 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~------g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   91 (233)
                      ....++|+||||||||+++..++...+...      +..+++++... +...    ....+              +..+.
T Consensus       202 ~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~-l~a~----~~~~g--------------~~e~~  262 (731)
T TIGR02639       202 KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGS-LLAG----TKYRG--------------DFEER  262 (731)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHH-Hhhh----ccccc--------------hHHHH
Confidence            456789999999999999999998876221      33444443110 0000    00111              11567


Q ss_pred             HHHHHHHhcccCCCCcEEEEeCCCccccc
Q 041690           92 IKKYFAAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        92 l~~~~~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      ++++++.+..  ..+.++||||++.+...
T Consensus       263 l~~i~~~~~~--~~~~ILfiDEih~l~~~  289 (731)
T TIGR02639       263 LKAVVSEIEK--EPNAILFIDEIHTIVGA  289 (731)
T ss_pred             HHHHHHHHhc--cCCeEEEEecHHHHhcc
Confidence            8888887652  23789999999999874

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=98.63  E-value=2.7e-07  Score=72.17  Aligned_cols=36  Identities=25%  Similarity=0.303  Sum_probs=29.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVF   53 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~y   53 (233)
                      .+|..+.|.||+|+|||||++.++--.. ...+.|.|
T Consensus        26 ~~Ge~~~i~G~NG~GKTtLLRilaGLl~-p~~G~v~~   61 (209)
T COG4133          26 NAGEALQITGPNGAGKTTLLRILAGLLR-PDAGEVYW   61 (209)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHcccC-CCCCeEEe
Confidence            6999999999999999999998886655 43444554

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=98.63  E-value=9.1e-07  Score=70.89  Aligned_cols=27  Identities=19%  Similarity=0.325  Sum_probs=22.8

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+| .+.|.||+|+|||||+..++...
T Consensus        20 ~~~g-~~~i~G~nGsGKStll~al~~l~   46 (197)
T cd03278          20 FPPG-LTAIVGPNGSGKSNIIDAIRWVL   46 (197)
T ss_pred             cCCC-cEEEECCCCCCHHHHHHHHHHHh
Confidence            3567 99999999999999999887543

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=98.62  E-value=5.4e-07  Score=73.51  Aligned_cols=28  Identities=25%  Similarity=0.396  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        38 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   65 (226)
T cd03248          38 HPGEVTALVGPSGSGKSTVVALLENFYQ   65 (226)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCcC
Confidence            7999999999999999999998886543

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.62  E-value=1.1e-07  Score=78.33  Aligned_cols=29  Identities=17%  Similarity=0.052  Sum_probs=25.2

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|.++.+.||+|+||||+++.+..-..
T Consensus        47 IP~G~ivgflGaNGAGKSTtLKmLTGll~   75 (325)
T COG4586          47 IPKGEIVGFLGANGAGKSTTLKMLTGLLL   75 (325)
T ss_pred             cCCCcEEEEEcCCCCcchhhHHHHhCccc
Confidence            37999999999999999999998765444

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=98.62  E-value=2.4e-07  Score=84.46  Aligned_cols=27  Identities=19%  Similarity=0.144  Sum_probs=24.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        25 ~~Ge~~~liG~nGsGKSTLl~~i~G~~   51 (500)
T TIGR02633        25 RPGECVGLCGENGAGKSTLMKILSGVY   51 (500)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            799999999999999999999887644

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=98.62  E-value=3.9e-07  Score=75.43  Aligned_cols=28  Identities=32%  Similarity=0.516  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   52 (247)
T TIGR00972        25 PKNQVTALIGPSGCGKSTLLRSLNRMND   52 (247)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            7999999999999999999998876543

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=98.62  E-value=1.5e-07  Score=88.35  Aligned_cols=28  Identities=18%  Similarity=0.100  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.|++|||||||++.+..-..
T Consensus       497 ~~Ge~vaIvG~SGsGKSTL~KLL~gly~  524 (709)
T COG2274         497 PPGEKVAIVGRSGSGKSTLLKLLLGLYK  524 (709)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998775544

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.61  E-value=1.5e-07  Score=82.43  Aligned_cols=133  Identities=18%  Similarity=0.159  Sum_probs=70.9

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAA   98 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~   98 (233)
                      -++.|||||||||||+|..++|..+    +..|.-+.    +.+                       +.....++.++..
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L----~ydIydLe----Lt~-----------------------v~~n~dLr~LL~~  283 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYL----NYDIYDLE----LTE-----------------------VKLDSDLRHLLLA  283 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhc----CCceEEee----ecc-----------------------ccCcHHHHHHHHh
Confidence            3679999999999999999766533    34444432    000                       0012347777764


Q ss_pred             hcccCCCCcEEEEeCCCcccccccccccc-CCcchhhHHHHHHHHHHHHHHHHhh-hcCCcEEEEeecCCCCCchhHHHH
Q 041690           99 FHQHDKIPTAVVVDDFGDLFDDRTCQERY-TNPRGRDLAMVRTLALCYNAITHAN-KKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        99 ~~~~~~~p~iIvIDei~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~l~~~~~~l~-~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..    .-+||||.+|+.-+......... ...++....  -+|.-|++.+..+- ..|.--|++-+||..+..+.+.+.
T Consensus       284 t~----~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~--VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlR  357 (457)
T KOG0743|consen  284 TP----NKSILLIEDIDCSFDLRERRKKKKENFEGDLSR--VTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLR  357 (457)
T ss_pred             CC----CCcEEEEeecccccccccccccccccccCCcce--eehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcC
Confidence            42    25899999999988753111110 000100011  12222334433222 233345556666665544444455


Q ss_pred             HHhhccceEEEe
Q 041690          177 KRWISSIFTVKG  188 (233)
Q Consensus       177 ~~~~~~~~~i~~  188 (233)
                      +.++|..+++..
T Consensus       358 pGRmDmhI~mgy  369 (457)
T KOG0743|consen  358 PGRMDMHIYMGY  369 (457)
T ss_pred             CCcceeEEEcCC
Confidence            667776666654

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.61  E-value=3.4e-07  Score=75.80  Aligned_cols=27  Identities=33%  Similarity=0.481  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|+|||||++.++...
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (246)
T PRK14269         26 EQNKITALIGASGCGKSTFLRCFNRMN   52 (246)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            799999999999999999999887643

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=98.61  E-value=2.5e-07  Score=84.83  Aligned_cols=28  Identities=14%  Similarity=0.102  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        33 ~~Ge~~~iiG~nGsGKSTLl~~i~G~~~   60 (529)
T PRK15134         33 EAGETLALVGESGSGKSVTALSILRLLP   60 (529)
T ss_pred             eCCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            6999999999999999999998886554

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=98.61  E-value=4.9e-07  Score=82.41  Aligned_cols=57  Identities=14%  Similarity=0.075  Sum_probs=41.1

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             .+..     +++.+..+++.+.+++++++..        ..+..+.+.++.
T Consensus       415 p~lllLDEPt~~LD~~-------------~~~~-----l~~~l~~l~~~g~tviivsHd~--------~~~~~~~d~i~~  468 (501)
T PRK11288        415 MKVILLDEPTRGIDVG-------------AKHE-----IYNVIYELAAQGVAVLFVSSDL--------PEVLGVADRIVV  468 (501)
T ss_pred             CCEEEEcCCCCCCCHh-------------HHHH-----HHHHHHHHHhCCCEEEEECCCH--------HHHHhhCCEEEE
Confidence            9999999999999841             1222     6667777767778877776532        256778898888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       469 l~~  471 (501)
T PRK11288        469 MRE  471 (501)
T ss_pred             EEC
Confidence            874

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.61  E-value=4.9e-07  Score=75.15  Aligned_cols=28  Identities=32%  Similarity=0.498  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   58 (254)
T PRK14273         31 LKNSITALIGPSGCGKSTFLRTLNRMND   58 (254)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            6999999999999999999998876543

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=98.61  E-value=4.4e-07  Score=84.30  Aligned_cols=28  Identities=18%  Similarity=0.277  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       359 ~~G~~v~IvG~sGsGKSTLl~lL~gl~~  386 (588)
T PRK13657        359 KPGQTVAIVGPTGAGKSTLINLLQRVFD  386 (588)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCcC
Confidence            6999999999999999999998876555

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.60  E-value=5.8e-07  Score=74.59  Aligned_cols=28  Identities=32%  Similarity=0.476  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        28 ~~G~~~~i~G~nGsGKSTLl~~l~Gl~~   55 (251)
T PRK14249         28 PERQITAIIGPSGCGKSTLLRALNRMND   55 (251)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            6999999999999999999998876543

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=98.60  E-value=2.8e-07  Score=87.06  Aligned_cols=28  Identities=21%  Similarity=0.237  Sum_probs=25.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       477 ~~Ge~vaIvG~sGsGKSTLlklL~gl~~  504 (686)
T TIGR03797       477 EPGEFVAIVGPSGSGKSTLLRLLLGFET  504 (686)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876655

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=98.60  E-value=1.4e-07  Score=78.82  Aligned_cols=37  Identities=30%  Similarity=0.360  Sum_probs=28.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVF   53 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~y   53 (233)
                      .-..+.|+|||||||||+.++.++.++-.++-.++-+
T Consensus        55 ~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rv   91 (346)
T KOG0989|consen   55 RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRV   91 (346)
T ss_pred             cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccch
Confidence            3567899999999999999999998776433334433

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.60  E-value=4.9e-07  Score=78.05  Aligned_cols=34  Identities=32%  Similarity=0.369  Sum_probs=26.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      .+...++|+||||||||++++.++....    ..+.++
T Consensus        49 ~~~~~~ll~GppG~GKT~la~~ia~~l~----~~~~~~   82 (328)
T PRK00080         49 EALDHVLLYGPPGLGKTTLANIIANEMG----VNIRIT   82 (328)
T ss_pred             CCCCcEEEECCCCccHHHHHHHHHHHhC----CCeEEE
Confidence            3456899999999999999998877443    445544

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.59  E-value=1.9e-06  Score=75.37  Aligned_cols=95  Identities=17%  Similarity=0.243  Sum_probs=57.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      .+..++|.||+|+||||++..+|..+. ..|.++.++++...-....+.+..+.+.     ..+.+........+.+.+.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~-~~GkkVglI~aDt~RiaAvEQLk~yae~-----lgipv~v~~d~~~L~~aL~  313 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH-GKKKTVGFITTDHSRIGTVQQLQDYVKT-----IGFEVIAVRDEAAMTRALT  313 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH-HcCCcEEEEecCCcchHHHHHHHHHhhh-----cCCcEEecCCHHHHHHHHH
Confidence            457899999999999999999998877 6688899988652100111111111110     0222222334556666665


Q ss_pred             HhcccCCCCcEEEEeCCCcccc
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~  119 (233)
                      .+... ...++|+||.......
T Consensus       314 ~lk~~-~~~DvVLIDTaGRs~k  334 (436)
T PRK11889        314 YFKEE-ARVDYILIDTAGKNYR  334 (436)
T ss_pred             HHHhc-cCCCEEEEeCccccCc
Confidence            44321 1379999999866443

>PHA00729 NTP-binding motif containing protein

Probab=98.59  E-value=2.5e-07  Score=75.07  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=21.5

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..++|+|+||+|||+||..++..+
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999998765

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=98.59  E-value=5.3e-07  Score=74.89  Aligned_cols=26  Identities=31%  Similarity=0.546  Sum_probs=24.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|||||||++.++..
T Consensus        30 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         30 EQNQVTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            69999999999999999999988754

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=98.58  E-value=2.8e-07  Score=86.10  Aligned_cols=28  Identities=11%  Similarity=0.082  Sum_probs=25.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        40 ~~Ge~~~lvG~nGsGKSTLl~~l~Gll~   67 (623)
T PRK10261         40 QRGETLAIVGESGSGKSVTALALMRLLE   67 (623)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            7999999999999999999998886554

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.58  E-value=7.1e-07  Score=74.92  Aligned_cols=26  Identities=31%  Similarity=0.519  Sum_probs=24.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|||||||++.++..
T Consensus        37 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl   62 (269)
T PRK14259         37 PRGKVTALIGPSGCGKSTVLRSLNRM   62 (269)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            79999999999999999999988764

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=98.58  E-value=3.7e-07  Score=84.44  Aligned_cols=28  Identities=18%  Similarity=0.231  Sum_probs=25.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+||||||++..+.....
T Consensus       353 ~~Ge~vaiVG~sGsGKSTl~~LL~r~~~  380 (567)
T COG1132         353 EPGEKVAIVGPSGSGKSTLIKLLLRLYD  380 (567)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            7999999999999999999998876555

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=98.58  E-value=5e-07  Score=77.95  Aligned_cols=29  Identities=10%  Similarity=0.044  Sum_probs=25.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|.++.|.||+|||||||++.++....
T Consensus        30 i~~Ge~~~lvG~sGsGKSTL~~~l~Gll~   58 (326)
T PRK11022         30 VKQGEVVGIVGESGSGKSVSSLAIMGLID   58 (326)
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            37999999999999999999998886543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.57  E-value=3.1e-07  Score=88.46  Aligned_cols=84  Identities=13%  Similarity=0.184  Sum_probs=53.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc------CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ------SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDE   90 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~------~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   90 (233)
                      .....++|+||||||||+++..++......      .+.++++++....+.. .    ...+.              ..+
T Consensus       197 ~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag-~----~~~g~--------------~e~  257 (857)
T PRK10865        197 RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAG-A----KYRGE--------------FEE  257 (857)
T ss_pred             CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhc-c----chhhh--------------hHH
Confidence            355678899999999999999999877621      2456666542110000 0    00001              145


Q ss_pred             HHHHHHHHhcccCCCCcEEEEeCCCccccc
Q 041690           91 EIKKYFAAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        91 ~l~~~~~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      .++.++..+... ..+.++||||++.+...
T Consensus       258 ~lk~~~~~~~~~-~~~~ILfIDEih~l~~~  286 (857)
T PRK10865        258 RLKGVLNDLAKQ-EGNVILFIDELHTMVGA  286 (857)
T ss_pred             HHHHHHHHHHHc-CCCeEEEEecHHHhccC
Confidence            677777765322 24789999999999874

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=98.57  E-value=2.8e-07  Score=76.37  Aligned_cols=70  Identities=21%  Similarity=0.293  Sum_probs=47.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      .+.-.++|++||||.||||||..+|.+..    .++-..+       .+ .+                   +...++..+
T Consensus        49 ~e~lDHvLl~GPPGlGKTTLA~IIA~Emg----vn~k~ts-------Gp-~l-------------------eK~gDlaai   97 (332)
T COG2255          49 GEALDHVLLFGPPGLGKTTLAHIIANELG----VNLKITS-------GP-AL-------------------EKPGDLAAI   97 (332)
T ss_pred             CCCcCeEEeeCCCCCcHHHHHHHHHHHhc----CCeEecc-------cc-cc-------------------cChhhHHHH
Confidence            36778999999999999999998887544    3444332       11 11                   113455555


Q ss_pred             HHHhcccCCCCcEEEEeCCCccccc
Q 041690           96 FAAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        96 ~~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      +..+.  +  -+++|||||..+-+.
T Consensus        98 Lt~Le--~--~DVLFIDEIHrl~~~  118 (332)
T COG2255          98 LTNLE--E--GDVLFIDEIHRLSPA  118 (332)
T ss_pred             HhcCC--c--CCeEEEehhhhcChh
Confidence            55443  2  589999999998874

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=98.57  E-value=4.8e-07  Score=83.01  Aligned_cols=28  Identities=18%  Similarity=0.182  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        25 ~~Ge~~~liG~NGsGKSTLl~~l~Gl~~   52 (530)
T PRK15064         25 GGGNRYGLIGANGCGKSTFMKILGGDLE   52 (530)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=98.57  E-value=7e-07  Score=74.86  Aligned_cols=28  Identities=25%  Similarity=0.419  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        43 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   70 (267)
T PRK14235         43 PEKTVTAFIGPSGCGKSTFLRCLNRMND   70 (267)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            7999999999999999999998886543

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=98.57  E-value=7.3e-07  Score=72.38  Aligned_cols=28  Identities=29%  Similarity=0.497  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   52 (218)
T cd03290          25 PTGQLTMIVGQVGCGKSSLLLAILGEMQ   52 (218)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            6999999999999999999998876543

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.57  E-value=8.2e-07  Score=69.22  Aligned_cols=75  Identities=8%  Similarity=0.119  Sum_probs=49.1

Q ss_pred             ecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecC
Q 041690           86 VEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTH  165 (233)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~  165 (233)
                      ++..+..+..++.+..  ..|+++++||+++.++..               ++   .+++..++.+++.|.+.+++++..
T Consensus       153 LSGGQQQR~aIARaLa--meP~vmLFDEPTSALDPE---------------lV---gEVLkv~~~LAeEgrTMv~VTHEM  212 (256)
T COG4598         153 LSGGQQQRVAIARALA--MEPEVMLFDEPTSALDPE---------------LV---GEVLKVMQDLAEEGRTMVVVTHEM  212 (256)
T ss_pred             cCchHHHHHHHHHHHh--cCCceEeecCCcccCCHH---------------HH---HHHHHHHHHHHHhCCeEEEEeeeh
Confidence            3445555555555442  239999999999999841               12   235667777888999999987742


Q ss_pred             CCCCchhHHHHHHhhccceEEEe
Q 041690          166 LGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                              ...++...+++.+..
T Consensus       213 --------~FAR~Vss~v~fLh~  227 (256)
T COG4598         213 --------GFARDVSSHVIFLHQ  227 (256)
T ss_pred             --------hHHHhhhhheEEeec
Confidence                    144555666666653

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.57  E-value=5.1e-07  Score=74.97  Aligned_cols=27  Identities=33%  Similarity=0.524  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        28 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~   54 (253)
T PRK14267         28 PQNGVFALMGPSGCGKSTLLRTFNRLL   54 (253)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            699999999999999999999887654

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

Probab=98.57  E-value=5e-08  Score=72.42  Aligned_cols=38  Identities=29%  Similarity=0.593  Sum_probs=26.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc----CCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ----SNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~----~g~~v~yi~   55 (233)
                      .++.++|+||||+|||+++.+++......    ...+++|+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~   44 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVN   44 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEE
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEE
Confidence            56789999999999999999999877521    156778876

>KOG1433 consensus DNA repair protein RAD51/RHP55 [Replication, recombination and repair]

Probab=98.56  E-value=3.2e-07  Score=78.23  Aligned_cols=139  Identities=17%  Similarity=0.232  Sum_probs=75.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccc-cccccC-CchhhhcceEEEEecC----HH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPY-LSQSID-PSSHVFKLIQMKYVED----DE   90 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~-~~~~~~-~~~~~~~~i~~~~~~~----~~   90 (233)
                      +-|..++|+||||||||.||+.++..+. ..+.+++||+++..+...+.. +..... ......+++.......    ..
T Consensus       109 ~~g~~TEi~G~p~~GKtQlc~~~~v~~~-gge~~~l~IDs~s~~~~~~~~~ia~~~~~~~~~~~~~l~~~~~~~~~~~l~  187 (326)
T KOG1433|consen  109 ETGSLTELVGPPGSGKTQLCHTLAVTCG-GGEGKVLYIDTESTFRLERLTEIAGRSGLRGRDTLSNLMLARAYNLDHQLQ  187 (326)
T ss_pred             ccCceeEEecCCCccHHHHHHHHHHhcc-CCcceEEEEecchhcccchhhhhhhhhhhhhHHHHHHHHHHHHHhhHHHHH
Confidence            6899999999999999999987776553 456789999988643222210 000000 0000111111100000    11


Q ss_pred             HHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeec
Q 041690           91 EIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDT  164 (233)
Q Consensus        91 ~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~  164 (233)
                      ........+.  +....++++|+.++.+.....+      +....+.+..+......+..+.+.....+||++.
T Consensus       188 ~~~~a~~~~~--~~~~~l~~vds~ta~~~~~~~g------~~~~~a~~~~~~~~~~~l~~la~~~g~~vvitn~  253 (326)
T KOG1433|consen  188 LIQEAEIMIN--QSRVKLLIVDSATALYRTTFKG------RGELSARQMLLAKFLRSLKKLADEFGVAVVITNQ  253 (326)
T ss_pred             HHHHHHHHhh--ccceeEEEeccccccccccccc------ccchHHHHHHHHHHHHHHHHHHHhcCceEEEecc
Confidence            1111111111  3457899999999999853222      3334444455555666666666654444466554

>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.56  E-value=3.2e-07  Score=77.33  Aligned_cols=28  Identities=11%  Similarity=-0.037  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        31 ~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~   58 (277)
T PRK13642         31 TKGEWVSIIGQNGSGKSTTARLIDGLFE   58 (277)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            7999999999999999999998876554

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=98.56  E-value=3.3e-07  Score=86.90  Aligned_cols=28  Identities=18%  Similarity=0.080  Sum_probs=25.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       503 ~~Ge~vaIvG~sGsGKSTLlklL~gl~~  530 (710)
T TIGR03796       503 QPGQRVALVGGSGSGKSTIAKLVAGLYQ  530 (710)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876655

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.56  E-value=4.6e-07  Score=77.26  Aligned_cols=27  Identities=37%  Similarity=0.413  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +...++|+||||||||+|++.++....
T Consensus        29 ~~~~~ll~Gp~G~GKT~la~~ia~~~~   55 (305)
T TIGR00635        29 ALDHLLLYGPPGLGKTTLAHIIANEMG   55 (305)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            456799999999999999998876443

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=98.56  E-value=6.1e-07  Score=72.94  Aligned_cols=28  Identities=21%  Similarity=0.190  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        28 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   55 (221)
T cd03244          28 KPGEKVGIVGRTGSGKSSLLLALFRLVE   55 (221)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHcCCC
Confidence            6999999999999999999998876544

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.56  E-value=9e-07  Score=77.98  Aligned_cols=40  Identities=18%  Similarity=0.272  Sum_probs=33.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++.+++|.||+||||||++..+|.......|.+|.+++.+
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~D  261 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTD  261 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEeccc
Confidence            4678999999999999999999986643668889988865

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=98.55  E-value=6.8e-07  Score=74.17  Aligned_cols=26  Identities=27%  Similarity=0.321  Sum_probs=23.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|||||||++.++..
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~i~Gl   56 (252)
T CHL00131         31 NKGEIHAIMGPNGSGKSTLSKVIAGH   56 (252)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHcCC
Confidence            69999999999999999999987753

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.55  E-value=1.1e-06  Score=73.18  Aligned_cols=27  Identities=22%  Similarity=0.506  Sum_probs=24.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        36 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~   62 (259)
T PRK14274         36 PENEVTAIIGPSGCGKSTFIKTLNLMI   62 (259)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            699999999999999999999888654

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=98.55  E-value=5e-07  Score=84.46  Aligned_cols=27  Identities=15%  Similarity=0.006  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus       348 ~~Ge~~~lvG~nGsGKSTLlk~i~Gl~  374 (623)
T PRK10261        348 WPGETLSLVGESGSGKSTTGRALLRLV  374 (623)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            799999999999999999999887544

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.55  E-value=4.1e-07  Score=84.57  Aligned_cols=28  Identities=18%  Similarity=0.114  Sum_probs=25.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.|++|||||||++.++....
T Consensus       365 ~~Ge~iaIvG~SGsGKSTLl~lL~gl~~  392 (592)
T PRK10790        365 PSRGFVALVGHTGSGKSTLASLLMGYYP  392 (592)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            7999999999999999999998876655

>KOG0055 consensus Multidrug/pheromone exporter, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]

Probab=98.55  E-value=6.1e-07  Score=87.17  Aligned_cols=39  Identities=21%  Similarity=0.273  Sum_probs=29.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++|..+.|.||+||||||+..-+..-...  ...-++++.+
T Consensus       377 ~~G~~valVG~SGsGKST~i~LL~RfydP--~~G~V~idG~  415 (1228)
T KOG0055|consen  377 PSGQTVALVGPSGSGKSTLIQLLARFYDP--TSGEVLIDGE  415 (1228)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhcCC--CCceEEEcCc
Confidence            79999999999999999999876654442  2335666655

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=98.55  E-value=7.5e-07  Score=74.37  Aligned_cols=27  Identities=33%  Similarity=0.593  Sum_probs=24.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|+|||||++.++...
T Consensus        37 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   63 (260)
T PRK10744         37 AKNQVTAFIGPSGCGKSTLLRTFNRMY   63 (260)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            699999999999999999999887654

>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family

Probab=98.54  E-value=3.8e-07  Score=83.99  Aligned_cols=28  Identities=18%  Similarity=0.189  Sum_probs=25.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       342 ~~G~~~~ivG~sGsGKSTL~~ll~g~~~  369 (544)
T TIGR01842       342 QAGEALAIIGPSGSGKSTLARLIVGIWP  369 (544)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998886655

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

>PRK14236 phosphate transporter ATP-binding protein; Provisional

Probab=98.54  E-value=9.6e-07  Score=74.24  Aligned_cols=27  Identities=33%  Similarity=0.535  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|+|||||++.++...
T Consensus        49 ~~Ge~~~I~G~nGsGKSTLl~~laGl~   75 (272)
T PRK14236         49 PKNRVTAFIGPSGCGKSTLLRCFNRMN   75 (272)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            699999999999999999999887653

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.54  E-value=8.2e-07  Score=73.72  Aligned_cols=28  Identities=25%  Similarity=0.452  Sum_probs=25.1

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+|..+.|.||+|||||||++.++...
T Consensus        27 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   54 (252)
T PRK14256         27 FPENSVTAIIGPSGCGKSTVLRSINRMH   54 (252)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            3799999999999999999999888654

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=98.54  E-value=4.8e-07  Score=82.49  Aligned_cols=57  Identities=14%  Similarity=0.121  Sum_probs=39.5

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             ....     +++.+..+.++|.+++++++..        ..+..+.+.++.
T Consensus       414 p~lllLDEPt~~LD~~-------------~~~~-----l~~~l~~~~~~g~tviivtHd~--------~~~~~~~d~v~~  467 (501)
T PRK10762        414 PKVLILDEPTRGVDVG-------------AKKE-----IYQLINQFKAEGLSIILVSSEM--------PEVLGMSDRILV  467 (501)
T ss_pred             CCEEEEcCCCCCCCHh-------------HHHH-----HHHHHHHHHHCCCEEEEEcCCH--------HHHHhhCCEEEE
Confidence            9999999999999841             1111     5666666666677777775531        156677888888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       468 l~~  470 (501)
T PRK10762        468 MHE  470 (501)
T ss_pred             EEC
Confidence            874

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=98.54  E-value=4.3e-07  Score=76.69  Aligned_cols=28  Identities=11%  Similarity=0.118  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        34 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   61 (280)
T PRK13633         34 KKGEFLVILGRNGSGKSTIAKHMNALLI   61 (280)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998875544

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.54  E-value=7.8e-07  Score=70.99  Aligned_cols=38  Identities=18%  Similarity=0.290  Sum_probs=31.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      ..+|.++.|.||+|+|||||++.++-+.. ..++.+.|-
T Consensus        24 ~~pGev~ailGPNGAGKSTlLk~LsGel~-p~~G~v~~~   61 (259)
T COG4559          24 LRPGEVLAILGPNGAGKSTLLKALSGELS-PDSGEVTLN   61 (259)
T ss_pred             ccCCcEEEEECCCCccHHHHHHHhhCccC-CCCCeEeeC
Confidence            37999999999999999999999887776 445556553

>COG1129 MglA ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]

Probab=98.53  E-value=3.9e-07  Score=81.65  Aligned_cols=42  Identities=7%  Similarity=0.159  Sum_probs=34.0

Q ss_pred             CCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeec
Q 041690          105 IPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDT  164 (233)
Q Consensus       105 ~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~  164 (233)
                      .+++|++||+++.+..            .+      -..+++.++.++++|..++.|++.
T Consensus       163 ~arllIlDEPTaaLt~------------~E------~~~Lf~~ir~Lk~~Gv~ii~ISHr  204 (500)
T COG1129         163 DARVLILDEPTAALTV------------KE------TERLFDLIRRLKAQGVAIIYISHR  204 (500)
T ss_pred             CCCEEEEcCCcccCCH------------HH------HHHHHHHHHHHHhCCCEEEEEcCc
Confidence            4889999999999984            11      122788899999999999999874

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=98.53  E-value=5.5e-07  Score=82.30  Aligned_cols=57  Identities=14%  Similarity=0.154  Sum_probs=39.8

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             ....     +++.+..+++.+.++|++++..        ..+..+.+.++.
T Consensus       422 p~lLlLDEPt~gLD~~-------------~~~~-----l~~~l~~l~~~g~tiIivsHd~--------~~i~~~~d~i~~  475 (510)
T PRK15439        422 PQLLIVDEPTRGVDVS-------------ARND-----IYQLIRSIAAQNVAVLFISSDL--------EEIEQMADRVLV  475 (510)
T ss_pred             CCEEEECCCCcCcChh-------------HHHH-----HHHHHHHHHhCCCEEEEECCCH--------HHHHHhCCEEEE
Confidence            9999999999999841             1112     5666666666677777775532        156678898888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       476 l~~  478 (510)
T PRK15439        476 MHQ  478 (510)
T ss_pred             EEC
Confidence            874

>cd03288 ABCC_SUR2 The SUR domain 2

Probab=98.53  E-value=1.4e-06  Score=72.53  Aligned_cols=28  Identities=21%  Similarity=0.199  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        45 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   72 (257)
T cd03288          45 KPGQKVGICGRTGSGKSSLSLAFFRMVD   72 (257)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcccC
Confidence            6999999999999999999998886544

The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=98.53  E-value=1e-06  Score=80.24  Aligned_cols=57  Identities=11%  Similarity=0.128  Sum_probs=39.9

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             .+..     +++.+..+.+.+.+++++++..        ..+.++.+.++.
T Consensus       422 p~lllLDEPt~~LD~~-------------~~~~-----l~~~l~~l~~~g~tviivsHd~--------~~~~~~~d~v~~  475 (500)
T TIGR02633       422 PRVLILDEPTRGVDVG-------------AKYE-----IYKLINQLAQEGVAIIVVSSEL--------AEVLGLSDRVLV  475 (500)
T ss_pred             CCEEEEcCCCCCcCHh-------------HHHH-----HHHHHHHHHhCCCEEEEECCCH--------HHHHHhCCEEEE
Confidence            9999999999999841             1112     5566666666677777775532        156778898988


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       476 l~~  478 (500)
T TIGR02633       476 IGE  478 (500)
T ss_pred             EEC
Confidence            874

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=98.53  E-value=5.7e-07  Score=83.35  Aligned_cols=28  Identities=25%  Similarity=0.358  Sum_probs=25.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       364 ~~G~~~aivG~sGsGKSTL~~ll~g~~~  391 (574)
T PRK11160        364 KAGEKVALLGRTGCGKSTLLQLLTRAWD  391 (574)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876655

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.53  E-value=1.1e-06  Score=73.94  Aligned_cols=26  Identities=35%  Similarity=0.556  Sum_probs=23.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|||||||++.++..
T Consensus        44 ~~Ge~~~IiG~nGsGKSTLl~~l~Gl   69 (274)
T PRK14265         44 PAKKIIAFIGPSGCGKSTLLRCFNRM   69 (274)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            69999999999999999999988743

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=98.53  E-value=4.5e-07  Score=85.83  Aligned_cols=28  Identities=18%  Similarity=0.077  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       489 ~~G~~iaIvG~sGsGKSTLlklL~gl~~  516 (694)
T TIGR03375       489 RPGEKVAIIGRIGSGKSTLLKLLLGLYQ  516 (694)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            6999999999999999999998876554

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.53  E-value=4.9e-07  Score=83.28  Aligned_cols=28  Identities=18%  Similarity=0.253  Sum_probs=24.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +||.++.|.||+|+||||++.-+..-..
T Consensus       492 ~pGe~vALVGPSGsGKSTiasLL~rfY~  519 (716)
T KOG0058|consen  492 RPGEVVALVGPSGSGKSTIASLLLRFYD  519 (716)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            7999999999999999999986654443

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=98.53  E-value=6.8e-07  Score=81.61  Aligned_cols=57  Identities=11%  Similarity=0.105  Sum_probs=39.9

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             ..     ..+++.+..+++++.+++++++..        ..+.++.+.++.
T Consensus       424 p~lllLDEPt~~LD~~-------------~~-----~~l~~~l~~l~~~g~tvi~~sHd~--------~~~~~~~d~v~~  477 (506)
T PRK13549        424 PKILILDEPTRGIDVG-------------AK-----YEIYKLINQLVQQGVAIIVISSEL--------PEVLGLSDRVLV  477 (506)
T ss_pred             CCEEEEcCCCCCcCHh-------------HH-----HHHHHHHHHHHHCCCEEEEECCCH--------HHHHHhCCEEEE
Confidence            9999999999999841             11     125666666666677777776532        156778888888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       478 l~~  480 (506)
T PRK13549        478 MHE  480 (506)
T ss_pred             EEC
Confidence            874

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=98.53  E-value=5.6e-07  Score=83.54  Aligned_cols=28  Identities=21%  Similarity=0.315  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       359 ~~G~~~~ivG~sGsGKSTL~~ll~g~~~  386 (585)
T TIGR01192       359 KAGQTVAIVGPTGAGKTTLINLLQRVYD  386 (585)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHccCCC
Confidence            6999999999999999999998876554

This model describes glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. The In general, this protein is in some ways implicated in osmoregulation and suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bactrerial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmoadaptaion are related.

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=98.53  E-value=9.8e-07  Score=73.20  Aligned_cols=26  Identities=35%  Similarity=0.416  Sum_probs=23.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|||||||++.++..
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14239         29 YPNEITALIGPSGSGKSTLLRSINRM   54 (252)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            69999999999999999999988753

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.53  E-value=1.2e-06  Score=72.72  Aligned_cols=25  Identities=40%  Similarity=0.658  Sum_probs=23.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .+|..+.|.||+|||||||++.++.
T Consensus        30 ~~Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14261         30 PKNRVTALIGPSGCGKSTLLRCFNR   54 (253)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhc
Confidence            6999999999999999999998874

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=98.52  E-value=4.3e-07  Score=83.31  Aligned_cols=28  Identities=25%  Similarity=0.224  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       346 ~~G~~~~ivG~sGsGKSTL~~ll~g~~~  373 (529)
T TIGR02857       346 PPGERVALVGPSGAGKSTLLNLLLGFVD  373 (529)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876554

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=98.52  E-value=3.3e-07  Score=78.44  Aligned_cols=75  Identities=20%  Similarity=0.297  Sum_probs=48.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+-..++++|||||||||||+.++....   .....||.      .+...                    .....++++|
T Consensus       160 ~~ipSmIlWGppG~GKTtlArlia~tsk---~~Syrfve------lSAt~--------------------a~t~dvR~if  210 (554)
T KOG2028|consen  160 NRIPSMILWGPPGTGKTTLARLIASTSK---KHSYRFVE------LSATN--------------------AKTNDVRDIF  210 (554)
T ss_pred             CCCCceEEecCCCCchHHHHHHHHhhcC---CCceEEEE------Eeccc--------------------cchHHHHHHH
Confidence            3556789999999999999998876444   22244443      11100                    0145677777


Q ss_pred             HHhccc---CCCCcEEEEeCCCccccc
Q 041690           97 AAFHQH---DKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        97 ~~~~~~---~~~p~iIvIDei~~~~~~  120 (233)
                      +.+...   ..+-.++|||||..|-..
T Consensus       211 e~aq~~~~l~krkTilFiDEiHRFNks  237 (554)
T KOG2028|consen  211 EQAQNEKSLTKRKTILFIDEIHRFNKS  237 (554)
T ss_pred             HHHHHHHhhhcceeEEEeHHhhhhhhh
Confidence            765432   233679999999988773

>TIGR00954 3a01203 Peroxysomal Fatty Acyl CoA Transporter (FAT) Family protei

Probab=98.52  E-value=1.2e-06  Score=82.47  Aligned_cols=41  Identities=22%  Similarity=0.360  Sum_probs=31.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-------CeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-------ANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-------~~v~yi~~e   57 (233)
                      ++|..+.|.||+|||||||++.++.......|       ..+.|+..+
T Consensus       476 ~~Ge~~~IvG~nGsGKSTLl~lL~Gl~~~~~G~i~~~~~~~i~~v~Q~  523 (659)
T TIGR00954       476 PSGNHLLICGPNGCGKSSLFRILGELWPVYGGRLTKPAKGKLFYVPQR  523 (659)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCeEeecCCCcEEEECCC
Confidence            69999999999999999999988875542222       235666655

>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends

Probab=98.52  E-value=1.9e-06  Score=69.85  Aligned_cols=25  Identities=28%  Similarity=0.579  Sum_probs=22.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .+|..+.|.||+|||||||+..++.
T Consensus        26 ~~~~~~~i~G~NGsGKSTll~~i~~   50 (213)
T cd03279          26 DNNGLFLICGPTGAGKSTILDAITY   50 (213)
T ss_pred             CccCEEEEECCCCCCHHHHHHHhee
Confidence            4578999999999999999998764

They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.52  E-value=1.3e-06  Score=73.17  Aligned_cols=26  Identities=31%  Similarity=0.547  Sum_probs=24.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|||||||++.++..
T Consensus        45 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl   70 (268)
T PRK14248         45 EKHAVTALIGPSGCGKSTFLRSINRM   70 (268)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            69999999999999999999988764

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=98.52  E-value=7.1e-07  Score=82.55  Aligned_cols=28  Identities=18%  Similarity=0.162  Sum_probs=25.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|+|||||++.++....
T Consensus       356 ~~G~~v~IvG~sGsGKSTLl~lL~gl~~  383 (571)
T TIGR02203       356 EPGETVALVGRSGSGKSTLVNLIPRFYE  383 (571)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhccC
Confidence            6999999999999999999998876554

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>cd03291 ABCC_CFTR1 The CFTR subfamily domain 1

Probab=98.52  E-value=1.2e-06  Score=74.00  Aligned_cols=41  Identities=20%  Similarity=0.268  Sum_probs=31.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-----CeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-----ANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-----~~v~yi~~e   57 (233)
                      .+|..+.|.||+|+|||||++.++.......|     ..+.|+..+
T Consensus        61 ~~Ge~~~liG~NGsGKSTLl~~I~Gl~~p~~G~I~i~g~i~yv~q~  106 (282)
T cd03291          61 EKGEMLAITGSTGSGKTSLLMLILGELEPSEGKIKHSGRISFSSQF  106 (282)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCEEEEEeCc
Confidence            69999999999999999999988765442223     235666655

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits, or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.52  E-value=1.7e-06  Score=71.65  Aligned_cols=27  Identities=33%  Similarity=0.498  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|.++.|.||+|+|||||++.++...
T Consensus        27 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (249)
T PRK14253         27 PARQVTALIGPSGCGKSTLLRCLNRMN   53 (249)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            699999999999999999999887644

>PRK08760 replicative DNA helicase; Provisional

Probab=98.51  E-value=1.7e-06  Score=78.31  Aligned_cols=41  Identities=22%  Similarity=0.337  Sum_probs=37.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..++|.|+||+|||+|+.++|.+.+...|.+|+|++-|
T Consensus       227 ~~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlE  267 (476)
T PRK08760        227 QPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSME  267 (476)
T ss_pred             CCCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEecc
Confidence            69999999999999999999999998885668899999876

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=98.51  E-value=5.5e-07  Score=82.46  Aligned_cols=29  Identities=24%  Similarity=0.109  Sum_probs=25.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus       307 i~~Ge~~~l~G~NGsGKSTLl~~l~Gl~~  335 (520)
T TIGR03269       307 VKEGEIFGIVGTSGAGKTTLSKIIAGVLE  335 (520)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            37999999999999999999998875543

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=98.51  E-value=5.4e-07  Score=84.40  Aligned_cols=141  Identities=13%  Similarity=0.124  Sum_probs=75.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-------CeEEEEecCC--ccccc---ccccccccC-C----chhhhc
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-------ANVVFMCNRS--RLQSK---RPYLSQSID-P----SSHVFK   79 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-------~~v~yi~~e~--~l~~~---~~~~~~~~~-~----~~~~~~   79 (233)
                      .+|..+.|.||+|||||||++.++.......|       .++.|++...  .+...   ...+..... .    ....+.
T Consensus       336 ~~Ge~~~l~G~NGsGKSTLlk~l~G~~~p~~G~i~~~~~~~igy~~Q~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~  415 (638)
T PRK10636        336 VPGSRIGLLGRNGAGKSTLIKLLAGELAPVSGEIGLAKGIKLGYFAQHQLEFLRADESPLQHLARLAPQELEQKLRDYLG  415 (638)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCeEEECCCEEEEEecCcchhhCCccchHHHHHHHhCchhhHHHHHHHHH
Confidence            69999999999999999999988865432222       2455665431  01000   000000000 0    001111


Q ss_pred             ceEE---------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHH
Q 041690           80 LIQM---------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITH  150 (233)
Q Consensus        80 ~i~~---------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~  150 (233)
                      .+.+         ..++.++..+-.++.+-.  ..|.++++||+++-++..             ...     .+.+.+..
T Consensus       416 ~~~l~~~~~~~~~~~LSgGekqRl~La~~l~--~~p~lLlLDEPt~~LD~~-------------~~~-----~l~~~L~~  475 (638)
T PRK10636        416 GFGFQGDKVTEETRRFSGGEKARLVLALIVW--QRPNLLLLDEPTNHLDLD-------------MRQ-----ALTEALID  475 (638)
T ss_pred             HcCCChhHhcCchhhCCHHHHHHHHHHHHHh--cCCCEEEEcCCCCCCCHH-------------HHH-----HHHHHHHH
Confidence            1111         122334444444443332  239999999999999841             111     14555544


Q ss_pred             hhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          151 ANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       151 l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +   +.++|++++.        ...+.++.+.++.+..
T Consensus       476 ~---~gtvi~vSHd--------~~~~~~~~d~i~~l~~  502 (638)
T PRK10636        476 F---EGALVVVSHD--------RHLLRSTTDDLYLVHD  502 (638)
T ss_pred             c---CCeEEEEeCC--------HHHHHHhCCEEEEEEC
Confidence            4   3466666553        2256777888888863

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=98.51  E-value=1.7e-06  Score=71.76  Aligned_cols=26  Identities=31%  Similarity=0.571  Sum_probs=23.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|||||||++.++..
T Consensus        27 ~~Ge~~~i~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14240         27 EENQVTALIGPSGCGKSTFLRTLNRM   52 (250)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            69999999999999999999988753

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=98.51  E-value=6.5e-07  Score=84.93  Aligned_cols=28  Identities=21%  Similarity=0.330  Sum_probs=25.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       505 ~~Ge~vaIvG~SGsGKSTLl~lL~gl~~  532 (711)
T TIGR00958       505 HPGEVVALVGPSGSGKSTVAALLQNLYQ  532 (711)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhccC
Confidence            7999999999999999999998887665

>PRK14244 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.51  E-value=1.1e-06  Score=73.03  Aligned_cols=27  Identities=30%  Similarity=0.471  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        29 ~~Ge~~~I~G~nGsGKSTLl~~i~G~~   55 (251)
T PRK14244         29 YKREVTAFIGPSGCGKSTFLRCFNRMN   55 (251)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            699999999999999999999887653

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.51  E-value=4e-07  Score=80.34  Aligned_cols=39  Identities=21%  Similarity=0.239  Sum_probs=31.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC-CCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS-NANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~-g~~v~yi~~   56 (233)
                      .+..++|+||||+|||++++.++....... +..++|++.
T Consensus        54 ~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~   93 (394)
T PRK00411         54 RPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINC   93 (394)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEEC
Confidence            456789999999999999999998776332 467888864

>PHA02542 41 41 helicase; Provisional

Probab=98.51  E-value=8e-07  Score=80.13  Aligned_cols=179  Identities=11%  Similarity=0.084  Sum_probs=97.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-cc--ccCC------chhh---------
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-SQ--SIDP------SSHV---------   77 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~~--~~~~------~~~~---------   77 (233)
                      ..+|..++|.|+||.|||+|+.++|.+.+ ..|.+|+|++-|..-..-..++ ..  ..+.      .+..         
T Consensus       187 l~~G~LiiIaarPgmGKTtfalniA~~~a-~~g~~Vl~fSLEM~~~ql~~Rl~a~~~~i~~~~l~~l~~~~~~~~~~~~~  265 (473)
T PHA02542        187 AERKTLNVLLAGVNVGKSLGLCSLAADYL-QQGYNVLYISMEMAEEVIAKRIDANLLDVSLDDIDDLSKAEYKAKMEKLR  265 (473)
T ss_pred             CCCCcEEEEEcCCCccHHHHHHHHHHHHH-hcCCcEEEEeccCCHHHHHHHHHHHHcCCCHHHHhhcCHHHHHHHHHHHH
Confidence            36899999999999999999999999988 7799999999662111100111 00  0000      0000         


Q ss_pred             ---hcceEEEE--e--cCHHHHHHHHHHhccc-CCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHH
Q 041690           78 ---FKLIQMKY--V--EDDEEIKKYFAAFHQH-DKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAIT  149 (233)
Q Consensus        78 ---~~~i~~~~--~--~~~~~l~~~~~~~~~~-~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~  149 (233)
                         ..++.+..  .  -....++..+..+... ...+++||||-++-+....   .+ .....+.    ..+..+...++
T Consensus       266 ~~~~~~l~I~~~d~~~lt~~~ir~~~rrlk~~~g~~~dlVvIDYLqL~~~~~---~~-~~~~nr~----~ei~~Isr~LK  337 (473)
T PHA02542        266 SKTQGKLIIKQYPTGGAHAGHFRALLNELKLKKNFKPDVIIVDYLGICASSR---LR-VSSENSY----TYVKAIAEELR  337 (473)
T ss_pred             HHhCCCceeecCCCCCCCHHHHHHHHHHHHHhcCCCCCEEEEechhhccCCc---cc-CCCCChH----HHHHHHHHHHH
Confidence               01222211  1  1133555555444322 2238999999997765311   00 0111121    23344555566


Q ss_pred             Hhhh-cCCcEEEEeecCCC----CCchhHH-----HHHHhhccceEEEec------CCccEEEeeccCcc
Q 041690          150 HANK-KSPCKLLLSDTHLG----NSTRLLY-----IYKRWISSIFTVKGD------GPGSFLLRNKNYSR  203 (233)
Q Consensus       150 ~l~~-~~~~vlvi~~~~~~----~~~~~~~-----~~~~~~~~~~~i~~~------~~~~~~l~~~~~~~  203 (233)
                      .+++ .+++|++++..|+.    ..|.+.-     .++...|.++.+..+      +..+.++.++++.+
T Consensus       338 ~lAkel~vpVi~lsQLnR~~e~r~dP~lsDLreSG~IEqdAD~vl~l~r~~~~~~~~~~eliv~KnR~G~  407 (473)
T PHA02542        338 GLAVEHDVVVWTAAQTTRSGWDSSDVDMSDTAESAGLPATADFMLAVIETEELAQMGQQLVKQLKSRYGD  407 (473)
T ss_pred             HHHHHhCCeEEEEEeeCccccccCCCcchhcccccchHhhcCEEEEEecCcccccCCeEEEEEecCCCCC
Confidence            5544 47777778877643    1132111     245566777777542      23457788888765

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.51  E-value=1.4e-06  Score=72.26  Aligned_cols=26  Identities=38%  Similarity=0.592  Sum_probs=23.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|||||||++.++..
T Consensus        27 ~~Ge~~~i~G~nGsGKSTLl~~i~Gl   52 (250)
T PRK14262         27 FKNQITAIIGPSGCGKTTLLRSINRM   52 (250)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            69999999999999999999988753

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.50  E-value=8.7e-07  Score=73.87  Aligned_cols=26  Identities=27%  Similarity=0.516  Sum_probs=23.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|+|||||++.++..
T Consensus        36 ~~Ge~~~i~G~nGsGKSTLl~~i~Gl   61 (258)
T PRK14268         36 PKNSVTALIGPSGCGKSTFIRCLNRM   61 (258)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            69999999999999999999988754

>TIGR00763 lon ATP-dependent protease La

Probab=98.50  E-value=5.3e-07  Score=86.20  Aligned_cols=34  Identities=38%  Similarity=0.417  Sum_probs=26.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ++.+++++||||||||++++.++....    .+++.++
T Consensus       346 ~~~~lll~GppG~GKT~lAk~iA~~l~----~~~~~i~  379 (775)
T TIGR00763       346 KGPILCLVGPPGVGKTSLGKSIAKALN----RKFVRFS  379 (775)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhc----CCeEEEe
Confidence            566899999999999999998887553    4454443

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=98.50  E-value=2.2e-06  Score=71.78  Aligned_cols=26  Identities=35%  Similarity=0.574  Sum_probs=23.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|+|||||++.++..
T Consensus        34 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl   59 (264)
T PRK14243         34 PKNQITAFIGPSGCGKSTILRCFNRL   59 (264)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            79999999999999999999988753

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=98.50  E-value=3.2e-06  Score=68.07  Aligned_cols=61  Identities=11%  Similarity=0.114  Sum_probs=38.9

Q ss_pred             CCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhcc
Q 041690          104 KIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISS  182 (233)
Q Consensus       104 ~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~  182 (233)
                      ..|+++++||+.+-++..             .+.    ..+.+.+..+++. +.+++++++...        .. ...+.
T Consensus       138 ~~p~illlDEP~~~LD~~-------------~~~----~~l~~~l~~~~~~~~~~iiiitH~~~--------~~-~~~d~  191 (204)
T cd03240         138 SNCGILALDEPTTNLDEE-------------NIE----ESLAEIIEERKSQKNFQLIVITHDEE--------LV-DAADH  191 (204)
T ss_pred             cCCCEEEEcCCccccCHH-------------HHH----HHHHHHHHHHHhccCCEEEEEEecHH--------HH-hhCCE
Confidence            349999999999999831             111    0145556555555 667777766421        23 35788


Q ss_pred             ceEEEecC
Q 041690          183 IFTVKGDG  190 (233)
Q Consensus       183 ~~~i~~~~  190 (233)
                      ++.+...+
T Consensus       192 i~~l~~~~  199 (204)
T cd03240         192 IYRVEKDG  199 (204)
T ss_pred             EEEEeeCC
Confidence            88888765

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.50  E-value=4.9e-06  Score=73.15  Aligned_cols=93  Identities=18%  Similarity=0.161  Sum_probs=54.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhh---cCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCAS---QSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIK   93 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~---~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~   93 (233)
                      ..+.+++++||+|+||||.+..+|.....   ..|.+|.+++....-....+.+..+.+..     .+-+........+.
T Consensus       172 ~~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~l-----gvpv~~~~~~~~l~  246 (388)
T PRK12723        172 LKKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIM-----GIPVKAIESFKDLK  246 (388)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcC-----CcceEeeCcHHHHH
Confidence            34678999999999999999999876653   24678888875521111111111111100     11222233345555


Q ss_pred             HHHHHhcccCCCCcEEEEeCCCccc
Q 041690           94 KYFAAFHQHDKIPTAVVVDDFGDLF  118 (233)
Q Consensus        94 ~~~~~~~~~~~~p~iIvIDei~~~~  118 (233)
                      ..+...   . ..++|+||++....
T Consensus       247 ~~L~~~---~-~~DlVLIDTaGr~~  267 (388)
T PRK12723        247 EEITQS---K-DFDLVLVDTIGKSP  267 (388)
T ss_pred             HHHHHh---C-CCCEEEEcCCCCCc
Confidence            555433   2 27999999986554

>PRK14263 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.50  E-value=1.4e-06  Score=72.83  Aligned_cols=27  Identities=30%  Similarity=0.476  Sum_probs=24.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|+|||||++.++...
T Consensus        32 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (261)
T PRK14263         32 RKNEITGFIGPSGCGKSTVLRSLNRMN   58 (261)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHccc
Confidence            799999999999999999999887544

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=98.50  E-value=9.7e-07  Score=81.52  Aligned_cols=28  Identities=21%  Similarity=0.037  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        31 ~~Ge~~~iiG~NGsGKSTLlk~i~G~~~   58 (556)
T PRK11819         31 FPGAKIGVLGLNGAGKSTLLRIMAGVDK   58 (556)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

>PRK14275 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.50  E-value=1.4e-06  Score=73.89  Aligned_cols=26  Identities=27%  Similarity=0.464  Sum_probs=24.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|||||||++.++..
T Consensus        63 ~~Ge~~~l~G~nGsGKSTLl~~L~Gl   88 (286)
T PRK14275         63 LSKYVTAIIGPSGCGKSTFLRAINRM   88 (286)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            79999999999999999999988753

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=98.50  E-value=1.1e-06  Score=73.28  Aligned_cols=27  Identities=26%  Similarity=0.485  Sum_probs=24.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        28 ~~Ge~~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         28 EPRSVTAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            799999999999999999999888654

>PRK04195 replication factor C large subunit; Provisional

Probab=98.50  E-value=1.3e-06  Score=79.20  Aligned_cols=34  Identities=35%  Similarity=0.441  Sum_probs=27.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +...++|+|||||||||++..++...    +..++.++
T Consensus        38 ~~~~lLL~GppG~GKTtla~ala~el----~~~~ieln   71 (482)
T PRK04195         38 PKKALLLYGPPGVGKTSLAHALANDY----GWEVIELN   71 (482)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc----CCCEEEEc
Confidence            36789999999999999999887643    45566664

>PRK13409 putative ATPase RIL; Provisional

Probab=98.49  E-value=6.2e-07  Score=83.17  Aligned_cols=30  Identities=20%  Similarity=0.164  Sum_probs=26.3

Q ss_pred             cCCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           15 ETHVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        15 ~~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ...+|.++.|.||+|+|||||++.++....
T Consensus        95 ~i~~Gev~gLvG~NGaGKSTLlkiL~G~l~  124 (590)
T PRK13409         95 IPKEGKVTGILGPNGIGKTTAVKILSGELI  124 (590)
T ss_pred             cCCCCCEEEEECCCCCCHHHHHHHHhCCcc
Confidence            568999999999999999999998876544

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.49  E-value=5.5e-07  Score=83.33  Aligned_cols=28  Identities=21%  Similarity=0.315  Sum_probs=25.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       339 ~~G~~~~ivG~sGsGKSTLl~ll~g~~~  366 (569)
T PRK10789        339 KPGQMLGICGPTGSGKSTLLSLIQRHFD  366 (569)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            7999999999999999999998876554

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.49  E-value=1.2e-06  Score=75.77  Aligned_cols=27  Identities=26%  Similarity=0.500  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus       106 ~~Ge~v~IvG~~GsGKSTLl~~L~g~~  132 (329)
T PRK14257        106 KRNKVTAFIGPSGCGKSTFLRNLNQLN  132 (329)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            699999999999999999999887654

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=98.49  E-value=1.5e-06  Score=70.43  Aligned_cols=29  Identities=21%  Similarity=0.039  Sum_probs=25.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|..+.|.||+|||||||++.++....
T Consensus        10 i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~   38 (213)
T PRK15177         10 MGYHEHIGILAAPGSGKTTLTRLLCGLDA   38 (213)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCcc
Confidence            46899999999999999999998876544

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=98.49  E-value=2e-06  Score=72.27  Aligned_cols=27  Identities=26%  Similarity=0.560  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        48 ~~Ge~~~I~G~nGsGKSTLl~~i~Gl~   74 (271)
T PRK14238         48 HENEVTAIIGPSGCGKSTYIKTLNRMV   74 (271)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            699999999999999999999988654

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.49  E-value=3.7e-06  Score=73.25  Aligned_cols=95  Identities=15%  Similarity=0.197  Sum_probs=58.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++.+++|.||+||||||++..++.... ..|.+|.+++....-....+.+....+..     .+.+........+...+
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~~l~-~~g~~V~lItaDtyR~gAveQLk~yae~l-----gvpv~~~~dp~dL~~al  277 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGWQLL-KQNRTVGFITTDTFRSGAVEQFQGYADKL-----DVELIVATSPAELEEAV  277 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEeCCccCccHHHHHHHHhhcC-----CCCEEecCCHHHHHHHH
Confidence            5789999999999999999999998776 66889999986521111111222111110     11112223455666655


Q ss_pred             HHhcccCCCCcEEEEeCCCccc
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLF  118 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~  118 (233)
                      ..+... ...++|+||......
T Consensus       278 ~~l~~~-~~~D~VLIDTAGr~~  298 (407)
T PRK12726        278 QYMTYV-NCVDHILIDTVGRNY  298 (407)
T ss_pred             HHHHhc-CCCCEEEEECCCCCc
Confidence            544311 227999999986654

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=98.49  E-value=3.7e-06  Score=65.11  Aligned_cols=24  Identities=29%  Similarity=0.450  Sum_probs=22.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a   40 (233)
                      .+|..+.|.||+|+|||||+.-+|
T Consensus        34 ~~Ge~vaiVG~SGSGKSTLl~vlA   57 (228)
T COG4181          34 KRGETVAIVGPSGSGKSTLLAVLA   57 (228)
T ss_pred             cCCceEEEEcCCCCcHHhHHHHHh
Confidence            699999999999999999998665

>PRK09165 replicative DNA helicase; Provisional

Probab=98.49  E-value=1.7e-06  Score=78.66  Aligned_cols=41  Identities=32%  Similarity=0.506  Sum_probs=36.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc--------------CCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ--------------SNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~--------------~g~~v~yi~~e   57 (233)
                      .+|..++|.|+||+|||+|+.+++.+.+..              .|.+|+|++-|
T Consensus       215 ~~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlE  269 (497)
T PRK09165        215 HPSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLE  269 (497)
T ss_pred             CCCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCc
Confidence            699999999999999999999999988743              26889999977

>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.49  E-value=2.1e-06  Score=71.27  Aligned_cols=27  Identities=30%  Similarity=0.493  Sum_probs=24.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|+|||||++.++...
T Consensus        28 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~   54 (252)
T PRK14272         28 QRGTVNALIGPSGCGKTTFLRAINRMH   54 (252)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            699999999999999999999888654

>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.49  E-value=1.9e-06  Score=71.53  Aligned_cols=27  Identities=33%  Similarity=0.473  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|+|||||++.++...
T Consensus        28 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~   54 (251)
T PRK14270         28 YENKITALIGPSGCGKSTFLRCLNRMN   54 (251)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            699999999999999999999888643

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.48  E-value=1.8e-06  Score=76.92  Aligned_cols=41  Identities=24%  Similarity=0.302  Sum_probs=35.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh-hcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA-SQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~-~~~g~~v~yi~~e   57 (233)
                      .++.+++|.||+|+||||++..+|...+ ...+.+|.+++..
T Consensus       219 ~~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D  260 (424)
T PRK05703        219 KQGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLD  260 (424)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence            4578999999999999999999988776 4567899999865

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=98.48  E-value=1.6e-06  Score=70.38  Aligned_cols=24  Identities=33%  Similarity=0.512  Sum_probs=21.5

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +.++|+||+|+|||||+++++...
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~~~   53 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVALIV   53 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHHHH
Confidence            789999999999999999998543

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.48  E-value=2.6e-06  Score=68.76  Aligned_cols=57  Identities=12%  Similarity=0.138  Sum_probs=41.4

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++-                  -.|..+-+.+..++..+..+++||+..+        ++.+.-+...+
T Consensus       163 Pkl~ILDE~DSGLDI------------------dalk~V~~~i~~lr~~~~~~liITHy~r--------ll~~i~pD~vh  216 (251)
T COG0396         163 PKLAILDEPDSGLDI------------------DALKIVAEGINALREEGRGVLIITHYQR--------LLDYIKPDKVH  216 (251)
T ss_pred             CCEEEecCCCcCccH------------------HHHHHHHHHHHHHhcCCCeEEEEecHHH--------HHhhcCCCEEE
Confidence            999999999999983                  2333466777778888999999987642        55665555666


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +--
T Consensus       217 vl~  219 (251)
T COG0396         217 VLY  219 (251)
T ss_pred             EEE
Confidence            554

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.48  E-value=2e-06  Score=71.33  Aligned_cols=25  Identities=28%  Similarity=0.594  Sum_probs=23.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .+|..+.|.||+|+|||||++.++.
T Consensus        27 ~~Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14245         27 EEKSVVAFIGPSGCGKSTFLRLFNR   51 (250)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhh
Confidence            6999999999999999999998874

>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family

Probab=98.48  E-value=8.1e-07  Score=84.11  Aligned_cols=28  Identities=18%  Similarity=0.199  Sum_probs=25.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       481 ~~G~~vaivG~sGsGKSTL~~ll~g~~~  508 (694)
T TIGR01846       481 KPGEFIGIVGPSGSGKSTLTKLLQRLYT  508 (694)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876554

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=98.48  E-value=2e-07  Score=74.64  Aligned_cols=39  Identities=28%  Similarity=0.394  Sum_probs=30.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+.++|.||||||||+++..+...+. ..|.+|++++..
T Consensus        17 ~~~~~~l~G~aGtGKT~~l~~~~~~~~-~~g~~v~~~apT   55 (196)
T PF13604_consen   17 GDRVSVLQGPAGTGKTTLLKALAEALE-AAGKRVIGLAPT   55 (196)
T ss_dssp             TCSEEEEEESTTSTHHHHHHHHHHHHH-HTT--EEEEESS
T ss_pred             CCeEEEEEECCCCCHHHHHHHHHHHHH-hCCCeEEEECCc
Confidence            456899999999999999999887777 567888888644

>PRK14258 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.48  E-value=1.3e-06  Score=72.97  Aligned_cols=28  Identities=25%  Similarity=0.414  Sum_probs=25.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        31 ~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~   58 (261)
T PRK14258         31 YQSKVTAIIGPSGCGKSTFLKCLNRMNE   58 (261)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcccC
Confidence            7999999999999999999998886554

>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]

Probab=98.47  E-value=1.2e-06  Score=77.61  Aligned_cols=126  Identities=12%  Similarity=0.148  Sum_probs=73.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC-ccccc-------ccccccccC--CchhhhcceEEEE
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS-RLQSK-------RPYLSQSID--PSSHVFKLIQMKY   85 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~-~l~~~-------~~~~~~~~~--~~~~~~~~i~~~~   85 (233)
                      ..+|.+-.|.|.+|+|||||...+.-...  ....-+|++... .+...       -..+.|.+.  +.-.+.+||.+..
T Consensus        27 v~~GeIHaLLGENGAGKSTLm~iL~G~~~--P~~GeI~v~G~~v~~~sP~dA~~~GIGMVhQHF~Lv~~lTV~ENiiLg~  104 (501)
T COG3845          27 VKKGEIHALLGENGAGKSTLMKILFGLYQ--PDSGEIRVDGKEVRIKSPRDAIRLGIGMVHQHFMLVPTLTVAENIILGL  104 (501)
T ss_pred             ecCCcEEEEeccCCCCHHHHHHHHhCccc--CCcceEEECCEEeccCCHHHHHHcCCcEEeeccccccccchhhhhhhcC
Confidence            37999999999999999999997765444  233345554431 11111       111222221  2233344444311


Q ss_pred             e------------------------------------cCHH-HHHHHHHHhcccCCCCcEEEEeCCCccccccccccccC
Q 041690           86 V------------------------------------EDDE-EIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYT  128 (233)
Q Consensus        86 ~------------------------------------~~~~-~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~  128 (233)
                      .                                    +-.+ +-.+++..+.   ..++++++||+++.+..        
T Consensus       105 e~~~~~~~~~~~~~~~i~~l~~~yGl~vdp~~~V~dLsVG~qQRVEIlKaLy---r~a~iLILDEPTaVLTP--------  173 (501)
T COG3845         105 EPSKGGLIDRRQARARIKELSERYGLPVDPDAKVADLSVGEQQRVEILKALY---RGARLLILDEPTAVLTP--------  173 (501)
T ss_pred             ccccccccCHHHHHHHHHHHHHHhCCCCCccceeecCCcchhHHHHHHHHHh---cCCCEEEEcCCcccCCH--------
Confidence            1                                    0011 1112222221   12899999999999984        


Q ss_pred             CcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeec
Q 041690          129 NPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDT  164 (233)
Q Consensus       129 ~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~  164 (233)
                          .      ....++..++.+++.|.++++|++-
T Consensus       174 ----~------E~~~lf~~l~~l~~~G~tIi~ITHK  199 (501)
T COG3845         174 ----Q------EADELFEILRRLAAEGKTIIFITHK  199 (501)
T ss_pred             ----H------HHHHHHHHHHHHHHCCCEEEEEecc
Confidence                1      1223788888999999999999874

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=98.47  E-value=1.5e-06  Score=79.18  Aligned_cols=142  Identities=13%  Similarity=0.157  Sum_probs=84.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-------CCCeEEEEecCCcccccccccccccC-----------------
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-------SNANVVFMCNRSRLQSKRPYLSQSID-----------------   72 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-------~g~~v~yi~~e~~l~~~~~~~~~~~~-----------------   72 (233)
                      .+|..+.|.|++|+|||||++.++......       .+.++.|+.++..+......+...+.                 
T Consensus        27 ~~G~riGLvG~NGaGKSTLLkilaG~~~~~~G~i~~~~~~~v~~l~Q~~~~~~~~tv~~~v~~~~~~~~~~~~~~~~~~~  106 (530)
T COG0488          27 NPGERIGLVGRNGAGKSTLLKILAGELEPDSGEVTRPKGLRVGYLSQEPPLDPEKTVLDYVIEGFGELRELLAELEEAYA  106 (530)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHcCCCcCCCCeEeecCCceEEEeCCCCCcCCCccHHHHHHhhhHHHHHHHHHHHHHHH
Confidence            699999999999999999999887655422       23467888776433221100000000                 


Q ss_pred             ---------------------------CchhhhcceEE-------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccc
Q 041690           73 ---------------------------PSSHVFKLIQM-------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLF  118 (233)
Q Consensus        73 ---------------------------~~~~~~~~i~~-------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~  118 (233)
                                                 ....++..+.+       ..++.+...+-.++.+-..  .|+++++||++..+
T Consensus       107 ~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~L~gLg~~~~~~~~~~LSGG~r~Rv~LA~aL~~--~pDlLLLDEPTNHL  184 (530)
T COG0488         107 LLADPDDELLAELEALLEELDGWTLEARAEEALLGLGFPDEDRPVSSLSGGWRRRVALARALLE--EPDLLLLDEPTNHL  184 (530)
T ss_pred             hcccchhHHHHHHHHHHHhhcccchHHHHHHHHhcCCCCcccCchhhcCHHHHHHHHHHHHHhc--CCCEEEEcCCCccc
Confidence                                       00011111111       2234455666666654422  39999999999999


Q ss_pred             cccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEec
Q 041690          119 DDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      +..            ...|      +-+.+   +....++|+|++-        .+.+.+.+.++++++..
T Consensus       185 D~~------------~i~W------Le~~L---~~~~gtviiVSHD--------R~FLd~V~t~I~~ld~g  226 (530)
T COG0488         185 DLE------------SIEW------LEDYL---KRYPGTVIVVSHD--------RYFLDNVATHILELDRG  226 (530)
T ss_pred             CHH------------HHHH------HHHHH---HhCCCcEEEEeCC--------HHHHHHHhhheEEecCC
Confidence            941            1111      22333   3333378888763        34899999999999863

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=98.47  E-value=5.1e-07  Score=76.32  Aligned_cols=41  Identities=24%  Similarity=0.354  Sum_probs=34.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi~~e   57 (233)
                      .++.+++|.||+|+||||++..++...... .+.+|.+|+..
T Consensus       192 ~~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D  233 (282)
T TIGR03499       192 EQGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTD  233 (282)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECC
Confidence            467899999999999999999999888744 34899999865

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=98.47  E-value=1.4e-06  Score=81.63  Aligned_cols=28  Identities=32%  Similarity=0.382  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus       343 ~~Ge~~~l~G~NGsGKSTLlk~l~G~~~  370 (635)
T PRK11147        343 QRGDKIALIGPNGCGKTTLLKLMLGQLQ  370 (635)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            6999999999999999999998876543

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=98.47  E-value=2.6e-06  Score=71.45  Aligned_cols=27  Identities=30%  Similarity=0.374  Sum_probs=24.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        44 ~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   70 (267)
T PRK14237         44 EKNKITALIGPSGSGKSTYLRSLNRMN   70 (267)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            699999999999999999999887654

>PLN03211 ABC transporter G-25; Provisional

Probab=98.47  E-value=9e-07  Score=83.12  Aligned_cols=27  Identities=30%  Similarity=0.354  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|+|||||++.++...
T Consensus        92 ~~Ge~~aI~GpnGaGKSTLL~iLaG~~  118 (659)
T PLN03211         92 SPGEILAVLGPSGSGKSTLLNALAGRI  118 (659)
T ss_pred             ECCEEEEEECCCCCCHHHHHHHHhCCC
Confidence            699999999999999999999887654

>PRK06620 hypothetical protein; Validated

Probab=98.47  E-value=6.4e-07  Score=72.69  Aligned_cols=22  Identities=32%  Similarity=0.394  Sum_probs=18.8

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ..+.|+||||||||+|+..++.
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~   66 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQN   66 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHh
Confidence            5689999999999999995443

>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.46  E-value=1.8e-06  Score=72.07  Aligned_cols=27  Identities=22%  Similarity=0.475  Sum_probs=24.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        31 ~~Ge~~~l~G~nGsGKSTLlk~l~Gl~   57 (259)
T PRK14260         31 YRNKVTAIIGPSGCGKSTFIKTLNRIS   57 (259)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            699999999999999999999988654

>PRK14246 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.46  E-value=2.4e-06  Score=71.30  Aligned_cols=28  Identities=25%  Similarity=0.271  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        34 ~~Ge~~~i~G~nGsGKSTLl~~iaG~~~   61 (257)
T PRK14246         34 PNNSIFGIMGPSGSGKSTLLKVLNRLIE   61 (257)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6999999999999999999998886544

>TIGR01187 potA spermidine/putrescine ABC transporter ATP-binding subunit

Probab=98.46  E-value=5.5e-07  Score=77.68  Aligned_cols=21  Identities=48%  Similarity=0.589  Sum_probs=17.6

Q ss_pred             EEcCCCCcHHHHHHHHHHHhh
Q 041690           24 LSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        24 l~GppGsGKTtLa~~~a~~~~   44 (233)
                      |.||+|||||||++.++....
T Consensus         1 l~G~nGsGKSTLl~~iaGl~~   21 (325)
T TIGR01187         1 LLGPSGCGKTTLLRLLAGFEQ   21 (325)
T ss_pred             CcCCCCCCHHHHHHHHHCCCC
Confidence            579999999999998876543

This model describes spermidine/putrescine ABC transporter, ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Polyamines like spermidine and putrescine play vital role in cell proliferation, differentiation, and ion homeostasis. The concentration of polyamines within the cell are regulated by biosynthesis, degradation and transport (uptake and efflux included).

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=98.46  E-value=9.8e-07  Score=81.71  Aligned_cols=28  Identities=21%  Similarity=0.268  Sum_probs=25.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       364 ~~Ge~i~IvG~sGsGKSTLlklL~gl~~  391 (576)
T TIGR02204       364 RPGETVALVGPSGAGKSTLFQLLLRFYD  391 (576)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhccC
Confidence            7999999999999999999999887665

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.46  E-value=1.9e-06  Score=71.48  Aligned_cols=26  Identities=35%  Similarity=0.569  Sum_probs=23.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|+|||||++.++..
T Consensus        29 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14255         29 NQNEITALIGPSGCGKSTYLRTLNRM   54 (252)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            69999999999999999999988753

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=98.46  E-value=1.4e-06  Score=80.00  Aligned_cols=141  Identities=15%  Similarity=0.167  Sum_probs=76.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-------CeEEEEecCCc--ccc---ccccccccc--C-Cc---hhhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-------ANVVFMCNRSR--LQS---KRPYLSQSI--D-PS---SHVF   78 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-------~~v~yi~~e~~--l~~---~~~~~~~~~--~-~~---~~~~   78 (233)
                      .+|..+.|.||+|||||||++.++.......|       .++.|+..+..  +..   ..+.+....  . ..   ...+
T Consensus       343 ~~Ge~~~l~G~NGsGKSTLl~~i~G~~~p~~G~i~~~~~~~i~~~~q~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l  422 (530)
T PRK15064        343 EAGERLAIIGENGVGKTTLLRTLVGELEPDSGTVKWSENANIGYYAQDHAYDFENDLTLFDWMSQWRQEGDDEQAVRGTL  422 (530)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCceEEEEEcccccccCCCCCcHHHHHHHhccCCccHHHHHHHH
Confidence            69999999999999999999988754431212       23556654421  111   011110000  0 00   1111


Q ss_pred             cceE---------EEEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHH
Q 041690           79 KLIQ---------MKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAIT  149 (233)
Q Consensus        79 ~~i~---------~~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~  149 (233)
                      +.+.         ...++.++..+-.++.+-.  ..|+++++||+++-++..             ....     +++.+.
T Consensus       423 ~~~~l~~~~~~~~~~~LSgGq~qrv~la~al~--~~p~lllLDEPt~~LD~~-------------~~~~-----l~~~l~  482 (530)
T PRK15064        423 GRLLFSQDDIKKSVKVLSGGEKGRMLFGKLMM--QKPNVLVMDEPTNHMDME-------------SIES-----LNMALE  482 (530)
T ss_pred             HHcCCChhHhcCcccccCHHHHHHHHHHHHHh--cCCCEEEEcCCCCCCCHH-------------HHHH-----HHHHHH
Confidence            1111         1223334455545544432  239999999999999841             1111     444454


Q ss_pred             HhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          150 HANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       150 ~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .+   +.++|++++..        ..+..+.+.++.+..
T Consensus       483 ~~---~~tvi~vsHd~--------~~~~~~~d~i~~l~~  510 (530)
T PRK15064        483 KY---EGTLIFVSHDR--------EFVSSLATRIIEITP  510 (530)
T ss_pred             HC---CCEEEEEeCCH--------HHHHHhCCEEEEEEC
Confidence            33   34666665432        156777888888874

>cd01131 PilT Pilus retraction ATPase PilT

Probab=98.45  E-value=2.4e-06  Score=68.47  Aligned_cols=35  Identities=17%  Similarity=0.345  Sum_probs=26.3

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      ..++|.||+||||||++..++.......+..++.+
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~   36 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTI   36 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEE
Confidence            46899999999999999988776663334455544

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.

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=98.45  E-value=1.9e-06  Score=78.39  Aligned_cols=57  Identities=16%  Similarity=0.172  Sum_probs=40.6

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             .+..     +++.+..+++.+.+++++++...        ...++.+.++.
T Consensus       410 p~illLDEPt~gLD~~-------------~~~~-----~~~~l~~l~~~~~tvi~vsHd~~--------~~~~~~d~v~~  463 (491)
T PRK10982        410 PEILMLDEPTRGIDVG-------------AKFE-----IYQLIAELAKKDKGIIIISSEMP--------ELLGITDRILV  463 (491)
T ss_pred             CCEEEEcCCCcccChh-------------HHHH-----HHHHHHHHHHCCCEEEEECCChH--------HHHhhCCEEEE
Confidence            9999999999999842             1112     56666666667778777765321        56678899988


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       464 l~~  466 (491)
T PRK10982        464 MSN  466 (491)
T ss_pred             EEC
Confidence            874

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=98.45  E-value=7.2e-07  Score=84.62  Aligned_cols=28  Identities=18%  Similarity=0.158  Sum_probs=25.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       498 ~~G~~vaIvG~SGsGKSTLlklL~gl~~  525 (708)
T TIGR01193       498 KMNSKTTIVGMSGSGKSTLAKLLVGFFQ  525 (708)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            7999999999999999999998876554

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.45  E-value=5.6e-07  Score=82.83  Aligned_cols=35  Identities=40%  Similarity=0.467  Sum_probs=30.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ++..+.||+||||-||||||+-+|.    +.|.+|+-|.
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAk----qaGYsVvEIN  358 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAK----QAGYSVVEIN  358 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHH----hcCceEEEec
Confidence            5777899999999999999997665    6688898885

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=98.45  E-value=8.3e-07  Score=78.70  Aligned_cols=26  Identities=35%  Similarity=0.300  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +...++|+||||||||++|+.++...
T Consensus       107 ~~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342        107 QKSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            56789999999999999999887643

>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=98.45  E-value=3.3e-06  Score=65.96  Aligned_cols=36  Identities=22%  Similarity=0.319  Sum_probs=31.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++++.||||+||||++..++..++ +.|.++++++..
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~-~~g~~v~~i~~D   37 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLK-KKGKKVLLVAAD   37 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEEcC
Confidence            578999999999999999998887 668899999855

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.

>PRK14271 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.44  E-value=2.3e-06  Score=72.16  Aligned_cols=28  Identities=29%  Similarity=0.355  Sum_probs=25.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|+|||||++.++....
T Consensus        45 ~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~   72 (276)
T PRK14271         45 PARAVTSLMGPTGSGKTTFLRTLNRMND   72 (276)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            6999999999999999999998876543

>PLN03025 replication factor C subunit; Provisional

Probab=98.44  E-value=1.9e-06  Score=74.06  Aligned_cols=27  Identities=37%  Similarity=0.535  Sum_probs=23.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ....++++|||||||||+++.++..+.
T Consensus        33 ~~~~lll~Gp~G~GKTtla~~la~~l~   59 (319)
T PLN03025         33 NMPNLILSGPPGTGKTTSILALAHELL   59 (319)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHh
Confidence            345689999999999999999998765

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=98.44  E-value=1.5e-06  Score=79.69  Aligned_cols=27  Identities=15%  Similarity=0.046  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus       310 ~~Ge~~~i~G~nGsGKSTLlk~l~Gl~  336 (529)
T PRK15134        310 RPGETLGLVGESGSGKSTTGLALLRLI  336 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCcC
Confidence            799999999999999999999887644

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=98.44  E-value=1.6e-06  Score=80.02  Aligned_cols=141  Identities=14%  Similarity=0.188  Sum_probs=75.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-------CeEEEEecCC-ccccc---ccccccc-----cCC----chh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-------ANVVFMCNRS-RLQSK---RPYLSQS-----IDP----SSH   76 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-------~~v~yi~~e~-~l~~~---~~~~~~~-----~~~----~~~   76 (233)
                      .+|..+.|.||+|||||||++.++.......|       ..+.|+..+. .+...   .+.+...     ...    ...
T Consensus       346 ~~Ge~~~l~G~NGsGKSTLl~~l~G~~~p~~G~i~~~~~~~i~~v~q~~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~~~  425 (552)
T TIGR03719       346 PPGGIVGVIGPNGAGKSTLFRMITGQEQPDSGTIKIGETVKLAYVDQSRDALDPNKTVWEEISGGLDIIQLGKREVPSRA  425 (552)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCCCCCCCeEEEECCceEEEEEeCCccccCCCCcHHHHHHhhccccccCcchHHHHH
Confidence            69999999999999999999988754331212       1356665542 11110   0000000     000    001


Q ss_pred             hhcceEE---------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHH
Q 041690           77 VFKLIQM---------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNA  147 (233)
Q Consensus        77 ~~~~i~~---------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  147 (233)
                      .++.+.+         ..++.++..+-.++.+-.  ..|+++++||+++-++..             ....     +++.
T Consensus       426 ~l~~~~l~~~~~~~~~~~LSgGe~qrv~la~al~--~~p~lllLDEPt~~LD~~-------------~~~~-----l~~~  485 (552)
T TIGR03719       426 YVGRFNFKGSDQQKKVGQLSGGERNRVHLAKTLK--SGGNVLLLDEPTNDLDVE-------------TLRA-----LEEA  485 (552)
T ss_pred             HHHhCCCChhHhcCchhhCCHHHHHHHHHHHHHh--hCCCEEEEeCCCCCCCHH-------------HHHH-----HHHH
Confidence            1121111         122333444444444332  239999999999999841             1111     4555


Q ss_pred             HHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          148 ITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       148 ~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +..+   +.+++++++..        ..+.++.+.++.+..
T Consensus       486 l~~~---~~~viivsHd~--------~~~~~~~d~i~~l~~  515 (552)
T TIGR03719       486 LLEF---AGCAVVISHDR--------WFLDRIATHILAFEG  515 (552)
T ss_pred             HHHC---CCeEEEEeCCH--------HHHHHhCCEEEEEEC
Confidence            5444   23566554421        156778898888874

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.44  E-value=1.7e-06  Score=69.25  Aligned_cols=37  Identities=22%  Similarity=0.351  Sum_probs=30.9

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++++.||+|+||||.+..+|.....+ +.+|..++..
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D   38 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLK-GKKVALISAD   38 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEES
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhc-cccceeecCC
Confidence            578999999999999999999888855 9999999865

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PRK08506 replicative DNA helicase; Provisional

Probab=98.43  E-value=2.5e-06  Score=77.17  Aligned_cols=40  Identities=20%  Similarity=0.418  Sum_probs=37.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..++|.|+||.|||+|+.+++.+++ ..|.+|+|++-|
T Consensus       190 ~~G~LivIaarpg~GKT~fal~ia~~~~-~~g~~V~~fSlE  229 (472)
T PRK08506        190 NKGDLIIIAARPSMGKTTLCLNMALKAL-NQDKGVAFFSLE  229 (472)
T ss_pred             CCCceEEEEcCCCCChHHHHHHHHHHHH-hcCCcEEEEeCc
Confidence            6999999999999999999999999887 678899999977

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.43  E-value=1.3e-06  Score=76.23  Aligned_cols=28  Identities=32%  Similarity=0.386  Sum_probs=26.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|...+|+||||+|||||+++++....
T Consensus       167 GkGQR~lIvgppGvGKTTLaK~Ian~I~  194 (416)
T PRK09376        167 GKGQRGLIVAPPKAGKTVLLQNIANSIT  194 (416)
T ss_pred             ccCceEEEeCCCCCChhHHHHHHHHHHH
Confidence            5999999999999999999999888777

>PRK06321 replicative DNA helicase; Provisional

Probab=98.43  E-value=2.2e-06  Score=77.27  Aligned_cols=41  Identities=24%  Similarity=0.301  Sum_probs=37.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..++|.|.||.|||+|+.+++..++...|.+|+|++-|
T Consensus       224 ~~G~LiiiaarPgmGKTafal~ia~~~a~~~g~~v~~fSLE  264 (472)
T PRK06321        224 SPSNLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSLE  264 (472)
T ss_pred             CCCcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEecc
Confidence            69999999999999999999999998886668899999877

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=98.43  E-value=8.2e-07  Score=84.17  Aligned_cols=87  Identities=17%  Similarity=0.229  Sum_probs=48.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecC-HHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVED-DEEIKKYF   96 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~-~~~l~~~~   96 (233)
                      ....++|+||||||||+++..++.... ..+.+..+....- +......+-.+            ..|... ...++.++
T Consensus       206 ~~~n~LLvGppGvGKT~lae~la~~i~-~~~vP~~l~~~~~-~~l~~~~llaG------------~~~~Ge~e~rl~~l~  271 (758)
T PRK11034        206 RKNNPLLVGESGVGKTAIAEGLAWRIV-QGDVPEVMADCTI-YSLDIGSLLAG------------TKYRGDFEKRFKALL  271 (758)
T ss_pred             CCCCeEEECCCCCCHHHHHHHHHHHHH-hcCCCchhcCCeE-EeccHHHHhcc------------cchhhhHHHHHHHHH
Confidence            456788999999999999999987665 2221111111000 00000000000            011111 44566676


Q ss_pred             HHhcccCCCCcEEEEeCCCccccc
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      ..+.  ...+.+|||||++.++..
T Consensus       272 ~~l~--~~~~~ILfIDEIh~L~g~  293 (758)
T PRK11034        272 KQLE--QDTNSILFIDEIHTIIGA  293 (758)
T ss_pred             HHHH--hcCCCEEEeccHHHHhcc
Confidence            6554  233789999999999874

>COG4167 SapF ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=98.43  E-value=2.5e-06  Score=66.71  Aligned_cols=37  Identities=14%  Similarity=0.150  Sum_probs=29.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEE
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVF   53 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~y   53 (233)
                      .++|..+.+.|.+|||||||++.++.-.. ..++.+++
T Consensus        36 L~~~QTlaiIG~NGSGKSTLakMlaGmi~-PTsG~il~   72 (267)
T COG4167          36 LREGQTLAIIGENGSGKSTLAKMLAGMIE-PTSGEILI   72 (267)
T ss_pred             ecCCcEEEEEccCCCcHhHHHHHHhcccC-CCCceEEE
Confidence            37899999999999999999999987666 44444444

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.43  E-value=3e-06  Score=70.29  Aligned_cols=27  Identities=30%  Similarity=0.470  Sum_probs=24.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|+|||||++.++...
T Consensus        28 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   54 (251)
T PRK14251         28 EEKELTALIGPSGCGKSTFLRCLNRMN   54 (251)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            799999999999999999999888654

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=98.42  E-value=6e-06  Score=64.02  Aligned_cols=28  Identities=21%  Similarity=0.452  Sum_probs=23.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS   45 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~   45 (233)
                      ++..++|.||+|+|||+++++++.....
T Consensus        20 ~~~~~~i~G~NgsGKS~~l~~i~~~~~~   47 (162)
T cd03227          20 EGSLTIITGPNGSGKSTILDAIGLALGG   47 (162)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3479999999999999999998776653

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=98.42  E-value=1.5e-06  Score=78.42  Aligned_cols=28  Identities=29%  Similarity=0.290  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.|++|||||||+..++....
T Consensus       345 ~~g~~talvG~SGaGKSTLl~lL~G~~~  372 (559)
T COG4988         345 KAGQLTALVGASGAGKSTLLNLLLGFLA  372 (559)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCcCC
Confidence            6999999999999999999998876555

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=98.42  E-value=2.4e-06  Score=78.84  Aligned_cols=28  Identities=21%  Similarity=0.037  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        29 ~~Ge~~~liG~NGsGKSTLl~~i~G~~~   56 (552)
T TIGR03719        29 FPGAKIGVLGLNGAGKSTLLRIMAGVDK   56 (552)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999998876543

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.42  E-value=1.1e-06  Score=84.53  Aligned_cols=81  Identities=21%  Similarity=0.310  Sum_probs=52.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc------CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEec-CHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ------SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVE-DDE   90 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~------~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~   90 (233)
                      ....++|+||||||||+++..+|......      .+..++.++...       .+. +.            .|.. ..+
T Consensus       199 ~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~-------l~a-g~------------~~~ge~e~  258 (821)
T CHL00095        199 TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGL-------LLA-GT------------KYRGEFEE  258 (821)
T ss_pred             ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHH-------Hhc-cC------------CCccHHHH
Confidence            55678999999999999999999877621      134444443110       000 00            0111 145


Q ss_pred             HHHHHHHHhcccCCCCcEEEEeCCCccccc
Q 041690           91 EIKKYFAAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        91 ~l~~~~~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      .++.++..+.  ...+.++||||++.+...
T Consensus       259 rl~~i~~~~~--~~~~~ILfiDEih~l~~~  286 (821)
T CHL00095        259 RLKRIFDEIQ--ENNNIILVIDEVHTLIGA  286 (821)
T ss_pred             HHHHHHHHHH--hcCCeEEEEecHHHHhcC
Confidence            7777887664  334789999999999874

>PRK09087 hypothetical protein; Validated

Probab=98.42  E-value=2.1e-06  Score=70.26  Aligned_cols=32  Identities=25%  Similarity=0.485  Sum_probs=24.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+..+.|+||+|||||+|++.++..      ..+.|++
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~------~~~~~i~   74 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREK------SDALLIH   74 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHh------cCCEEec
Confidence            4556999999999999999966542      2355775

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.42  E-value=8.7e-06  Score=69.92  Aligned_cols=40  Identities=18%  Similarity=0.212  Sum_probs=34.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++.+++|.||||+||||++..+|.... ..|.+|..++..
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~-~~g~~V~Li~~D  151 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYK-AQGKKVLLAAGD  151 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH-hcCCeEEEEecC
Confidence            4688999999999999999999998887 668889988754

>KOG0057 consensus Mitochondrial Fe/S cluster exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.42  E-value=4.2e-06  Score=75.05  Aligned_cols=37  Identities=14%  Similarity=0.126  Sum_probs=29.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ++|..+.|.|+|||||||+++.+..-.. ..|  -++|++
T Consensus       376 ~kGekVaIvG~nGsGKSTilr~LlrF~d-~sG--~I~IdG  412 (591)
T KOG0057|consen  376 PKGEKVAIVGSNGSGKSTILRLLLRFFD-YSG--SILIDG  412 (591)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHhc-cCC--cEEECC
Confidence            6999999999999999999998876555 323  344554

>PRK10535 macrolide transporter ATP-binding /permease protein; Provisional

Probab=98.42  E-value=1.7e-06  Score=81.23  Aligned_cols=28  Identities=14%  Similarity=0.192  Sum_probs=25.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        32 ~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~   59 (648)
T PRK10535         32 YAGEMVAIVGASGSGKSTLMNILGCLDK   59 (648)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998886654

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=98.42  E-value=2.4e-06  Score=67.75  Aligned_cols=23  Identities=26%  Similarity=0.504  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|+||+|+||||++++++...
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~~~   23 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGLIV   23 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHH
Confidence            36899999999999999998544

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=1.5e-06  Score=77.81  Aligned_cols=27  Identities=22%  Similarity=0.258  Sum_probs=23.2

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCAS   45 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~   45 (233)
                      +..++++|||||||||+|+.+|..+..
T Consensus        40 ~ha~Lf~GP~GtGKTTlAriLAk~Lnc   66 (484)
T PRK14956         40 GHAYIFFGPRGVGKTTIARILAKRLNC   66 (484)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence            345899999999999999999987663

>cd03239 ABC_SMC_head The structural maintenance of chromosomes (SMC) proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms

Probab=98.41  E-value=1.2e-05  Score=63.48  Aligned_cols=25  Identities=16%  Similarity=0.393  Sum_probs=21.4

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ....|+||+|+|||+++.++.....
T Consensus        23 ~~~~i~G~NGsGKSnil~Ai~~~~~   47 (178)
T cd03239          23 SFNAIVGPNGSGKSNIVDAICFVLG   47 (178)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHcC
Confidence            3899999999999999998876544

SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and each has five distinct domains: amino- and carboxy-terminal globular domains, which contain sequences characteristic of ATPases, two coiled-coil regions separating the terminal domains , and a central flexible hinge. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair, and epigenetic silencing of gene expression.

>COG4161 ArtP ABC-type arginine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.41  E-value=4.5e-06  Score=64.08  Aligned_cols=72  Identities=8%  Similarity=0.162  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCC
Q 041690           89 DEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGN  168 (233)
Q Consensus        89 ~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~  168 (233)
                      +...+-.++.+.+.+  |.++++||+++.++.             +...+     +.+.++.+...|.+-+++++.-.  
T Consensus       145 gqqqrvaiaralmmk--pqvllfdeptaaldp-------------eitaq-----vv~iikel~~tgitqvivthev~--  202 (242)
T COG4161         145 GQQQRVAIARALMME--PQVLLFDEPTAALDP-------------EITAQ-----IVSIIKELAETGITQVIVTHEVE--  202 (242)
T ss_pred             chhhhHHHHHHHhcC--CcEEeecCcccccCH-------------HHHHH-----HHHHHHHHHhcCceEEEEEeehh--
Confidence            334444444433323  999999999999983             22223     66778888888999888866432  


Q ss_pred             CchhHHHHHHhhccceEEEe
Q 041690          169 STRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~  188 (233)
                            +.+..-.++++++.
T Consensus       203 ------va~k~as~vvyme~  216 (242)
T COG4161         203 ------VARKTASRVVYMEN  216 (242)
T ss_pred             ------HHHhhhhheEeeec
Confidence                  22334456777764

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.41  E-value=1.8e-06  Score=81.73  Aligned_cols=124  Identities=12%  Similarity=0.187  Sum_probs=65.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc---C---CCeEEEEecCCcccccccc----cccccCCchhhhcceEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ---S---NANVVFMCNRSRLQSKRPY----LSQSIDPSSHVFKLIQMKYVE   87 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~---~---g~~v~yi~~e~~l~~~~~~----~~~~~~~~~~~~~~i~~~~~~   87 (233)
                      ++..+.|+|+||||||+.++.++..+...   .   ...++||.... +......    +.+..+..       -..-..
T Consensus       780 pnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~-Lstp~sIYqvI~qqL~g~~-------P~~Gls  851 (1164)
T PTZ00112        780 SNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMN-VVHPNAAYQVLYKQLFNKK-------PPNALN  851 (1164)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCc-cCCHHHHHHHHHHHHcCCC-------CCcccc
Confidence            44556799999999999999988766421   1   24578886431 0011100    11110100       000111


Q ss_pred             CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCC
Q 041690           88 DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLG  167 (233)
Q Consensus        88 ~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~  167 (233)
                      ..+.+..++..+......+.+||||||+.+...            .    +..   ++.++++....+..++||+.++.-
T Consensus       852 S~evLerLF~~L~k~~r~v~IIILDEID~L~kK------------~----QDV---LYnLFR~~~~s~SKLiLIGISNdl  912 (1164)
T PTZ00112        852 SFKILDRLFNQNKKDNRNVSILIIDEIDYLITK------------T----QKV---LFTLFDWPTKINSKLVLIAISNTM  912 (1164)
T ss_pred             HHHHHHHHHhhhhcccccceEEEeehHhhhCcc------------H----HHH---HHHHHHHhhccCCeEEEEEecCch
Confidence            234555666544222233679999999988862            0    111   344444333345567777776643


Q ss_pred             C
Q 041690          168 N  168 (233)
Q Consensus       168 ~  168 (233)
                      +
T Consensus       913 D  913 (1164)
T PTZ00112        913 D  913 (1164)
T ss_pred             h
Confidence            3

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=98.41  E-value=1.5e-06  Score=71.04  Aligned_cols=37  Identities=22%  Similarity=0.215  Sum_probs=33.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      |...+||+|++|||||++.+++....+ ..|-+++-|+
T Consensus        51 pannvLL~G~rGtGKSSlVkall~~y~-~~GLRlIev~   87 (249)
T PF05673_consen   51 PANNVLLWGARGTGKSSLVKALLNEYA-DQGLRLIEVS   87 (249)
T ss_pred             CCcceEEecCCCCCHHHHHHHHHHHHh-hcCceEEEEC
Confidence            888999999999999999999998888 6678888875

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.41  E-value=2.2e-06  Score=73.95  Aligned_cols=37  Identities=27%  Similarity=0.364  Sum_probs=28.4

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcC-CCeEEEEec
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQS-NANVVFMCN   56 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~-g~~v~yi~~   56 (233)
                      ..++|+||||||||++++.++....... +.+++|++.
T Consensus        37 ~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~   74 (337)
T PRK12402         37 PHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNV   74 (337)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEech
Confidence            3799999999999999999988776332 345677753

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=2.9e-06  Score=77.13  Aligned_cols=26  Identities=31%  Similarity=0.321  Sum_probs=22.5

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +..+|++|||||||||+++.++..+.
T Consensus        36 ~ha~Lf~GppGtGKTTlA~~lA~~l~   61 (504)
T PRK14963         36 GHAYLFSGPRGVGKTTTARLIAMAVN   61 (504)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34469999999999999999998775

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.40  E-value=7.8e-07  Score=77.68  Aligned_cols=39  Identities=13%  Similarity=0.117  Sum_probs=29.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-----CeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSN-----ANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-----~~v~yi~~   56 (233)
                      .+..++|+||||||||++++.++..+.....     ..++|++.
T Consensus        39 ~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~   82 (365)
T TIGR02928        39 RPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNC   82 (365)
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEEC
Confidence            4567999999999999999999876642211     35777764

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>KOG0061 consensus Transporter, ABC superfamily (Breast cancer resistance protein) [Secondary metabolites biosynthesis, transport and catabolism]

Probab=98.40  E-value=1.4e-06  Score=81.19  Aligned_cols=28  Identities=29%  Similarity=0.361  Sum_probs=25.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|+.+.|.||+|+|||||+..++....
T Consensus        54 ~~Gel~AimG~SGsGKtTLL~~Lagr~~   81 (613)
T KOG0061|consen   54 KPGELLAIMGPSGSGKTTLLNALAGRLN   81 (613)
T ss_pred             ecCeEEEEECCCCCCHHHHHHHHhcccc
Confidence            6999999999999999999998887665

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=98.40  E-value=9.5e-07  Score=74.07  Aligned_cols=25  Identities=44%  Similarity=0.614  Sum_probs=22.4

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..++|.||||||||||++.++....
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCccC
Confidence            6899999999999999998887665

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=98.40  E-value=2.6e-06  Score=76.19  Aligned_cols=28  Identities=21%  Similarity=0.172  Sum_probs=25.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.|++||||||++..++..+.
T Consensus       362 ~~GEkvAIlG~SGsGKSTllqLl~~~~~  389 (573)
T COG4987         362 AQGEKVAILGRSGSGKSTLLQLLAGAWD  389 (573)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHHhccC
Confidence            7999999999999999999998887666

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	233
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	7e-05
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	9e-05
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	9e-04
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	5e-04

>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 = 44.5 bits (104), Expect = 2e-05
 Identities = 30/205 (14%), Positives = 58/205 (28%), Gaps = 67/205 (32%)

Query: 79  KLIQMKY-VEDDEEIKKYF---AAFHQHDKIPTAV-----------VVDDFGDLFDDRTC 123
            +I+    V +  E +K F   + F     IPT +            V    +     + 
Sbjct: 357 TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416

Query: 124 QERYTNPR---------------GRDLAMVRTLALCYNAITHANKKSPCKLLLSD---TH 165
            E+                      + A+ R++   YN     +        L     +H
Sbjct: 417 VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH 476

Query: 166 LG------------NSTRLLYIYKRWISSIFTVKGDG-----PGSF---LLRNKNYSRSC 205
           +G               R++++  R++     ++ D       GS    L + K Y    
Sbjct: 477 IGHHLKNIEHPERMTLFRMVFLDFRFLEQ--KIRHDSTAWNASGSILNTLQQLKFYK--- 531

Query: 206 GLGKTRIAKYSIALKDLVFEGITDD 230
                    Y I   D  +E + + 
Sbjct: 532 --------PY-ICDNDPKYERLVNA 547

>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* Length = 525

 Score = 41.8 bits (98), Expect = 9e-05
 Identities = 13/34 (38%), Positives = 17/34 (50%)

Query: 21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM 54
           TL+SG    GKT    QF YN   + +   VF+
Sbjct: 41 STLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFV 74

>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* Length = 525

 Score = 39.1 bits (91), Expect = 9e-04
 Identities = 10/33 (30%), Positives = 15/33 (45%), Gaps = 1/33 (3%)

Query: 21  ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVF 53
           I L +G    GKT L+ +F  N A  +    + 
Sbjct: 283 IILATGATGTGKTLLVSRFVEN-ACANKERAIL 314

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2} Length = 235

 Score = 39.2 bits (92), Expect = 5e-04
 Identities = 20/121 (16%), Positives = 40/121 (33%), Gaps = 16/121 (13%)

Query: 21  ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC-----NRSRLQSKR------PYLSQ 69
              L+G P  GKT     F            +++      +    Q+K+       Y+ +
Sbjct: 25  FIALTGEPGTGKTIFSLHFIAKGLRD-GDPCIYVTTEESRDSIIRQAKQFNWDFEEYIEK 83

Query: 70  SIDPSSHVFKLIQMKYV----EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQE 125
            +     + K  + ++       +E + K   A  +       +V+D    LF D+    
Sbjct: 84  KLIIIDALMKEKEDQWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKPAMA 143

Query: 126 R 126
           R
Sbjct: 144 R 144

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	233
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.77
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.72
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.72
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.72
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.72
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.69
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.63
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.62
3io5_A	333	Recombination and repair protein; storage dimer, i	99.61
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	99.58
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	99.57
2z43_A	324	DNA repair and recombination protein RADA; archaea	99.55
2cvh_A	220	DNA repair and recombination protein RADB; filamen	99.55
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	99.54
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.53
1u94_A	356	RECA protein, recombinase A; homologous recombinat	99.53
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	99.52
1xp8_A	366	RECA protein, recombinase A; recombination, radior	99.52
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	99.5
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	99.5
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	99.49
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.46
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	99.46
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.44
4a74_A	231	DNA repair and recombination protein RADA; hydrola	99.44
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.43
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.43
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.38
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	99.38
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.37
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.35
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.35
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.34
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.34
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.33
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.33
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.32
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.31
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.31
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	99.29
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	99.29
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	99.29
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.27
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.27
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	99.27
2r6a_A	454	DNAB helicase, replicative helicase; replication,	99.24
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	99.23
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	99.23
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.21
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	99.18
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.16
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.16
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	99.15
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.15
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	99.14
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.14
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	99.13
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.11
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.08
3bos_A	242	Putative DNA replication factor; P-loop containing	99.07
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.06
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.05
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	99.04
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.03
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.02
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.02
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	99.0
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.0
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.99
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	98.97
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	98.96
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	98.96
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	98.95
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.95
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	98.94
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	98.93
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	98.92
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	98.91
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	98.91
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.91
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	98.91
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.91
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.9
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	98.89
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	98.89
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	98.89
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	98.88
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	98.88
1ji0_A	240	ABC transporter; ATP binding protein, structural g	98.88
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	98.88
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	98.86
1b0u_A	262	Histidine permease; ABC transporter, transport pro	98.84
1g6h_A	257	High-affinity branched-chain amino acid transport	98.84
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.83
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	98.82
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	98.82
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	98.82
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.8
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	98.78
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.78
2qgz_A	308	Helicase loader, putative primosome component; str	98.76
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	98.75
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	98.74
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.73
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.73
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	98.73
1sgw_A	214	Putative ABC transporter; structural genomics, P p	98.72
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.72
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	98.72
3co5_A	143	Putative two-component system transcriptional RES	98.71
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	98.71
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.71
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	98.7
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	98.68
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	98.67
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.67
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	98.66
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.66
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	98.65
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	98.63
3pvs_A	447	Replication-associated recombination protein A; ma	98.62
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	98.62
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	98.62
2ghi_A	260	Transport protein; multidrug resistance protein, M	98.61
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	98.61
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.6
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.59
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.59
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	98.58
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	98.58
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	98.58
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.58
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	98.58
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	98.55
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	98.54
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.53
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.52
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	98.52
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.51
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	98.51
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.49
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	98.49
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.48
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.46
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	98.46
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.46
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.45
2eyu_A	261	Twitching motility protein PILT; pilus retraction	98.45
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	98.45
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	98.45
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.44
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.44
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	98.44
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.44
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	98.43
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.43
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	98.42
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.4
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.39
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	98.39
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	98.38
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	98.37
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.35
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.35
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	98.34
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.34
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.34
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	98.33
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	98.32
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.3
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	98.29
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.28
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.28
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.27
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	98.27
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	98.27
2ewv_A	372	Twitching motility protein PILT; pilus retraction	98.26
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	98.24
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.23
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.23
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.22
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.22
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.22
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	98.21
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.2
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	98.2
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.2
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	98.19
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	98.18
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	98.14
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	98.14
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.13
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	98.13
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	98.12
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	98.12
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	98.12
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	98.08
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	98.07
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.06
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	98.04
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	98.04
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	98.0
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	97.99
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.99
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	97.98
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.96
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.95
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.93
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	97.92
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.9
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.86
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	97.86
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.85
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	97.85
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	97.84
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.81
3pih_A	916	Uvrabc system protein A; hydrolase, ABC ATPase, DN	97.8
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.79
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.79
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	97.79
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	97.78
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.78
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.76
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.76
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.74
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.74
2vf7_A	842	UVRA2, excinuclease ABC, subunit A.; DNA-binding p	97.74
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.73
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.72
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	97.72
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.7
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.7
2ygr_A	993	Uvrabc system protein A; hydrolase, nucleotide exc	97.69
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.69
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.69
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.68
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	97.68
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.68
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.68
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.67
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	97.67
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.67
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.67
2r6f_A	972	Excinuclease ABC subunit A; UVRA, nucleotide excis	97.67
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.65
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.65
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.65
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.65
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	97.63
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	97.63
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	97.62
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	97.62
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.62
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.62
2xxa_A	433	Signal recognition particle protein; protein trans	97.61
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.61
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.61
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	97.61
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.6
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	97.6
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.59
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.59
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	97.59
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.59
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	97.58
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.58
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.58
3bor_A	237	Human initiation factor 4A-II; translation initiat	97.57
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	97.57
2og2_A	359	Putative signal recognition particle receptor; nuc	97.57
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.57
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.55
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.55
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.55
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.55
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.54
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.54
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.54
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.53
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.53
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.51
3b6e_A	216	Interferon-induced helicase C domain-containing P;	97.51
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	97.51
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.51
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.5
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	97.5
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	97.5
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.5
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.49
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.49
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.48
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	97.48
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.48
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.48
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.48
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	97.48
1p9r_A	418	General secretion pathway protein E; bacterial typ	97.47
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.47
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	97.47
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.46
1via_A	175	Shikimate kinase; structural genomics, transferase	97.44
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.43
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.43
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.43
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	97.43
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	97.43
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.42
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	97.42
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.41
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	97.41
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.41
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	97.4
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	97.39
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	97.38
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.38
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.37
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	97.37
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	97.37
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.37
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.36
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	97.36
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.36
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	97.36
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.35
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.34
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	97.34
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	97.34
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	97.33
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.33
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	97.32
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.32
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.31
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.31
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.31
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	97.3
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.3
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.29
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.28
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.28
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	97.26
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	97.25
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	97.25
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	97.23
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.22
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	97.21
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.21
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	97.21
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	97.21
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	97.21
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.21
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	97.21
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	97.2
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.18
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	97.18
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	97.18
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	97.17
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	97.17
2fna_A	357	Conserved hypothetical protein; structural genomic	97.16
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	97.16
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	97.16
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.15
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.14
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	97.14
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	97.13
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	97.13
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	97.13
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	97.13
3kta_A	182	Chromosome segregation protein SMC; structural mai	97.13
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	97.12
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	97.1
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	97.1
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	97.09
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.09
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	97.09
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	97.09
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	97.09
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	97.08
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.08
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	97.07
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.07
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	97.07
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	97.07
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	97.07
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	97.06
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	97.05
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	97.03
1yks_A	440	Genome polyprotein [contains: flavivirin protease	97.01
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.01
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	97.0
3ice_A	422	Transcription termination factor RHO; transcriptio	96.98
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	96.98
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.98
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.97
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.97
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.97
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	96.96
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.95
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	96.95
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.95
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.95
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	96.93
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	96.93
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.92
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.92
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	96.92
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.9
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	96.9
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	96.89
2ykg_A	696	Probable ATP-dependent RNA helicase DDX58; hydrola	96.87
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.87
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	96.87
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	96.84
3end_A	307	Light-independent protochlorophyllide reductase ir	96.84
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	96.83
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.82
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	96.82
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.81
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	96.8
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	96.8
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.8
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	96.78
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	96.78
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.77
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.77
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.77
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.75
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	96.75
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	96.75
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.74
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	96.73
3h1t_A	590	Type I site-specific restriction-modification syst	96.73
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.72
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	96.71
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	96.67
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	96.67
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	96.65
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.64
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	96.62
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	96.62
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	96.62
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	96.61
2wv9_A	673	Flavivirin protease NS2B regulatory subunit, FLAV	96.61
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	96.61
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	96.61
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	96.61
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	96.59
4a2q_A	797	RIG-I, retinoic acid inducible protein I; hydrolas	96.59
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	96.59
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.58
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	96.58
3dmq_A	968	RNA polymerase-associated protein RAPA; SWF2/SNF2,	96.57
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	96.57
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	96.56
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	96.56
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.55
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	96.54
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	96.54
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	96.54
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	96.53
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.51
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	96.51
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	96.5
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	96.49
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	96.49
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	96.48
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	96.48
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	96.47
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	96.47
3l0o_A	427	Transcription termination factor RHO; helicase, RH	96.46
2wji_A	165	Ferrous iron transport protein B homolog; membrane	96.46
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	96.45
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	96.44
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	96.44
4a2w_A	936	RIG-I, retinoic acid inducible protein I; hydrolas	96.44
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	96.44
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.41
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	96.4
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	96.4
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	96.37
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.35
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.32
1e69_A	322	Chromosome segregation SMC protein; structural mai	96.32
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	96.32
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	96.32
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.32
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.32
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	96.31
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	96.31
3o8b_A	666	HCV NS3 protease/helicase; ntpase, RNA, translocat	96.3
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	96.3
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	96.29
1nrj_B	218	SR-beta, signal recognition particle receptor beta	96.28
2ged_A	193	SR-beta, signal recognition particle receptor beta	96.28
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	96.27
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	96.26
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	96.26
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.24
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	96.24
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	96.24
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	96.23

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.77  E-value=2.1e-18  Score=149.89  Aligned_cols=140  Identities=16%  Similarity=0.193  Sum_probs=97.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+++++|||||||||||+||+++|.    +.+.+++.++       ..+....+.+.+              ...++.+|
T Consensus       180 ~~prGvLL~GPPGTGKTllAkAiA~----e~~~~f~~v~-------~s~l~sk~vGes--------------e~~vr~lF  234 (405)
T 4b4t_J          180 AQPKGVILYGPPGTGKTLLARAVAH----HTDCKFIRVS-------GAELVQKYIGEG--------------SRMVRELF  234 (405)
T ss_dssp             CCCCCEEEESCSSSSHHHHHHHHHH----HHTCEEEEEE-------GGGGSCSSTTHH--------------HHHHHHHH
T ss_pred             CCCCceEEeCCCCCCHHHHHHHHHH----hhCCCceEEE-------hHHhhccccchH--------------HHHHHHHH
Confidence            4778999999999999999997776    4457788885       334444444433              67889999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++++...     |.....+......+.+..+++.+..+. ....++|+++||.++......+.
T Consensus       235 ~~Ar--~~aP~IIFiDEiDai~~~-----R~~~~~~~~~~~~~~l~~lL~~lDg~~-~~~~V~vIaATNrpd~LDpAllR  306 (405)
T 4b4t_J          235 VMAR--EHAPSIIFMDEIDSIGST-----RVEGSGGGDSEVQRTMLELLNQLDGFE-TSKNIKIIMATNRLDILDPALLR  306 (405)
T ss_dssp             HHHH--HTCSEEEEEESSSCCTTS-----CSCSSSGGGGHHHHHHHHHHHHHHTTT-CCCCEEEEEEESCSSSSCHHHHS
T ss_pred             HHHH--HhCCceEeeecchhhccC-----CCCCCCCCcHHHHHHHHHHHHhhhccC-CCCCeEEEeccCChhhCCHhHcC
Confidence            9887  444999999999999984     322222233333344444555554443 34568899999998766554343


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+|+..++++..
T Consensus       307 pGRfD~~I~i~lP  319 (405)
T 4b4t_J          307 PGRIDRKIEFPPP  319 (405)
T ss_dssp             TTSSCCEEECCCC
T ss_pred             CCcCceEEEcCCc
Confidence            4589999998864

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.72  E-value=9.5e-18  Score=146.42  Aligned_cols=140  Identities=16%  Similarity=0.185  Sum_probs=94.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++.++|||||||||||+||+++|..    .+.+++.++       ..+++..+.+.+              ...++.+|
T Consensus       214 ~~prGvLLyGPPGTGKTlLAkAiA~e----~~~~fi~v~-------~s~l~sk~vGes--------------ek~ir~lF  268 (437)
T 4b4t_I          214 KPPKGVILYGAPGTGKTLLAKAVANQ----TSATFLRIV-------GSELIQKYLGDG--------------PRLCRQIF  268 (437)
T ss_dssp             CCCSEEEEESSTTTTHHHHHHHHHHH----HTCEEEEEE-------SGGGCCSSSSHH--------------HHHHHHHH
T ss_pred             CCCCCCceECCCCchHHHHHHHHHHH----hCCCEEEEE-------HHHhhhccCchH--------------HHHHHHHH
Confidence            47799999999999999999987764    456777775       333344444333              66888999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||+++++..     |............+.+..+++.+.... ....++||++||.++......+.
T Consensus       269 ~~Ar--~~aP~IIfiDEiDai~~~-----R~~~~~~~~~~~~~~l~~LL~~lDg~~-~~~~ViVIaATNrpd~LDpALlR  340 (437)
T 4b4t_I          269 KVAG--ENAPSIVFIDEIDAIGTK-----RYDSNSGGEREIQRTMLELLNQLDGFD-DRGDVKVIMATNKIETLDPALIR  340 (437)
T ss_dssp             HHHH--HTCSEEEEEEEESSSSCC-----CSCSSCSSCCHHHHHHHHHHHHHHHCC-CSSSEEEEEEESCSTTCCTTSSC
T ss_pred             HHHH--hcCCcEEEEehhhhhccc-----CCCCCCCccHHHHHHHHHHHHHhhCcC-CCCCEEEEEeCCChhhcCHHHhc
Confidence            9877  444999999999999984     322222222233344444555554433 34568889999988765444343


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+|+..++++..
T Consensus       341 pGRfD~~I~v~lP  353 (437)
T 4b4t_I          341 PGRIDRKILFENP  353 (437)
T ss_dssp             TTTEEEEECCCCC
T ss_pred             CCceeEEEEcCCc
Confidence            4588888888764

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.72  E-value=1e-17  Score=147.37  Aligned_cols=140  Identities=19%  Similarity=0.219  Sum_probs=95.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++.++|||||||||||+||+++|.    +.+.+++.++       .......+.+..              ...++.+|
T Consensus       213 ~~prGvLLyGPPGTGKTllAkAiA~----e~~~~f~~v~-------~s~l~~~~vGes--------------e~~ir~lF  267 (434)
T 4b4t_M          213 RAPKGALMYGPPGTGKTLLARACAA----QTNATFLKLA-------APQLVQMYIGEG--------------AKLVRDAF  267 (434)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHH----HHTCEEEEEE-------GGGGCSSCSSHH--------------HHHHHHHH
T ss_pred             CCCCeeEEECcCCCCHHHHHHHHHH----HhCCCEEEEe-------hhhhhhcccchH--------------HHHHHHHH
Confidence            4778999999999999999997776    4456788885       333344444333              66888899


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+..  ..|++|||||+++++..     |.+..........+.+..+++.+..+.. ...++|+++||.++......+.
T Consensus       268 ~~A~~--~aP~IifiDEiDal~~~-----R~~~~~~~~~~~~~~~~~lL~~ldg~~~-~~~ViVIaaTNrp~~LD~AllR  339 (434)
T 4b4t_M          268 ALAKE--KAPTIIFIDELDAIGTK-----RFDSEKSGDREVQRTMLELLNQLDGFSS-DDRVKVLAATNRVDVLDPALLR  339 (434)
T ss_dssp             HHHHH--HCSEEEEEECTHHHHCC-----CSSGGGGTTHHHHHHHHHHHHHHTTSCS-SCSSEEEEECSSCCCCCTTTCS
T ss_pred             HHHHh--cCCeEEeecchhhhhhc-----cCCCCCCCchHHHHHHHHHHHHhhccCC-CCCEEEEEeCCCchhcCHhHhc
Confidence            87763  34999999999999984     3322222333344444555555544433 3457889999988755444344


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      +.+|+..++++..
T Consensus       340 pGRfD~~I~i~lP  352 (434)
T 4b4t_M          340 SGRLDRKIEFPLP  352 (434)
T ss_dssp             TTSEEEEEECCCC
T ss_pred             CCceeEEEEeCCc
Confidence            5689999998864

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.72  E-value=1.5e-17  Score=146.41  Aligned_cols=140  Identities=19%  Similarity=0.199  Sum_probs=92.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++.++|||||||||||+||+++|.    +.+.++++++       ....+..+.+.+              ...++.+|
T Consensus       213 ~~prGvLL~GPPGtGKTllAkAiA~----e~~~~~~~v~-------~s~l~sk~~Ges--------------e~~ir~~F  267 (437)
T 4b4t_L          213 KPPKGVLLYGPPGTGKTLLAKAVAA----TIGANFIFSP-------ASGIVDKYIGES--------------ARIIREMF  267 (437)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHH----HHTCEEEEEE-------GGGTCCSSSSHH--------------HHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHH----HhCCCEEEEe-------hhhhccccchHH--------------HHHHHHHH
Confidence            4789999999999999999998776    4457788885       233334443332              56788888


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||+++++..     |.+..........+.+..+++.+.... ....++||++||.++......+.
T Consensus       268 ~~A~--~~~P~IifiDEiDai~~~-----R~~~~~~~~~~~~~~l~~lL~~lDg~~-~~~~vivI~ATNrp~~LDpAllR  339 (437)
T 4b4t_L          268 AYAK--EHEPCIIFMDEVDAIGGR-----RFSEGTSADREIQRTLMELLTQMDGFD-NLGQTKIIMATNRPDTLDPALLR  339 (437)
T ss_dssp             HHHH--HSCSEEEEEECCCSSSCC-----CSSSCCSSTTHHHHHHHHHHHHHHSSS-CTTSSEEEEEESSTTSSCTTTTS
T ss_pred             HHHH--hcCCceeeeecccccccc-----cccCCCCcchHHHHHHHHHHHHhhccc-CCCCeEEEEecCCchhhCHHHhC
Confidence            8876  344999999999999984     322222222223333333444443332 23457788889988655444344


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      +.+|+..++++..
T Consensus       340 pGRfD~~I~i~lP  352 (437)
T 4b4t_L          340 PGRLDRKVEIPLP  352 (437)
T ss_dssp             TTSEEEEECCCCC
T ss_pred             CCccceeeecCCc
Confidence            5578988888764

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.72  E-value=3.8e-17  Score=143.84  Aligned_cols=140  Identities=15%  Similarity=0.149  Sum_probs=96.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+++++|||||||||||+||+++|..    .+.+++.++       ...++..+.+.+              ...++.+|
T Consensus       241 ~pprGILLyGPPGTGKTlLAkAiA~e----~~~~fi~vs-------~s~L~sk~vGes--------------ek~ir~lF  295 (467)
T 4b4t_H          241 DPPKGILLYGPPGTGKTLCARAVANR----TDATFIRVI-------GSELVQKYVGEG--------------ARMVRELF  295 (467)
T ss_dssp             CCCSEEEECSCTTSSHHHHHHHHHHH----HTCEEEEEE-------GGGGCCCSSSHH--------------HHHHHHHH
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHhc----cCCCeEEEE-------hHHhhcccCCHH--------------HHHHHHHH
Confidence            58899999999999999999987764    456788775       333334444333              66888999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||+++++..     |.....+......+.+..+++.+.... ....++||++||.++......+.
T Consensus       296 ~~Ar--~~aP~IIfiDEiDai~~~-----R~~~~~~~~~~~~~~l~~lL~~lDg~~-~~~~ViVIaATNrpd~LDpALlR  367 (467)
T 4b4t_H          296 EMAR--TKKACIIFFDEIDAVGGA-----RFDDGAGGDNEVQRTMLELITQLDGFD-PRGNIKVMFATNRPNTLDPALLR  367 (467)
T ss_dssp             HHHH--HTCSEEEEEECCTTTSBC-----CSSSSCGGGGHHHHHHHHHHHHHHSSC-CTTTEEEEEECSCTTSBCHHHHS
T ss_pred             HHHH--hcCCceEeeccccccccc-----ccCcCCCccHHHHHHHHHHHHHhhccC-CCCcEEEEeCCCCcccCChhhhc
Confidence            9877  344999999999999984     333333333344445555555554332 34568899999998766554333


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+|+..++++..
T Consensus       368 pGRFD~~I~i~lP  380 (467)
T 4b4t_H          368 PGRIDRKVEFSLP  380 (467)
T ss_dssp             TTTCCEEECCCCC
T ss_pred             cccccEEEEeCCc
Confidence            4589999998864

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.69  E-value=6.2e-17  Score=142.23  Aligned_cols=138  Identities=13%  Similarity=0.196  Sum_probs=91.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+++++|||||||||||+||+++|..    .+.+++.++       ....+..+.+..              ...++.+|
T Consensus       204 ~~prGiLL~GPPGtGKT~lakAiA~~----~~~~~~~v~-------~~~l~~~~~Ge~--------------e~~ir~lF  258 (428)
T 4b4t_K          204 DPPRGVLLYGPPGTGKTMLVKAVANS----TKAAFIRVN-------GSEFVHKYLGEG--------------PRMVRDVF  258 (428)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHHH----HTCEEEEEE-------GGGTCCSSCSHH--------------HHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHH----hCCCeEEEe-------cchhhccccchh--------------HHHHHHHH
Confidence            47789999999999999999987764    457788885       233333333332              66888999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++++...+.....  .......+...+|+..++.+   . ....++||++||.++......+.
T Consensus       259 ~~A~--~~aP~IifiDEiD~i~~~R~~~~~--~~~~~~~r~l~~lL~~ldg~---~-~~~~v~vI~aTN~~~~LD~AllR  330 (428)
T 4b4t_K          259 RLAR--ENAPSIIFIDEVDSIATKRFDAQT--GSDREVQRILIELLTQMDGF---D-QSTNVKVIMATNRADTLDPALLR  330 (428)
T ss_dssp             HHHH--HTCSEEEEEECTHHHHCSCSSSCS--CCCCHHHHHHHHHHHHHHHS---C-SSCSEEEEEEESCSSSCCHHHHS
T ss_pred             HHHH--HcCCCeeechhhhhhhccccCCCC--CCChHHHHHHHHHHHHhhCC---C-CCCCEEEEEecCChhhcChhhhc
Confidence            9877  445999999999999984321111  11112223444444444443   2 33458889999988765544333


Q ss_pred             HHhhccceEEE
Q 041690          177 KRWISSIFTVK  187 (233)
Q Consensus       177 ~~~~~~~~~i~  187 (233)
                      ..+|+..++++
T Consensus       331 pGRfd~~I~~p  341 (428)
T 4b4t_K          331 PGRLDRKIEFP  341 (428)
T ss_dssp             SSSEEEEEECC
T ss_pred             CCcceEEEEcC
Confidence            45889888885

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=99.63  E-value=6.8e-16  Score=144.75  Aligned_cols=137  Identities=17%  Similarity=0.197  Sum_probs=97.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++.++|||||||||||+||+++|.    +.+..+++++       ..+....+.+..              ...++.+|
T Consensus       236 ~~p~GILL~GPPGTGKT~LAraiA~----elg~~~~~v~-------~~~l~sk~~ges--------------e~~lr~lF  290 (806)
T 3cf2_A          236 KPPRGILLYGPPGTGKTLIARAVAN----ETGAFFFLIN-------GPEIMSKLAGES--------------ESNLRKAF  290 (806)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHT----TTTCEEEEEE-------HHHHHSSCTTHH--------------HHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHH----HhCCeEEEEE-------hHHhhcccchHH--------------HHHHHHHH
Confidence            4778999999999999999997665    5577888885       233333333332              66888999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||+++++.     .+++...+...++..+|+.+++.+    .....++||+++|.++........
T Consensus       291 ~~A~--~~~PsIIfIDEiDal~~-----~r~~~~~~~~~riv~~LL~~mdg~----~~~~~V~VIaaTN~~d~LD~ALrR  359 (806)
T 3cf2_A          291 EEAE--KNAPAIIFIDELDAIAP-----KREKTHGEVERRIVSQLLTLMDGL----KQRAHVIVMAATNRPNSIDPALRR  359 (806)
T ss_dssp             HHHT--TSCSEEEEEESGGGTCC-----TTTTCCCTTHHHHHHHHHTHHHHC----CGGGCEEEEEECSSTTTSCTTTTS
T ss_pred             HHHH--HcCCeEEEEehhccccc-----ccCCCCChHHHHHHHHHHHHHhcc----cccCCEEEEEecCChhhcCHHHhC
Confidence            9876  44599999999999998     344444555666777777776665    223458889999887654433222


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      .++|+..++++..
T Consensus       360 ~GRFd~~I~i~~P  372 (806)
T 3cf2_A          360 FGRFDREVDIGIP  372 (806)
T ss_dssp             TTSSCEEEECCCC
T ss_pred             CcccceEEecCCC
Confidence            3478888888753

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=99.62  E-value=7.5e-16  Score=144.43  Aligned_cols=140  Identities=14%  Similarity=0.230  Sum_probs=92.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+...+|+|||||||||.+|+++|.    +.+.+++.+       ..++.+..+.+.+              ...++++|
T Consensus       509 ~~~~gvLl~GPPGtGKT~lAkaiA~----e~~~~f~~v-------~~~~l~s~~vGes--------------e~~vr~lF  563 (806)
T 3cf2_A          509 TPSKGVLFYGPPGCGKTLLAKAIAN----ECQANFISI-------KGPELLTMWFGES--------------EANVREIF  563 (806)
T ss_dssp             CCCSCCEEESSTTSSHHHHHHHHHH----TTTCEEEEC-------CHHHHHTTTCSSC--------------HHHHHHHH
T ss_pred             CCCceEEEecCCCCCchHHHHHHHH----HhCCceEEe-------ccchhhccccchH--------------HHHHHHHH
Confidence            4677899999999999999997776    555667766       4455556665554              77899999


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..++  ...|++|||||+++++..+...  .+.......+++++|+..++.+    .....|+|+++||.++......+.
T Consensus       564 ~~Ar--~~~P~IifiDEiDsl~~~R~~~--~~~~~~~~~rv~~~lL~~mdg~----~~~~~V~vi~aTN~p~~lD~AllR  635 (806)
T 3cf2_A          564 DKAR--QAAPCVLFFDELDSIAKARGGN--IGDGGGAADRVINQILTEMDGM----STKKNVFIIGATNRPDIIDPAILR  635 (806)
T ss_dssp             HHHH--TTCSEEEECSCGGGCC----------------CHHHHHHHHHHHSS----CSSSSEEEECC-CCSSSSCHHHHS
T ss_pred             HHHH--HcCCceeechhhhHHhhccCCC--CCCCchHHHHHHHHHHHHHhCC----CCCCCEEEEEeCCCchhCCHhHcC
Confidence            9887  4459999999999999843110  0112223345667777777665    334568999999998765544333


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+|+..++++..
T Consensus       636 pgRfd~~i~v~lP  648 (806)
T 3cf2_A          636 PGRLDQLIYIPLP  648 (806)
T ss_dssp             TTTSCCEEEC---
T ss_pred             CCcceEEEEECCc
Confidence            3488999998864

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=99.61  E-value=9.7e-15  Score=122.84  Aligned_cols=164  Identities=13%  Similarity=0.100  Sum_probs=91.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHH-H
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEI-K   93 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l-~   93 (233)
                      .++| .++|+||||+||||||+|++.+++.. .|.+++||++|+.+...  +.. .++..   .+++.+......+.+ .
T Consensus        26 l~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~--ra~-~lGvd---~d~llv~~~~~~E~~~l   98 (333)
T 3io5_A           26 MQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA--YLR-SMGVD---PERVIHTPVQSLEQLRI   98 (333)
T ss_dssp             BCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH--HHH-HTTCC---GGGEEEEECSBHHHHHH
T ss_pred             CcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH--HHH-HhCCC---HHHeEEEcCCCHHHHHH
Confidence            3577 89999999999999999999988843 27899999999755432  111 11111   125555444455555 4


Q ss_pred             HHHHHhc-ccCCCCcEEEEeCCCccccc-cccccccCCcchhhHHHHHHHHH-HHHHHHHhhhcCCcEEEEeecCCCCC-
Q 041690           94 KYFAAFH-QHDKIPTAVVVDDFGDLFDD-RTCQERYTNPRGRDLAMVRTLAL-CYNAITHANKKSPCKLLLSDTHLGNS-  169 (233)
Q Consensus        94 ~~~~~~~-~~~~~p~iIvIDei~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~-l~~~~~~l~~~~~~vlvi~~~~~~~~-  169 (233)
                      .+.+.+. .....|++|||||++++++. ...+..+ ..+......++.+.. ++.+...+++.+.+++++.+...... 
T Consensus        99 ~i~~~l~~i~~~~~~lvVIDSI~aL~~~~eieg~~g-d~~~gsv~qaR~~s~~LrkL~~~ak~~~i~vi~tNQV~k~G~~  177 (333)
T 3io5_A           99 DMVNQLDAIERGEKVVVFIDSLGNLASKKETEDALN-EKVVSDMTRAKTMKSLFRIVTPYFSTKNIPCIAINHTYETQEM  177 (333)
T ss_dssp             HHHHHHHTCCTTCCEEEEEECSTTCBCC---------------CTHHHHHHHHHHHHHHHHHHTTCEEEEEEEC------
T ss_pred             HHHHHHHHhhccCceEEEEecccccccchhccCccc-cccccHHHHHHHHHHHHHHHHHHHHHhCCEEEEECCeeecCcc
Confidence            4444331 12445999999999999853 1111111 100000011122222 33444456677888888776643111 


Q ss_pred             -----chhHHHHHHhhccceEEEe
Q 041690          170 -----TRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       170 -----~~~~~~~~~~~~~~~~i~~  188 (233)
                           ..+..++ +|....+.+..
T Consensus       178 fg~p~~~GG~~l-~~ss~Rl~lrk  200 (333)
T 3io5_A          178 FSKTVMGGGTGP-MYSADTVFIIG  200 (333)
T ss_dssp             ---------CCG-GGGSSEEEEEE
T ss_pred             cCCCCCCCccee-eeeeEEEEEEe
Confidence                 2345567 88888888765

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=99.58  E-value=5.5e-14  Score=120.92  Aligned_cols=161  Identities=12%  Similarity=0.109  Sum_probs=93.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++|++++|+||||+|||||+++++..++ ..|.+++|+++|..+...   ....++..   .+++.+......+.+..+.
T Consensus        59 ~~G~iv~I~G~pGsGKTtLal~la~~~~-~~g~~vlyi~~E~~~~~~---~a~~lG~~---~~~l~i~~~~~~e~~l~~~  131 (349)
T 2zr9_A           59 PRGRVIEIYGPESSGKTTVALHAVANAQ-AAGGIAAFIDAEHALDPE---YAKKLGVD---TDSLLVSQPDTGEQALEIA  131 (349)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEEESSCCCCHH---HHHHTTCC---GGGCEEECCSSHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEECCCCcCHH---HHHHcCCC---HHHeEEecCCCHHHHHHHH
Confidence            4899999999999999999999998888 678899999988543221   11111110   1234433333344444443


Q ss_pred             HHhcccCCCCcEEEEeCCCcccccc-ccccccCCcc-hhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCC--------
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDR-TCQERYTNPR-GRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHL--------  166 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~-~~~~~~~~~~-~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~--------  166 (233)
                      ..+.. ...|++|||||+++++... ..+..++... .+...+.+.   +..+...+++.+.+++++++...        
T Consensus       132 ~~l~~-~~~~~lIVIDsl~~l~~~~e~~~~~gd~~~~~q~r~~~~~---l~~L~~~a~~~~~tVI~inh~~~~~~~~~~~  207 (349)
T 2zr9_A          132 DMLVR-SGALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLMSQA---LRKMTGALNNSGTTAIFINELREKIGVMFGS  207 (349)
T ss_dssp             HHHHT-TTCCSEEEEECGGGCCCHHHHTTC----CCCHHHHHHHHH---HHHHHHHHHHHTCEEEEEEECC---------
T ss_pred             HHHHh-cCCCCEEEEcChHhhcchhhhccccccchhhHHHHHHHHH---HHHHHHHHHHhCCEEEEEeccccccCcccCC
Confidence            32221 3349999999999998521 0000000100 111111111   33333344566888888877653        


Q ss_pred             CCCchhHHHHHHhhccceEEEe
Q 041690          167 GNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +..|.+...+.++.+.++.+..
T Consensus       208 p~~~~gg~~l~~~ad~~l~lrr  229 (349)
T 2zr9_A          208 PETTTGGKALKFYASVRLDVRR  229 (349)
T ss_dssp             --CCSSHHHHHHHCSEEEEEEE
T ss_pred             CcccCCchHhhhccceEEEEEE
Confidence            1234455689999999888875

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=99.57  E-value=1.2e-13  Score=118.73  Aligned_cols=161  Identities=14%  Similarity=0.151  Sum_probs=97.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++|++++|+||||||||||+++++..++ ..+.+|+|+++|..+...  +... ++.   ..+++.+......+.+...+
T Consensus        59 ~~G~i~~I~GppGsGKSTLal~la~~~~-~~gg~VlyId~E~s~~~~--ra~r-lgv---~~~~l~i~~~~~~e~~l~~~  131 (356)
T 3hr8_A           59 PRGRIVEIFGQESSGKTTLALHAIAEAQ-KMGGVAAFIDAEHALDPV--YAKN-LGV---DLKSLLISQPDHGEQALEIV  131 (356)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEEESSCCCCHH--HHHH-HTC---CGGGCEEECCSSHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEecccccchH--HHHH-cCC---chhhhhhhhccCHHHHHHHH
Confidence            5899999999999999999999999888 678899999988644321  1111 111   01234443333344444443


Q ss_pred             HHhcccCCCCcEEEEeCCCcccc-ccccccccCCcchhhHHHHHHHHHHHHHHHHh-hhcCCcEEEEeecCC--------
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFD-DRTCQERYTNPRGRDLAMVRTLALCYNAITHA-NKKSPCKLLLSDTHL--------  166 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-~~~~~~vlvi~~~~~--------  166 (233)
                      ..+.. ...+++||||++.++++ ....+.. +..+  .....+.+..++..+..+ ++.+.+++++.+...        
T Consensus       132 ~~l~~-~~~~dlvVIDSi~~l~~~~el~g~~-G~~q--~~~qar~la~~L~~L~~lak~~~~tVI~inqv~~k~g~~fg~  207 (356)
T 3hr8_A          132 DELVR-SGVVDLIVVDSVAALVPRAEIEGAM-GDMQ--VGLQARLMSQALRKIAGSVNKSKAVVIFTNQIRMKIGVMFGS  207 (356)
T ss_dssp             HHHHH-TSCCSEEEEECTTTCCCHHHHTTCC-CSSC--SSHHHHHHHHHHHHHHHHHHTSSCEEEEEEESSSCSSSSSCS
T ss_pred             HHHhh-hcCCCeEEehHhhhhcChhhhcccc-hhhH--HHHHHHHHHHHHHHHHHHHHhcCCEEEEEeeeeeccccccCC
Confidence            33221 23489999999999996 3211111 1110  001123333444444444 345667777766521        


Q ss_pred             CCCchhHHHHHHhhccceEEEe
Q 041690          167 GNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +..+.+..+++|+.+.++.+..
T Consensus       208 p~~~~GG~~l~h~~~~rl~l~k  229 (356)
T 3hr8_A          208 PETTTGGLALKFYATMRMEVRR  229 (356)
T ss_dssp             CSSCTHHHHHHHHCSEEEEEEE
T ss_pred             cccCCCcchhhhhCcEEEEEEe
Confidence            2236678899999999999986

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=99.55  E-value=1.2e-13  Score=117.75  Aligned_cols=165  Identities=13%  Similarity=0.095  Sum_probs=85.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC-----CCeEEEEecCCccccccccccc---ccC-CchhhhcceEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS-----NANVVFMCNRSRLQSKRPYLSQ---SID-PSSHVFKLIQMKYVE   87 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~-----g~~v~yi~~e~~l~~~~~~~~~---~~~-~~~~~~~~i~~~~~~   87 (233)
                      ++|..++|+||||+|||+|+.+++..++...     +.+++|+++|..+.  ++.+.+   .++ +.+.+.+++.+....
T Consensus       105 ~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~--~~~l~~~~~~~g~~~~~~~~~l~~~~~~  182 (324)
T 2z43_A          105 ETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFR--WERIENMAKALGLDIDNVMNNIYYIRAI  182 (324)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCC--HHHHHHHHHHTTCCHHHHHHTEEEEECC
T ss_pred             CCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCC--HHHHHHHHHHhCCCHHHHhccEEEEeCC
Confidence            5899999999999999999999998876221     67999999886432  111111   111 223334566554333


Q ss_pred             CHHHHHHHHHHhcc--cC-CCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHH-hhhcCCcEEEEee
Q 041690           88 DDEEIKKYFAAFHQ--HD-KIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITH-ANKKSPCKLLLSD  163 (233)
Q Consensus        88 ~~~~l~~~~~~~~~--~~-~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~-l~~~~~~vlvi~~  163 (233)
                      ..+.+..++..+..  .+ ..+++||||++++++.....+ + +....+    ...+..++..+.. +++.+.+++++.+
T Consensus       183 ~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~~~~~-~-g~~~~r----~~~~~~~l~~L~~la~~~~~~Vi~~nq  256 (324)
T 2z43_A          183 NTDHQIAIVDDLQELVSKDPSIKLIVVDSVTSHFRAEYPG-R-ENLAVR----QQKLNKHLHQLTRLAEVYDIAVIITNQ  256 (324)
T ss_dssp             SHHHHHHHHHHHHHHHHHCTTEEEEEETTTTHHHHHHSCT-T-TSHHHH----HHHHHHHHHHHHHHHHHHTCEEEEEEE
T ss_pred             CHHHHHHHHHHHHHHHHhccCCCEEEEeCcHHHhhhhhcC-c-ccHHHH----HHHHHHHHHHHHHHHHHhCCEEEEEcc
Confidence            33322222222111  02 348999999999998631100 0 000111    1122223333333 3345777777766


Q ss_pred             cCCC--------CCchhHHHHHHhhccceEEEec
Q 041690          164 THLG--------NSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       164 ~~~~--------~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      .+..        ..|.+...+.++.+.++.+...
T Consensus       257 ~~~~~~~~~~~~~~~~gg~~l~~~~d~~l~l~r~  290 (324)
T 2z43_A          257 VMARPDMFYGDPTVAVGGHTLYHVPGIRIQLKKS  290 (324)
T ss_dssp             C------------------------CEEEEEEEC
T ss_pred             eeecCCCcCCCCCCCCchHHHHhhCcEEEEEEEc
Confidence            5432        1244556789999999999875

>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=99.55  E-value=1.5e-13  Score=109.74  Aligned_cols=171  Identities=16%  Similarity=0.171  Sum_probs=97.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccccc---ccC-CchhhhcceEEEEecCHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQ---SID-PSSHVFKLIQMKYVEDDEE   91 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~---~~~-~~~~~~~~i~~~~~~~~~~   91 (233)
                      .++|..++|+||||+|||||+++++.    ..+.+++|++.+..+.  ...+..   ..+ ..+...+++.+........
T Consensus        17 i~~G~~~~i~G~~GsGKTtl~~~l~~----~~~~~v~~i~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (220)
T 2cvh_A           17 FAPGVLTQVYGPYASGKTTLALQTGL----LSGKKVAYVDTEGGFS--PERLVQMAETRGLNPEEALSRFILFTPSDFKE   90 (220)
T ss_dssp             BCTTSEEEEECSTTSSHHHHHHHHHH----HHCSEEEEEESSCCCC--HHHHHHHHHTTTCCHHHHHHHEEEECCTTTSH
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHH----HcCCcEEEEECCCCCC--HHHHHHHHHhcCCChHHHhhcEEEEecCCHHH
Confidence            46899999999999999999999987    3478999999875221  111111   111 1122334444433333323


Q ss_pred             HHHHHHHhccc-CCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhh-hcCCcEEEEeecCCC--
Q 041690           92 IKKYFAAFHQH-DKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHAN-KKSPCKLLLSDTHLG--  167 (233)
Q Consensus        92 l~~~~~~~~~~-~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~-~~~~~vlvi~~~~~~--  167 (233)
                      +...+..+... ...|++|||||++++++..   ..   ...+.    ..+..+++.+..+. +.+.+++++++.+..  
T Consensus        91 ~~~~~~~~~~l~~~~~~lliiD~~~~~l~~~---~~---~~~~~----~~~~~~~~~L~~l~~~~~~~vi~~~h~~~~~~  160 (220)
T 2cvh_A           91 QRRVIGSLKKTVDSNFALVVVDSITAHYRAE---EN---RSGLI----AELSRQLQVLLWIARKHNIPVIVINQVHFDSR  160 (220)
T ss_dssp             HHHHHHHHHHHCCTTEEEEEEECCCCCTTGG---GG---SSTTH----HHHHHHHHHHHHHHHHHTCCEEEEECSSSSCT
T ss_pred             HHHHHHHHHHHhhcCCCEEEEcCcHHHhhhc---Cc---hHHHH----HHHHHHHHHHHHHHHHcCCEEEEEeeEEEcCC
Confidence            22233322111 1149999999999998741   00   01111    12222334444433 447788888776542  


Q ss_pred             ---CCchhHHHHHHhhccceEEEec---CCccEEEeeccCc
Q 041690          168 ---NSTRLLYIYKRWISSIFTVKGD---GPGSFLLRNKNYS  202 (233)
Q Consensus       168 ---~~~~~~~~~~~~~~~~~~i~~~---~~~~~~l~~~~~~  202 (233)
                         ..|.+...++++.+.++.+...   +.+...+.+.+..
T Consensus       161 ~~~~~p~~~~~~~~~~d~vi~l~~~~~~~~r~l~v~K~r~~  201 (220)
T 2cvh_A          161 TEMTKPVAEQTLGYRCKDILRLDKLPKPGLRVAVLERHRFR  201 (220)
T ss_dssp             TSSCCSCCCHHHHHTSSEEEEEEECSSTTEEEEEEEECSSS
T ss_pred             CCccccCCCcceeecCcEEEEEEEecCCCEEEEEEEeCCCC
Confidence               2243444788999999999875   2233555555543

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=99.54  E-value=2.1e-13  Score=119.18  Aligned_cols=165  Identities=13%  Similarity=0.116  Sum_probs=96.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCcccccc-cccccccC-CchhhhcceEEEEecCH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKR-PYLSQSID-PSSHVFKLIQMKYVEDD   89 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~-~~~~~~~~-~~~~~~~~i~~~~~~~~   89 (233)
                      ++|.+++|+||||||||||+++++......     .+.+++|++++..+.... ..+.+.++ ..+.+++++.+......
T Consensus       176 ~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~~~a~~~gl~~~~vleni~~~~~~~~  255 (400)
T 3lda_A          176 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNA  255 (400)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHHHHHHHcCCChHhHhhcEEEeccCCh
Confidence            589999999999999999999998766532     357899999886432211 11111122 23445556666443333


Q ss_pred             HHHHHH----HHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhh-hcCCcEEEEeec
Q 041690           90 EEIKKY----FAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHAN-KKSPCKLLLSDT  164 (233)
Q Consensus        90 ~~l~~~----~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~-~~~~~vlvi~~~  164 (233)
                      ......    ...+.  ...|++|||||++++++....+     . +.....++.+..++..+..+. +.+.++|++++.
T Consensus       256 ~~~~~~l~~~~~~l~--~~~~~llVIDs~t~~~~~~~sg-----~-g~l~~Rq~~l~~il~~L~~lake~gitVIlv~Hv  327 (400)
T 3lda_A          256 DHQLRLLDAAAQMMS--ESRFSLIVVDSVMALYRTDFSG-----R-GELSARQMHLAKFMRALQRLADQFGVAVVVTNQV  327 (400)
T ss_dssp             HHHHHHHHHHHHHHH--HSCEEEEEEETGGGGCC------------CCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEEC
T ss_pred             HHHHHHHHHHHHHHH--hcCCceEEecchhhhCchhhcC-----c-cchHHHHHHHHHHHHHHHHHHHHcCCEEEEEEee
Confidence            322222    22222  2349999999999999842211     0 011112233344566666554 448888888887


Q ss_pred             CCC-----------CCchhHHHHHHhhccceEEEec
Q 041690          165 HLG-----------NSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       165 ~~~-----------~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      ...           ..|.+...+.|+.+.++.+...
T Consensus       328 ~~~~~g~~~~~g~~~~p~gg~~l~~~ad~vl~L~~~  363 (400)
T 3lda_A          328 VAQVDGGMAFNPDPKKPIGGNIMAYSSTTRLGFKKG  363 (400)
T ss_dssp             --------------------CHHHHHCSEEEEEEEC
T ss_pred             cccCCccccccCCCccCCchhHHHHhcceEEEEEec
Confidence            311           1233445899999999999974

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.53  E-value=1.1e-13  Score=117.74  Aligned_cols=137  Identities=17%  Similarity=0.193  Sum_probs=86.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||+||+.++....   +..+++++...       ....+.+..              ...++.+|
T Consensus        43 ~~~~~iLL~GppGtGKT~la~ala~~~~---~~~~~~i~~~~-------l~~~~~g~~--------------~~~~~~lf   98 (322)
T 1xwi_A           43 TPWRGILLFGPPGTGKSYLAKAVATEAN---NSTFFSISSSD-------LVSKWLGES--------------EKLVKNLF   98 (322)
T ss_dssp             CCCSEEEEESSSSSCHHHHHHHHHHHTT---SCEEEEEECCS-------SCCSSCCSC--------------HHHHHHHH
T ss_pred             CCCceEEEECCCCccHHHHHHHHHHHcC---CCcEEEEEhHH-------HHhhhhhHH--------------HHHHHHHH
Confidence            4668999999999999999998887542   56777775332       222222222              56777788


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++++...     +.........++.++++..++   .+......++++++++.++....  .+
T Consensus        99 ~~a~--~~~~~vl~iDEid~l~~~-----~~~~~~~~~~~~~~~ll~~ld---~~~~~~~~v~vI~atn~~~~ld~--al  166 (322)
T 1xwi_A           99 QLAR--ENKPSIIFIDEIDSLCGS-----RSENESEAARRIKTEFLVQMQ---GVGVDNDGILVLGATNIPWVLDS--AI  166 (322)
T ss_dssp             HHHH--HTSSEEEEEETTTGGGCC-----SSSCCTTHHHHHHHHHHHHHH---CSSSCCTTEEEEEEESCTTTSCH--HH
T ss_pred             HHHH--hcCCcEEEeecHHHhccc-----cccccchHHHHHHHHHHHHHh---cccccCCCEEEEEecCCcccCCH--HH
Confidence            7665  334999999999999873     222222233344444433333   22223456888888887754432  44


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      .++++..+.++..
T Consensus       167 ~rRf~~~i~i~~P  179 (322)
T 1xwi_A          167 RRRFEKRIYIPLP  179 (322)
T ss_dssp             HHTCCEEEECCCC
T ss_pred             HhhcCeEEEeCCc
Confidence            4577777777653

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=99.53  E-value=1.9e-13  Score=117.82  Aligned_cols=185  Identities=12%  Similarity=0.147  Sum_probs=102.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++|.+++|+||||+|||+||.+++..++ ..|.+|+|+++|..+....  . ..++..   .+++.+......+.+.+.+
T Consensus        61 ~~G~ii~I~G~pGsGKTtLal~la~~~~-~~g~~vlyid~E~s~~~~~--a-~~~g~~---~~~l~i~~~~~~e~~~~~~  133 (356)
T 1u94_A           61 PMGRIVEIYGPESSGKTTLTLQVIAAAQ-REGKTCAFIDAEHALDPIY--A-RKLGVD---IDNLLCSQPDTGEQALEIC  133 (356)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEESSCCCCHHH--H-HHTTCC---GGGCEEECCSSHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEeCCCCccHHH--H-HHcCCC---hhheeeeCCCCHHHHHHHH
Confidence            5899999999999999999999999888 6688999999886443211  1 111111   1244433333344444444


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCc-c-hhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCC-------
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNP-R-GRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLG-------  167 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~-~-~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~-------  167 (233)
                      ..+.. ...+++||||+++++........+.++. . .+...+.+.   +..+...+++.+.++|++.+.+..       
T Consensus       134 ~~l~~-~~~~~lVVIDsl~~l~~~~e~~~~~g~~~~~~q~r~~~~~---l~~L~~~a~~~~~~VI~~nq~~~~~~~~fg~  209 (356)
T 1u94_A          134 DALAR-SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQA---MRKLAGNLKQSNTLLIFINQIRMKIGVMFGN  209 (356)
T ss_dssp             HHHHH-HTCCSEEEEECGGGCCCHHHHTTC------CHHHHHHHHH---HHHHHHHHHHHTCEEEEEEC-----------
T ss_pred             HHHHh-ccCCCEEEEcCHHHhcchhhhccccccchhHHHHHHHHHH---HHHHHHHHHHhCCEEEEEeccccccCcccCC
Confidence            43321 2348999999999998521000000010 0 011111111   223333445667777777665432       


Q ss_pred             -CCchhHHHHHHhhccceEEEec-----C------CccEEEeeccCcccccccccceeeeEE
Q 041690          168 -NSTRLLYIYKRWISSIFTVKGD-----G------PGSFLLRNKNYSRSCGLGKTRIAKYSI  217 (233)
Q Consensus       168 -~~~~~~~~~~~~~~~~~~i~~~-----~------~~~~~l~~~~~~~~~~~~~~~~~~~~~  217 (233)
                       ..|.+...+.++.+.++.+...     +      ...+.+.++...+     ..+.+.|.|
T Consensus       210 ~~~~~gG~~l~~~advrl~l~r~~~~k~g~~~~g~~~~~~i~K~r~~p-----~~~~~~f~i  266 (356)
T 1u94_A          210 PETTTGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAA-----PFKQAEFQI  266 (356)
T ss_dssp             ---CTTCSHHHHHCSEEEEEEEEEEEESSSSEEEEEEEEEEEEESSBC-----SCCEEEEEE
T ss_pred             CcccCCCcceeeeccEEEEEEEeeeeccCccccCcEEEEEECCCccCC-----CCCcEEEEE
Confidence             2233445789999988887653     1      2346666655543     224456665

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=99.52  E-value=3.5e-13  Score=114.51  Aligned_cols=165  Identities=13%  Similarity=0.122  Sum_probs=94.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhh-----------cCC----CeEEEEecCCcccccccccccc---cC-Cchhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCAS-----------QSN----ANVVFMCNRSRLQSKRPYLSQS---ID-PSSHV   77 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~-----------~~g----~~v~yi~~e~~l~~~~~~~~~~---~~-~~~~~   77 (233)
                      ++|+.++|+||||+|||+||.+++.+++.           ..|    .+|+|+++|..+.  ++++.+.   ++ +.+..
T Consensus        96 ~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~--~~~l~~~~~~~g~~~~~~  173 (322)
T 2i1q_A           96 ESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFR--PERIMQMAEHAGIDGQTV  173 (322)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCC--HHHHHHHHHHHTCCHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCC--HHHHHHHHHHcCCCHHHH
Confidence            58999999999999999999999987532           224    7999999986431  1211111   11 22333


Q ss_pred             hcceEEEEecCHHHHHHHHHHhcc--cC-CCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHH-hhh
Q 041690           78 FKLIQMKYVEDDEEIKKYFAAFHQ--HD-KIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITH-ANK  153 (233)
Q Consensus        78 ~~~i~~~~~~~~~~l~~~~~~~~~--~~-~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~-l~~  153 (233)
                      .+++.+......+.+..++..+..  .+ ..+++||||++++++.....+ + +....+    ...+..++..+.. +++
T Consensus       174 ~~~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~~~~~-~-~~~~~r----~~~~~~~~~~L~~la~~  247 (322)
T 2i1q_A          174 LDNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTG-R-GKLAER----QQKLGRHMATLNKLADL  247 (322)
T ss_dssp             HHTEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSHHHHHHCCC-T-TSHHHH----HHHHHHHHHHHHHHHHH
T ss_pred             hcCEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcHHHHHHHhcC-C-ccHHHH----HHHHHHHHHHHHHHHHH
Confidence            456655444444432222222211  12 348999999999998631100 0 000111    1122333333433 345


Q ss_pred             cCCcEEEEeecCCC--------CCchhHHHHHHhhccceEEEec
Q 041690          154 KSPCKLLLSDTHLG--------NSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       154 ~~~~vlvi~~~~~~--------~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      .+.+++++.+.+..        ..|.+...+.++.+.++.+...
T Consensus       248 ~~~~vi~~nq~~~~~~~~~g~~~~~~g~~~~~~~~d~~i~l~~~  291 (322)
T 2i1q_A          248 FNCVVLVTNQVSAKPDAFFGMAEQAIGGHIVGHAATFRFFVRKG  291 (322)
T ss_dssp             TTCEEEEEECEECC-------CCEESSHHHHHHHCSEEEEEEEC
T ss_pred             hCCEEEEECceeecCCCCCCCCcCCCCcHHHHhcCcEEEEEEec
Confidence            56666666554422        1355666899999999999875

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=99.52  E-value=1.1e-12  Score=113.47  Aligned_cols=162  Identities=15%  Similarity=0.163  Sum_probs=91.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++|.+++|+||||+|||+||.+++..++ ..|.+|+|+++|..+....   ...++..   .+++.+......+.+...+
T Consensus        72 ~~G~li~I~G~pGsGKTtlal~la~~~~-~~g~~vlyi~~E~s~~~~~---a~~~g~d---~~~l~i~~~~~~e~~l~~l  144 (366)
T 1xp8_A           72 PRGRITEIYGPESGGKTTLALAIVAQAQ-KAGGTCAFIDAEHALDPVY---ARALGVN---TDELLVSQPDNGEQALEIM  144 (366)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEEESSCCCCHHH---HHHTTCC---GGGCEEECCSSHHHHHHHH
T ss_pred             cCCcEEEEEcCCCCChHHHHHHHHHHHH-HCCCeEEEEECCCChhHHH---HHHcCCC---HHHceeecCCcHHHHHHHH
Confidence            5899999999999999999999999888 6688999999885432211   1111110   1244443333444444444


Q ss_pred             HHhcccCCCCcEEEEeCCCccccc-cccccccCCcchhhHHHHHHHHHHHHHHH-HhhhcCCcEEEEeecCC--------
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDD-RTCQERYTNPRGRDLAMVRTLALCYNAIT-HANKKSPCKLLLSDTHL--------  166 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~l~~~~~-~l~~~~~~vlvi~~~~~--------  166 (233)
                      ..+.. ...+++||||++++++.. ...+..++......   .+.+...+..+. .+++.+.++|++.+.+.        
T Consensus       145 ~~l~~-~~~~~lVVIDsl~~l~~~~e~~g~~gd~~~~~~---~r~~~~~lr~L~~~a~~~~~~VI~~nq~~~~~~~~fg~  220 (366)
T 1xp8_A          145 ELLVR-SGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQ---ARLMSQALRKLTAILSKTGTAAIFINQVREKIGVMYGN  220 (366)
T ss_dssp             HHHHT-TTCCSEEEEECTTTCCCSTTC--------CCHH---HHHHHHHHHHHHHHHTTTCCEEEEEEEC----------
T ss_pred             HHHHh-cCCCCEEEEeChHHhccccccccccccchhhHH---HHHHHHHHHHHHHHHHHcCCEEEEEEecccccCcccCC
Confidence            43321 234899999999999852 11000000000001   111222222222 34455777777666542        


Q ss_pred             CCCchhHHHHHHhhccceEEEec
Q 041690          167 GNSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      +..|.+...+.++.+.++.+...
T Consensus       221 p~~~~gg~al~~~a~~rl~L~r~  243 (366)
T 1xp8_A          221 PETTTGGRALKFYASVRLDVRKI  243 (366)
T ss_dssp             -----CHHHHHHHCSEEEEEEEE
T ss_pred             ccccCCcchhhheeeEEEEEEec
Confidence            12344566789999999998864

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=99.50  E-value=3e-13  Score=116.05  Aligned_cols=189  Identities=13%  Similarity=0.116  Sum_probs=101.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCccccccccccc---ccC-CchhhhcceEEEEe
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKRPYLSQ---SID-PSSHVFKLIQMKYV   86 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~~~~~~---~~~-~~~~~~~~i~~~~~   86 (233)
                      .++|.+++|+||||+|||+||++++..++..     .+.+++|+++|..+.  +..+.+   .++ +.+.+++++.+...
T Consensus       119 l~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~--~~~l~~~~~~~g~~~~~~l~~l~~~~~  196 (343)
T 1v5w_A          119 IESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFR--PDRLRDIADRFNVDHDAVLDNVLYARA  196 (343)
T ss_dssp             BCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCC--HHHHHHHHHHTTCCHHHHHHTEEEEEC
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCC--HHHHHHHHHHcCCCHHHHHhceeEeec
Confidence            3689999999999999999999999886532     478999999986432  111111   111 22334456655333


Q ss_pred             cCHHHHHHHH----HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh-hhcCCcEEEE
Q 041690           87 EDDEEIKKYF----AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA-NKKSPCKLLL  161 (233)
Q Consensus        87 ~~~~~l~~~~----~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-~~~~~~vlvi  161 (233)
                      ...+.+..++    ..+......+++||||++++++.....+ ++ ....+    ...+..++..+..+ ++.+.+++++
T Consensus       197 ~~~e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~l~~~~~~~-~g-~~~~r----~~~l~~~l~~L~~la~~~~~~Vi~~  270 (343)
T 1v5w_A          197 YTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSG-RG-ELAER----QQKLAQMLSRLQKISEEYNVAVFVT  270 (343)
T ss_dssp             CSTTHHHHHHHHHHHHHHHSCSSEEEEEEETSGGGHHHHCCG-GG-CHHHH----HHHHHHHHHHHHHHHHHHTCEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCCccEEEEechHHHHHHHhcc-cc-cHHHH----HHHHHHHHHHHHHHHHHhCCEEEEE
Confidence            2222222222    2222111448999999999998632110 00 00111    11223333333333 3456777766


Q ss_pred             eecCCCC-----------CchhHHHHHHhhccceEEEecC--CccEEEeeccCcccccccccceeeeEEe
Q 041690          162 SDTHLGN-----------STRLLYIYKRWISSIFTVKGDG--PGSFLLRNKNYSRSCGLGKTRIAKYSIA  218 (233)
Q Consensus       162 ~~~~~~~-----------~~~~~~~~~~~~~~~~~i~~~~--~~~~~l~~~~~~~~~~~~~~~~~~~~~~  218 (233)
                      .+.+...           .|.+...+.++.+.++.+....  .+...+.+..+.+      ...+.|.|.
T Consensus       271 nq~~~~~~~~~~~~g~~~~~~gg~~i~~~ad~~l~l~r~~~~~r~~~v~K~r~~p------~~~~~f~I~  334 (343)
T 1v5w_A          271 NQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMP------ENEATFAIT  334 (343)
T ss_dssp             ECC-------------------CCTTTTSSSEEEEEEESSTTEEEEEEEECTTCC------SSCEEEEEE
T ss_pred             eeceecCCCccccCCCCCcCCchHHHHHhCCEEEEEEEcCCCEEEEEEEECCCCC------CeeEEEEEe
Confidence            6654321           1223335888999999998752  2234444444332      234567765

>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=99.50  E-value=4.2e-13  Score=115.46  Aligned_cols=178  Identities=12%  Similarity=0.074  Sum_probs=96.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhh--cC---CCeEEEEecCCccc-ccccccccccC-CchhhhcceEEEEecCH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCAS--QS---NANVVFMCNRSRLQ-SKRPYLSQSID-PSSHVFKLIQMKYVEDD   89 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~--~~---g~~v~yi~~e~~l~-~~~~~~~~~~~-~~~~~~~~i~~~~~~~~   89 (233)
                      ++|++++|+||||||||||+++++...+.  ..   +++|+|+++++.+. .....+.+..+ ....+.+++.+......
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i~~i~q~~~~~~~~v~~ni~~~~~~~~  208 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFNS  208 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHHHHHHTTTCCHHHHGGGEEEEECCSH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHHHHHHHHcCCCHHHHhhCEEEEecCCh
Confidence            69999999999999999999999987741  12   46889999886431 11111222222 23355667766432222


Q ss_pred             HHHHHHHHHhccc--C-----CCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhh-hcCCcEEEE
Q 041690           90 EEIKKYFAAFHQH--D-----KIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHAN-KKSPCKLLL  161 (233)
Q Consensus        90 ~~l~~~~~~~~~~--~-----~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~-~~~~~vlvi  161 (233)
                      .....++..+...  .     ..|++|||||+++.++....+     .... ......+..++..+..+. +.+.+++++
T Consensus       209 ~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~ld~~~~~-----~~~~-~~r~~~~~~~l~~L~~la~~~~~tvii~  282 (349)
T 1pzn_A          209 NHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIG-----RGAL-AERQQKLAKHLADLHRLANLYDIAVFVT  282 (349)
T ss_dssp             HHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTTHHHHCCS-----TTTH-HHHHHHHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             HHHHHHHHHHHHHHHHhccccCCCCEEEEeCchHhhhhhhcc-----cccH-HHHHHHHHHHHHHHHHHHHHcCcEEEEE
Confidence            2222222222110  1     359999999999999742100     0000 011112233444444443 346777777


Q ss_pred             eecCCC-C-------CchhHHHHHHhhccceEEEecCCccEEEeeccC
Q 041690          162 SDTHLG-N-------STRLLYIYKRWISSIFTVKGDGPGSFLLRNKNY  201 (233)
Q Consensus       162 ~~~~~~-~-------~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~  201 (233)
                      ++.... +       .|.+..++.++.+.++.+.... +..++.+...
T Consensus       283 ~h~~~~~~~~~~~~~~~~~G~~l~~~~~~rL~l~~~~-~~~Ri~k~~k  329 (349)
T 1pzn_A          283 NQVQARPDAFFGDPTRPIGGHILAHSATLRVYLRKGK-GGKRIARLID  329 (349)
T ss_dssp             EECC---------------CCCCCTTCSEEEEEEECT-TSEEEEEESC
T ss_pred             cccccccccccCCccccCCcceEeecCcEEEEEEEcC-CCeEEEEEEe
Confidence            665421 1       1233446677788888888643 2344444443

>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=99.49  E-value=8.8e-13  Score=106.86  Aligned_cols=166  Identities=11%  Similarity=0.095  Sum_probs=85.5

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCccccc--ccccccccCCchhhhcceEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSK--RPYLSQSIDPSSHVFKLIQMKYVED   88 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~--~~~~~~~~~~~~~~~~~i~~~~~~~   88 (233)
                      .++|..++|+||||+|||||+++++...+..     .+.+++|++++..+...  ........-..+.+.+++.+.....
T Consensus        21 i~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~  100 (243)
T 1n0w_A           21 IETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFN  100 (243)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHHHHHHHcCCCHHHHhhCeEEEecCC
Confidence            3589999999999999999999999865422     26789999987532111  0111111112233445655533333


Q ss_pred             HHHHHHH----HHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHH-hhhcCCcEEEEee
Q 041690           89 DEEIKKY----FAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITH-ANKKSPCKLLLSD  163 (233)
Q Consensus        89 ~~~l~~~----~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~-l~~~~~~vlvi~~  163 (233)
                      .......    ...+.  ...|++|||||++++++...++.  +....+.    +.+..++..+.. +++.+.+++++++
T Consensus       101 ~~~~~~~~~~~~~~~~--~~~~~lliiD~~~~~~~~~~~~~--~~~~~r~----~~~~~~~~~l~~~~~~~~~tvi~~~h  172 (243)
T 1n0w_A          101 TDHQTQLLYQASAMMV--ESRYALLIVDSATALYRTDYSGR--GELSARQ----MHLARFLRMLLRLADEFGVAVVITNQ  172 (243)
T ss_dssp             HHHHHHHHHHHHHHHH--HSCEEEEEEETSSGGGC---------CHHHHH----HHHHHHHHHHHHHHHHHCCEEEEEC-
T ss_pred             HHHHHHHHHHHHHHHh--cCCceEEEEeCchHHHHHHhcCC--ccHHHHH----HHHHHHHHHHHHHHHHcCCEEEEEee
Confidence            3332222    22222  23499999999999987421100  0001111    112223333333 3345788888776


Q ss_pred             cCCCC-----------CchhHHHHHHhhccceEEEec
Q 041690          164 THLGN-----------STRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       164 ~~~~~-----------~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      .....           .|.+...+++.++.++.+...
T Consensus       173 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~d~vi~l~~~  209 (243)
T 1n0w_A          173 VVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKG  209 (243)
T ss_dssp             ------------------------CCTTCEEEEEEEC
T ss_pred             eeecCCCccccCCCcccCCccChhhhcCcEEEEEEEc
Confidence            54321           123333577789999999864

>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=99.46  E-value=1.9e-13  Score=116.17  Aligned_cols=135  Identities=19%  Similarity=0.222  Sum_probs=82.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||++|+.++...    +.++++++..       .....+.+..              ...++.+|
T Consensus        49 ~~~~~vLl~GppGtGKT~la~aia~~~----~~~~~~v~~~-------~l~~~~~g~~--------------~~~~~~~f  103 (322)
T 3eie_A           49 KPTSGILLYGPPGTGKSYLAKAVATEA----NSTFFSVSSS-------DLVSKWMGES--------------EKLVKQLF  103 (322)
T ss_dssp             CCCCEEEEECSSSSCHHHHHHHHHHHH----TCEEEEEEHH-------HHHTTTGGGH--------------HHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHH----CCCEEEEchH-------HHhhcccchH--------------HHHHHHHH
Confidence            356789999999999999999887643    5678887522       2222222111              45677777


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++.+....     .........+++..++..   +..+......+++|++++.++....  .+
T Consensus       104 ~~a~--~~~~~vl~iDEid~l~~~~-----~~~~~~~~~~~~~~ll~~---l~~~~~~~~~v~vi~atn~~~~ld~--al  171 (322)
T 3eie_A          104 AMAR--ENKPSIIFIDQVDALTGTR-----GEGESEASRRIKTELLVQ---MNGVGNDSQGVLVLGATNIPWQLDS--AI  171 (322)
T ss_dssp             HHHH--HTSSEEEEEECGGGGSCC-----------CCTHHHHHHHHHH---HGGGGTSCCCEEEEEEESCGGGSCH--HH
T ss_pred             HHHH--hcCCeEEEechhhhhhccC-----CCCcchHHHHHHHHHHHH---hccccccCCceEEEEecCChhhCCH--HH
Confidence            7665  3348999999999998742     112222233344444333   3333334556888888887654322  34


Q ss_pred             HHhhccceEEEe
Q 041690          177 KRWISSIFTVKG  188 (233)
Q Consensus       177 ~~~~~~~~~i~~  188 (233)
                      .++++..++++.
T Consensus       172 ~~Rf~~~i~~~~  183 (322)
T 3eie_A          172 RRRFERRIYIPL  183 (322)
T ss_dssp             HHHCCEEEECCC
T ss_pred             HcccCeEEEeCC
Confidence            457777777765

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=99.46  E-value=1.2e-12  Score=106.23  Aligned_cols=156  Identities=18%  Similarity=0.152  Sum_probs=85.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-cccCCchhh-hcceEEEE--------
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-QSIDPSSHV-FKLIQMKY--------   85 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-~~~~~~~~~-~~~i~~~~--------   85 (233)
                      .++|+.++|+||||+|||||+.+++...+ ..+.+++|++++........+.. .+....... ..++.+..        
T Consensus        20 l~~G~~~~i~G~~GsGKTtl~~~~~~~~~-~~~~~v~~~~~e~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~   98 (247)
T 2dr3_A           20 IPERNVVLLSGGPGTGKTIFSQQFLWNGL-KMGEPGIYVALEEHPVQVRQNMAQFGWDVKPYEEKGMFAMVDAFTAGIGK   98 (247)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHHHHHH-HTTCCEEEEESSSCHHHHHHHHHTTTCCCHHHHHHTSEEEEECSTTTTCC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEEccCCHHHHHHHHHHcCCCHHHHhhCCcEEEEecchhhccc
Confidence            36899999999999999999999998888 66889999998742211111111 111111000 01222211        


Q ss_pred             -----------ecCHHHHHHHH-HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhh
Q 041690           86 -----------VEDDEEIKKYF-AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANK  153 (233)
Q Consensus        86 -----------~~~~~~l~~~~-~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~  153 (233)
                                 ......+...+ ..+.  ...|++|+||+++.+...        +.  ...+  +.   +..+.+.+++
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~i~~~~~--~~~~~~vviD~~~~l~~~--------~~--~~~~--~~---l~~l~~~~~~  161 (247)
T 2dr3_A           99 SKEYEKYIVHDLTDIREFIEVLRQAIR--DINAKRVVVDSVTTLYIN--------KP--AMAR--SI---ILQLKRVLAG  161 (247)
T ss_dssp             --CCCSCBCSCCSSHHHHHHHHHHHHH--HHTCCEEEEETSGGGTTT--------CG--GGHH--HH---HHHHHHHHHH
T ss_pred             ccccccccccCccCHHHHHHHHHHHHH--HhCCCEEEECCchHhhcC--------CH--HHHH--HH---HHHHHHHHHH
Confidence                       01111222222 2222  123899999999998741        11  1111  11   2333344456


Q ss_pred             cCCcEEEEeecCCCCCchhHHHHHHhhccceEEEec
Q 041690          154 KSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       154 ~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      .+.+++++++.+..........+++++|.++.+...
T Consensus       162 ~~~~vi~~~h~~~~~~~~~~~~~~~~~D~vi~L~~~  197 (247)
T 2dr3_A          162 TGCTSIFVSQVSVGERGFGGPGVEHGVDGIIRLDLD  197 (247)
T ss_dssp             TTCEEEEEEECC----CCC-CCHHHHSSEEEEEEEE
T ss_pred             CCCeEEEEecCCCCcccccccccceeEEEEEEEEEE
Confidence            688888888776532110011367888999998864

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.44  E-value=7.2e-13  Score=110.23  Aligned_cols=140  Identities=19%  Similarity=0.223  Sum_probs=81.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||++++.++..    .+.++++++...       ......+..              ...+..++
T Consensus        49 ~~~~~~ll~G~~GtGKT~la~~la~~----~~~~~~~v~~~~-------~~~~~~~~~--------------~~~~~~~~  103 (285)
T 3h4m_A           49 EPPKGILLYGPPGTGKTLLAKAVATE----TNATFIRVVGSE-------LVKKFIGEG--------------ASLVKDIF  103 (285)
T ss_dssp             CCCSEEEEESSSSSSHHHHHHHHHHH----TTCEEEEEEGGG-------GCCCSTTHH--------------HHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHH----hCCCEEEEehHH-------HHHhccchH--------------HHHHHHHH
Confidence            46788999999999999999988763    456788875321       111111111              34566666


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++.+...     +.+.........+..+..+++.+..... ...+++|++++.++........
T Consensus       104 ~~~~--~~~~~vl~iDEid~l~~~-----~~~~~~~~~~~~~~~l~~ll~~~~~~~~-~~~~~vI~ttn~~~~l~~~l~~  175 (285)
T 3h4m_A          104 KLAK--EKAPSIIFIDEIDAIAAK-----RTDALTGGDREVQRTLMQLLAEMDGFDA-RGDVKIIGATNRPDILDPAILR  175 (285)
T ss_dssp             HHHH--HTCSEEEEEETTHHHHBC-----CSSSCCGGGGHHHHHHHHHHHHHHTTCS-SSSEEEEEECSCGGGBCHHHHS
T ss_pred             HHHH--HcCCeEEEEECHHHhccc-----CccccCCccHHHHHHHHHHHHHhhCCCC-CCCEEEEEeCCCchhcCHHHcC
Confidence            6554  334899999999999863     2222222222334444444444433322 3457777777766443322222


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+++.++.++..
T Consensus       176 ~~Rf~~~i~~~~p  188 (285)
T 3h4m_A          176 PGRFDRIIEVPAP  188 (285)
T ss_dssp             TTSEEEEEECCCC
T ss_pred             CCcCCeEEEECCC
Confidence            2266767777653

>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=99.44  E-value=3.1e-12  Score=102.76  Aligned_cols=177  Identities=13%  Similarity=0.077  Sum_probs=93.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCcccc-cccccccccC-CchhhhcceEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQS-KRPYLSQSID-PSSHVFKLIQMKYVED   88 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~-~~~~~~~~~~-~~~~~~~~i~~~~~~~   88 (233)
                      .++|..+.|.||||||||||+++++......     .+..++|++.+..+.. ....+.+..+ ....+.+++.+.....
T Consensus        22 i~~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~  101 (231)
T 4a74_A           22 IETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFN  101 (231)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHHTTSCHHHHHHTEEEEECCS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHHHHHHHHHcCCCHHHHhhcEEEEecCC
Confidence            3689999999999999999999998765521     2567999987753211 1112222222 2234555666543332


Q ss_pred             HHH----HHHHHHHhc---ccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh-hhcCCcEEE
Q 041690           89 DEE----IKKYFAAFH---QHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA-NKKSPCKLL  160 (233)
Q Consensus        89 ~~~----l~~~~~~~~---~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-~~~~~~vlv  160 (233)
                      ...    +..+...+.   .....|++|++||+++.++....+     .. ......+.+..+++.+..+ ++.+.++++
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~l~~~~~~-----~~-~~~~r~~~~~~~~~~l~~~~~~~g~tvi~  175 (231)
T 4a74_A          102 SNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIG-----RG-ALAERQQKLAKHLADLHRLANLYDIAVFV  175 (231)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSSSCEEEEEEETSSHHHHHHSCS-----TT-HHHHHHHHHHHHHHHHHHHHHHHTCEEEE
T ss_pred             hHHHHHHHHHHHHHHHHhcccCCceeEEEECChHHHhccccCC-----Cc-chhHHHHHHHHHHHHHHHHHHHCCCeEEE
Confidence            221    122222221   102349999999999988742110     00 0111111122344444443 345888888


Q ss_pred             EeecCCCCCchhHHHHHHhhccceEEEecC--CccEEEeeccCc
Q 041690          161 LSDTHLGNSTRLLYIYKRWISSIFTVKGDG--PGSFLLRNKNYS  202 (233)
Q Consensus       161 i~~~~~~~~~~~~~~~~~~~~~~~~i~~~~--~~~~~l~~~~~~  202 (233)
                      +++....    ....+.++.+.++.+....  .+...+.+++..
T Consensus       176 vtH~~~~----~g~~~~~~~d~~l~l~~~~~~~r~l~~~K~r~~  215 (231)
T 4a74_A          176 TNQVQAN----GGHILAHSATLRVYLRKGKGGKRIARLIDAPHL  215 (231)
T ss_dssp             EEECC-------------CCSEEEEEEECTTSCEEEEEESCC--
T ss_pred             EeecccC----cchhhHhhceEEEEEEecCCCeEEEEEEeCCCC
Confidence            8876554    2337888999999998742  223444444443

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.43  E-value=6.8e-13  Score=111.44  Aligned_cols=143  Identities=10%  Similarity=-0.013  Sum_probs=74.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++.+++|+||||||||+|++++|...    +.++++++..       .......+.              ....++..|
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~~l----~~~~i~v~~~-------~l~~~~~g~--------------~~~~i~~~f   88 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFRKM----GINPIMMSAG-------ELESGNAGE--------------PAKLIRQRY   88 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHHHH----TCCCEEEEHH-------HHHCC---H--------------HHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh----CCCEEEEeHH-------HhhhccCch--------------hHHHHHHHH
Confidence            456789999999999999999888754    5678888621       111111111              144566666


Q ss_pred             HHhcc--cCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHH-----H--hhhcCCcEEEEeecCCC
Q 041690           97 AAFHQ--HDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAIT-----H--ANKKSPCKLLLSDTHLG  167 (233)
Q Consensus        97 ~~~~~--~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~-----~--l~~~~~~vlvi~~~~~~  167 (233)
                      ..+..  ....|++|+|||++.+......   ..........++..|+.+++...     .  .......+++|+++|.+
T Consensus        89 ~~a~~~~~~~~~~vl~iDEiD~~~~~~~~---~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~  165 (293)
T 3t15_A           89 REAAEIIRKGNMCCLFINDLDAGAGRMGG---TTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDF  165 (293)
T ss_dssp             HHHHHHHTTSSCCCEEEECCC-----------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSC
T ss_pred             HHHHHHHhcCCCeEEEEechhhhcCCCCC---CccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCc
Confidence            65510  1334899999999998873110   00111122344455555554111     0  01123446777777766


Q ss_pred             CCchhHHHHHHhhccceEEE
Q 041690          168 NSTRLLYIYKRWISSIFTVK  187 (233)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~i~  187 (233)
                      +..........+++..+.++
T Consensus       166 ~~ld~al~R~~R~d~~i~~P  185 (293)
T 3t15_A          166 STLYAPLIRDGRMEKFYWAP  185 (293)
T ss_dssp             CC--CHHHHHHHEEEEEECC
T ss_pred             ccCCHHHhCCCCCceeEeCc
Confidence            54333333345778777655

>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=99.43  E-value=5.3e-13  Score=115.06  Aligned_cols=136  Identities=18%  Similarity=0.221  Sum_probs=80.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||+||+.++...    +.++++++.       ......+.+.              ....++.+|
T Consensus        82 ~~~~~iLL~GppGtGKT~la~ala~~~----~~~~~~v~~-------~~l~~~~~g~--------------~~~~~~~~f  136 (355)
T 2qp9_X           82 KPTSGILLYGPPGTGKSYLAKAVATEA----NSTFFSVSS-------SDLVSKWMGE--------------SEKLVKQLF  136 (355)
T ss_dssp             CCCCCEEEECSTTSCHHHHHHHHHHHH----TCEEEEEEH-------HHHHSCC-----------------CHHHHHHHH
T ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHh----CCCEEEeeH-------HHHhhhhcch--------------HHHHHHHHH
Confidence            356789999999999999999888754    467777752       2222222222              155677777


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++.+...     +.........+++.+++..++.   +......+++|++++.++....  .+
T Consensus       137 ~~a~--~~~~~vl~iDEid~l~~~-----r~~~~~~~~~~~~~~ll~~l~~---~~~~~~~v~vI~atn~~~~ld~--al  204 (355)
T 2qp9_X          137 AMAR--ENKPSIIFIDQVDALTGT-----RGEGESEASRRIKTELLVQMNG---VGNDSQGVLVLGATNIPWQLDS--AI  204 (355)
T ss_dssp             HHHH--HTSSEEEEEECGGGGTC-----------CTHHHHHHHHHHHHHHH---CC---CCEEEEEEESCGGGSCH--HH
T ss_pred             HHHH--HcCCeEEEEechHhhccc-----CCCCcchHHHHHHHHHHHHhhc---ccccCCCeEEEeecCCcccCCH--HH
Confidence            7664  234899999999999873     2222222333444444444433   2233456788888887643322  34


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      .++++..++++..
T Consensus       205 ~rRf~~~i~i~~P  217 (355)
T 2qp9_X          205 RRRFERRIYIPLP  217 (355)
T ss_dssp             HHTCCEEEECCCC
T ss_pred             HcccCEEEEeCCc
Confidence            4467777777653

>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=99.38  E-value=3.6e-13  Score=113.49  Aligned_cols=140  Identities=14%  Similarity=0.219  Sum_probs=80.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||++++.++..    .+.++++++.       ........+..              ...++.+|
T Consensus        47 ~~~~~vLL~Gp~GtGKT~la~ala~~----~~~~~i~v~~-------~~l~~~~~g~~--------------~~~~~~~f  101 (301)
T 3cf0_A           47 TPSKGVLFYGPPGCGKTLLAKAIANE----CQANFISIKG-------PELLTMWFGES--------------EANVREIF  101 (301)
T ss_dssp             CCCSEEEEECSSSSSHHHHHHHHHHH----TTCEEEEECH-------HHHHHHHHTTC--------------TTHHHHHH
T ss_pred             CCCceEEEECCCCcCHHHHHHHHHHH----hCCCEEEEEh-------HHHHhhhcCch--------------HHHHHHHH
Confidence            57889999999999999999988764    3466777742       22222222211              34566777


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++.+.......  .........+.+..++..++.   +. ....+++|+++|.++........
T Consensus       102 ~~a~--~~~p~il~iDEid~l~~~~~~~--~~~~~~~~~~~~~~lL~~l~~---~~-~~~~v~vi~atn~~~~ld~al~r  173 (301)
T 3cf0_A          102 DKAR--QAAPCVLFFDELDSIAKARGGN--IGDGGGAADRVINQILTEMDG---MS-TKKNVFIIGATNRPDIIDPAILR  173 (301)
T ss_dssp             HHHH--HTCSEEEEECSTTHHHHHHTTT--TCCSSCSCCHHHHHHHHHHHS---SC-TTSSEEEEEEESCGGGSCGGGGS
T ss_pred             HHHH--hcCCeEEEEEChHHHhhccCCC--cCCcchHHHHHHHHHHHHhhc---cc-CCCCEEEEEecCCccccChHHhc
Confidence            7664  2348999999999988632110  001111222334444433332   22 23457788888876433222122


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+++..++++..
T Consensus       174 ~gRf~~~i~i~~p  186 (301)
T 3cf0_A          174 PGRLDQLIYIPLP  186 (301)
T ss_dssp             TTSSCEEEECCCC
T ss_pred             CCccceEEecCCc
Confidence            2367777777653

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=99.38  E-value=3.5e-12  Score=103.65  Aligned_cols=171  Identities=15%  Similarity=0.110  Sum_probs=89.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-cccCCchhhhc-ceEEE----------
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-QSIDPSSHVFK-LIQMK----------   84 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-~~~~~~~~~~~-~i~~~----------   84 (233)
                      ++|+.++|+|+||+|||+||.|++.+.+...+.+++|++.|...+....++. ...+....... ++.+.          
T Consensus        28 ~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~  107 (251)
T 2zts_A           28 PEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEERARDLRREMASFGWDFEKYEKEGKIAIVDGVSSVVGLP  107 (251)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHHHTTTCCHHHHHHTTSEEEEC---------
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecccCCHHHHHHHHHHcCCChHHHHhcCcchhhhhHHHHhhcc
Confidence            5899999999999999999999998876566889999997742211111111 11110000000 11110          


Q ss_pred             ----E----ecCHHHH-HHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcC
Q 041690           85 ----Y----VEDDEEI-KKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKS  155 (233)
Q Consensus        85 ----~----~~~~~~l-~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~  155 (233)
                          +    ......+ ..+...+.  ...++++|||+++.+....        .........     +..+...+++.+
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~vviD~~~~l~~~~--------~~~~~~~~~-----~~~L~~~a~~~~  172 (251)
T 2zts_A          108 SEEKFVLEDRFNVDNFLRYIYRVVK--AINAKRLVIDSIPSIALRL--------EEERKIREV-----LLKLNTILLEMG  172 (251)
T ss_dssp             ----------CCHHHHHHHHHHHHH--HTTCSEEEEECHHHHHHHS--------SSGGGHHHH-----HHHHHHHHHHHC
T ss_pred             cchhccccccccHHHHHHHHHHHHH--hcCCcEEEEEcHHHHhhhc--------cChHHHHHH-----HHHHHHHHHHcC
Confidence                0    0111122 22222222  3348999999998887531        111111111     233333455668


Q ss_pred             CcEEEEeecCCCC--CchhHHHHHHhhccceEEEec--CC---ccEEEeeccCc
Q 041690          156 PCKLLLSDTHLGN--STRLLYIYKRWISSIFTVKGD--GP---GSFLLRNKNYS  202 (233)
Q Consensus       156 ~~vlvi~~~~~~~--~~~~~~~~~~~~~~~~~i~~~--~~---~~~~l~~~~~~  202 (233)
                      .+++++++.+.+.  .....-..+++.|.++.+...  +.   +...+.|++.+
T Consensus       173 i~vi~~~q~~~~~~~~~~~~~~~~~~aD~vi~l~~~~~~~~~~R~l~I~K~R~~  226 (251)
T 2zts_A          173 VTTILTTEAPDPQHGKLSRYGIEEFIARGVIVLDLQEKNIELKRYVLIRKMRET  226 (251)
T ss_dssp             CEEEEEECCC----CCSSSSSCGGGGCSEEEEEEEEECSSSEEEEEEEEEETTC
T ss_pred             CCeEEEEEEecccccccccCCceeEEeeEEEEEEEEecCCeEEEEEEEEEcCCC
Confidence            8888887765332  111111456778888777642  22   22445665544

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=99.37  E-value=1.2e-12  Score=117.27  Aligned_cols=136  Identities=17%  Similarity=0.202  Sum_probs=84.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..+||+||||||||++|+.++.    ..+.++++++..       .......+..              ...++.+|
T Consensus       236 ~~~~~vLL~GppGtGKT~lAraia~----~~~~~fv~vn~~-------~l~~~~~g~~--------------~~~~~~~f  290 (489)
T 3hu3_A          236 KPPRGILLYGPPGTGKTLIARAVAN----ETGAFFFLINGP-------EIMSKLAGES--------------ESNLRKAF  290 (489)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHH----HCSSEEEEEEHH-------HHHTSCTTHH--------------HHHHHHHH
T ss_pred             CCCCcEEEECcCCCCHHHHHHHHHH----HhCCCEEEEEch-------Hhhhhhcchh--------------HHHHHHHH
Confidence            4667899999999999999998765    446788888522       2222222111              44667777


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++.+...     +.........+++..|+.+++..    .....+++++++|.++.......-
T Consensus       291 ~~A~--~~~p~iLfLDEId~l~~~-----~~~~~~~~~~~~~~~LL~~ld~~----~~~~~v~vIaaTn~~~~Ld~al~r  359 (489)
T 3hu3_A          291 EEAE--KNAPAIIFIDELDAIAPK-----REKTHGEVERRIVSQLLTLMDGL----KQRAHVIVMAATNRPNSIDPALRR  359 (489)
T ss_dssp             HHHH--HTCSEEEEEESHHHHCBC-----TTSCCCHHHHHHHHHHHHHHHHS----CTTSCEEEEEEESCGGGBCGGGGS
T ss_pred             HHHH--hcCCcEEEecchhhhccc-----cccccchHHHHHHHHHHHHhhcc----ccCCceEEEEecCCccccCHHHhC
Confidence            7665  334899999999999873     32233344445555555555533    234567888888876432222122


Q ss_pred             HHhhccceEEEe
Q 041690          177 KRWISSIFTVKG  188 (233)
Q Consensus       177 ~~~~~~~~~i~~  188 (233)
                      +.+|+..+.+..
T Consensus       360 ~gRf~~~i~i~~  371 (489)
T 3hu3_A          360 FGRFDREVDIGI  371 (489)
T ss_dssp             TTSSCEEEECCC
T ss_pred             CCcCceEEEeCC
Confidence            236676777665

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=99.35  E-value=1.5e-12  Score=115.51  Aligned_cols=137  Identities=17%  Similarity=0.198  Sum_probs=78.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..+||+||||||||+||+.++...   .+..+++++..       .....+.+..              ...++.+|
T Consensus       165 ~~~~~vLL~GppGtGKT~lA~aia~~~---~~~~~~~v~~~-------~l~~~~~g~~--------------~~~~~~~f  220 (444)
T 2zan_A          165 TPWRGILLFGPPGTGKSYLAKAVATEA---NNSTFFSISSS-------DLVSKWLGES--------------EKLVKNLF  220 (444)
T ss_dssp             CCCSEEEEECSTTSSHHHHHHHHHHHC---CSSEEEEECCC----------------C--------------CCTHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHc---CCCCEEEEeHH-------HHHhhhcchH--------------HHHHHHHH
Confidence            366899999999999999999888754   25667777522       1111111111              23455666


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++.+...     +.........+++++++..++.   +......+++|+++|.++....  .+
T Consensus       221 ~~a~--~~~~~vl~iDEid~l~~~-----~~~~~~~~~~~~~~~lL~~l~~---~~~~~~~v~vI~atn~~~~ld~--al  288 (444)
T 2zan_A          221 QLAR--ENKPSIIFIDEIDSLCGS-----RSENESEAARRIKTEFLVQMQG---VGVDNDGILVLGATNIPWVLDS--AI  288 (444)
T ss_dssp             HHHH--HSCSEEEEESCTTTTCCC-----SSCCCCGGGHHHHHHHHTTTTC---SSCCCSSCEEEEEESCGGGSCH--HH
T ss_pred             HHHH--HcCCeEEEEechHhhccC-----CCCccccHHHHHHHHHHHHHhC---cccCCCCEEEEecCCCccccCH--HH
Confidence            6554  234999999999999873     2222222333343333332221   1122455777877877643322  44


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      .++++.++.++..
T Consensus       289 ~rRf~~~i~i~~P  301 (444)
T 2zan_A          289 RRRFEKRIYIPLP  301 (444)
T ss_dssp             HTTCCEEEECCCC
T ss_pred             HhhcceEEEeCCc
Confidence            5577777777653

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=99.35  E-value=2.1e-12  Score=115.04  Aligned_cols=139  Identities=14%  Similarity=0.189  Sum_probs=78.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      .+..++|+||||||||+|++.++...    +.++++++..       ++.....+.              ....++.+|.
T Consensus        48 ~p~gvLL~GppGtGKT~Laraia~~~----~~~f~~is~~-------~~~~~~~g~--------------~~~~~r~lf~  102 (476)
T 2ce7_A           48 MPKGILLVGPPGTGKTLLARAVAGEA----NVPFFHISGS-------DFVELFVGV--------------GAARVRDLFA  102 (476)
T ss_dssp             CCSEEEEECCTTSSHHHHHHHHHHHH----TCCEEEEEGG-------GTTTCCTTH--------------HHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc----CCCeeeCCHH-------HHHHHHhcc--------------cHHHHHHHHH
Confidence            44669999999999999999887643    5678888632       111111111              1456777787


Q ss_pred             HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHH
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYK  177 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~  177 (233)
                      .+.  ...|++|||||++++......+  .+.........+++|+..++.+   .. ...++|++++|.++.........
T Consensus       103 ~A~--~~~p~ILfIDEid~l~~~r~~~--~~g~~~~~~~~l~~LL~~ld~~---~~-~~~viVIaaTn~~~~Ld~allR~  174 (476)
T 2ce7_A          103 QAK--AHAPCIVFIDEIDAVGRHRGAG--LGGGHDEREQTLNQLLVEMDGF---DS-KEGIIVMAATNRPDILDPALLRP  174 (476)
T ss_dssp             HHH--HTCSEEEEEETGGGTCCC-----------CHHHHHHHHHHHHHHHS---CG-GGTEEEEEEESCGGGSCGGGGST
T ss_pred             HHH--hcCCCEEEEechhhhhhhcccc--cCcCcHHHHHHHHHHHHHHhcc---CC-CCCEEEEEecCChhhhchhhccc
Confidence            765  3349999999999998742100  0011111122333443333322   22 23577777787764332222223


Q ss_pred             HhhccceEEEec
Q 041690          178 RWISSIFTVKGD  189 (233)
Q Consensus       178 ~~~~~~~~i~~~  189 (233)
                      .+|+..+.++..
T Consensus       175 gRFd~~i~i~~P  186 (476)
T 2ce7_A          175 GRFDKKIVVDPP  186 (476)
T ss_dssp             TSSCEEEECCCC
T ss_pred             CcceeEeecCCC
Confidence            467777777653

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.34  E-value=2.5e-11  Score=122.36  Aligned_cols=161  Identities=13%  Similarity=0.138  Sum_probs=96.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++|++++|+||||||||+||.|++.+.+ ..|.+++||++|+.+..... ...+++.     +++.+......+.+.+++
T Consensus        32 p~G~vtlI~G~pGsGKT~lalq~a~~~~-~~Ge~vlYI~tEes~~~~ra-~~lG~dl-----~~i~v~~p~~~e~ll~il  104 (2050)
T 3cmu_A           32 PMGRIVEIYGPESSGKTTLTLQVIAAAQ-REGKTCAFIDAEHALDPIYA-RKLGVDI-----DNLLCSQPDTGEQALEIC  104 (2050)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEECTTSCCCHHHH-HHTTCCT-----TTCEEECCSSHHHHHHHH
T ss_pred             cCCEEEEEEeCCCCCHHHHHHHHHHHhh-ccCCceEEEEccCcchhhHH-hhhccCc-----ccceecCCCcHHHHHHHH
Confidence            5899999999999999999999999888 67899999999864433221 0111111     133222223345555555


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCC-cc-hhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCC--------
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTN-PR-GRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHL--------  166 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~-~~-~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~--------  166 (233)
                      ..+.. ...+++|||||+++++.........+. .. .+...+.+.   +..+...+++.+.+++++.+...        
T Consensus       105 ~~L~~-~~~~~lVVIDSISaL~~~~e~~~e~~d~~~~~raR~l~~~---l~~L~~~ak~~gitVVlTNQv~~~~g~~fg~  180 (2050)
T 3cmu_A          105 DALAR-SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQA---MRKLAGNLKQSNTLLIFINQIRMKIGVMFGN  180 (2050)
T ss_dssp             HHHHH-HTCCSEEEESCGGGCCCHHHHHSCSSSCCTTHHHHHHHHH---HHHHHHHHHTTTCEEEEEECCEECTTCCSSC
T ss_pred             HHHHh-ccCCcEEEEcChHHhhhhcccccccccchhhHHHHHHHHH---HHHHHHHHHHhCCeEEEEEecccccccccCc
Confidence            44332 223899999999999984211000001 11 111111112   23333445566777777765421        


Q ss_pred             CCCchhHHHHHHhhccceEEEe
Q 041690          167 GNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +..|.+...+.++.+.++.+..
T Consensus       181 ~~~~~gG~~l~~iaD~VI~L~r  202 (2050)
T 3cmu_A          181 PETTTGGNALKFYASVRLDIRR  202 (2050)
T ss_dssp             CEECSSHHHHHHHEEEEEEEEE
T ss_pred             ccccCCcchhhhhCcEEEEEEe
Confidence            1235567799999999999964

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.34  E-value=6e-12  Score=125.50  Aligned_cols=161  Identities=12%  Similarity=0.150  Sum_probs=96.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++|+.++|+||||+|||+||++++.+.+ ..|.+|+|++.|..+....   ...++..   .+++.+......+.+...+
T Consensus       381 ~~G~lilI~G~pGsGKTtLaLq~a~~~~-~~G~~vlyis~E~s~~~~~---a~~lGvd---~~~L~i~~~~~~e~~l~~l  453 (1706)
T 3cmw_A          381 PMGRIVEIYGPESSGKTTLTLQVIAAAQ-REGKTCAFIDAEHALDPIY---ARKLGVD---IDNLLCSQPDTGEQALEIC  453 (1706)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEECTTSCCCHHH---HHHTTCC---GGGCEEECCSSHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHH-HhCCCeEEEEccCchHHHH---HHHcCCC---HHHeEEcCCCCHHHHHHHH
Confidence            4899999999999999999999999988 6788999999886443321   1111111   1245444444445444444


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCc--chhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCC-------
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNP--RGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLG-------  167 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~-------  167 (233)
                      ..+.. ...|++||||++++++.....+.+.++.  ..+...+.+.   +..+...+++.+.+++++++.+..       
T Consensus       454 ~~lv~-~~~~~lVVIDSL~al~~~~e~e~~~g~~~~~~q~r~~s~~---Lr~L~~~ak~~~v~VI~inQl~~~vg~~fg~  529 (1706)
T 3cmw_A          454 DALAR-SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQA---MRKLAGNLKQSNTLLIFINQIRMKIGVMFGN  529 (1706)
T ss_dssp             HHHHH-HTCCSEEEESCSTTCCCHHHHHSCTTCCCTTHHHHHHHHH---HHHHHHHHHHHTCEEEEEECEEECTTCCSSC
T ss_pred             HHHHH-hcCCCEEEECCHHHhhccccccccccccchhHHHHHHHHH---HHHHHHHHHHcCCEEEEEeecccccccccCC
Confidence            33211 2349999999999998621000011111  0111111112   333333456678888888766432       


Q ss_pred             -CCchhHHHHHHhhccceEEEe
Q 041690          168 -NSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       168 -~~~~~~~~~~~~~~~~~~i~~  188 (233)
                       ..|.+...++++.+.++.+..
T Consensus       530 ~~~p~gg~ale~~ADv~L~L~R  551 (1706)
T 3cmw_A          530 PETTTGGNALKFYASVRLDIRR  551 (1706)
T ss_dssp             CEEESSCSHHHHHEEEEEEEEE
T ss_pred             CccCCCCcceeeeCCEEEEEEe
Confidence             123334589999999888765

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.33  E-value=1.2e-11  Score=124.60  Aligned_cols=162  Identities=13%  Similarity=0.128  Sum_probs=96.9

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      .++|++++|+||||+|||+||++++.+++ ..|.+|+|++.|..+....   ...++..   .+++.+......+.+...
T Consensus       380 l~~G~lilI~G~pGsGKTtLaLqia~~~a-~~G~~vlyis~E~s~~~~~---a~~lGvd---~~~L~I~~~~~~e~il~~  452 (2050)
T 3cmu_A          380 LPMGRIVEIYGPESSGKTTLTLQVIAAAQ-REGKTCAFIDAEHALDPIY---ARKLGVD---IDNLLCSQPDTGEQALEI  452 (2050)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEECTTSCCCHHH---HHHTTCC---TTTCEEECCSSHHHHHHH
T ss_pred             ccCCcEEEEEeCCCCCHHHHHHHHHHHHH-hcCCeEEEEEcCCCHHHHH---HHHcCCC---HHHeEEeCCCCHHHHHHH
Confidence            35999999999999999999999999988 6788999999886443221   1111110   124444333444444444


Q ss_pred             HHHhcccCCCCcEEEEeCCCcccccc-ccccccCCcc-hhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCC------
Q 041690           96 FAAFHQHDKIPTAVVVDDFGDLFDDR-TCQERYTNPR-GRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLG------  167 (233)
Q Consensus        96 ~~~~~~~~~~p~iIvIDei~~~~~~~-~~~~~~~~~~-~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~------  167 (233)
                      +..+.. ...|++||||++++++... ..+..++... .+...+.+.   +..+...+++.+.+++++++.+..      
T Consensus       453 ~~~lv~-~~~~~lIVIDSL~al~~~~e~eg~~Gd~~~~~q~R~is~~---Lr~L~~lake~~i~VIlinQl~~~vg~~~g  528 (2050)
T 3cmu_A          453 CDALAR-SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQA---MRKLAGNLKQSNTLLIFINQIRMKIGVMFG  528 (2050)
T ss_dssp             HHHHHH-HTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHH---HHHHHHHHHTTTCEEEEEECCEECTTCCSS
T ss_pred             HHHHHH-hcCCcEEEECCHHHhhcccccccccccchhhHHHHHHHHH---HHHHHHHHHHcCCeEEEEeecccccccccC
Confidence            433211 2349999999999998521 1001011101 111112222   222323345667778887765422      


Q ss_pred             --CCchhHHHHHHhhccceEEEe
Q 041690          168 --NSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       168 --~~~~~~~~~~~~~~~~~~i~~  188 (233)
                        ..|.+...++++.+.++.+..
T Consensus       529 ~p~~psGg~ale~~ADv~l~L~R  551 (2050)
T 3cmu_A          529 NPETTTGGNALKFYASVRLDIRR  551 (2050)
T ss_dssp             CCEECSSHHHHHHHEEEEEEEEE
T ss_pred             CCcCCCCcchhhhhCCEEEEEEe
Confidence              234566689999999998775

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.33  E-value=1e-11  Score=108.10  Aligned_cols=135  Identities=19%  Similarity=0.218  Sum_probs=76.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      ++..+||+||||||||++|+.++.    ..+..+++++...       ......+              .....+..+|.
T Consensus       147 ~~~~vLL~GppGtGKT~la~aia~----~~~~~~~~v~~~~-------l~~~~~g--------------~~~~~~~~~~~  201 (389)
T 3vfd_A          147 PARGLLLFGPPGNGKTMLAKAVAA----ESNATFFNISAAS-------LTSKYVG--------------EGEKLVRALFA  201 (389)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHH----HTTCEEEEECSCC-------C---------------------CHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH----hhcCcEEEeeHHH-------hhccccc--------------hHHHHHHHHHH
Confidence            568999999999999999998765    4567888885321       1111111              11456667777


Q ss_pred             HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHH
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYK  177 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~  177 (233)
                      .+..  ..|++|||||++.+....     .........+++..++..++.+..  .....+++|++++.++....  .+.
T Consensus       202 ~a~~--~~~~il~iDEid~l~~~~-----~~~~~~~~~~~~~~ll~~l~~~~~--~~~~~v~vI~atn~~~~l~~--~l~  270 (389)
T 3vfd_A          202 VARE--LQPSIIFIDQVDSLLCER-----REGEHDASRRLKTEFLIEFDGVQS--AGDDRVLVMGATNRPQELDE--AVL  270 (389)
T ss_dssp             HHHH--SSSEEEEEETGGGGC-------------CTHHHHHHHHHHHHHHHC-------CEEEEEEESCGGGCCH--HHH
T ss_pred             HHHh--cCCeEEEEECchhhcccC-----CCccchHHHHHHHHHHHHhhcccc--cCCCCEEEEEecCCchhcCH--HHH
Confidence            6653  338999999999997732     112222334444444444443311  12345778888776543322  344


Q ss_pred             HhhccceEEEe
Q 041690          178 RWISSIFTVKG  188 (233)
Q Consensus       178 ~~~~~~~~i~~  188 (233)
                      +++..+++++.
T Consensus       271 ~R~~~~i~i~~  281 (389)
T 3vfd_A          271 RRFIKRVYVSL  281 (389)
T ss_dssp             TTCCEEEECCC
T ss_pred             cCcceEEEcCC
Confidence            45666666654

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.32  E-value=1.3e-11  Score=103.18  Aligned_cols=137  Identities=18%  Similarity=0.227  Sum_probs=75.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++..++|+||||||||++++.++..    .+.++++++...       ......+..              ...++.++
T Consensus        52 ~~~~~vll~Gp~GtGKT~la~~la~~----~~~~~~~i~~~~-------l~~~~~~~~--------------~~~~~~~~  106 (297)
T 3b9p_A           52 APAKGLLLFGPPGNGKTLLARAVATE----CSATFLNISAAS-------LTSKYVGDG--------------EKLVRALF  106 (297)
T ss_dssp             CCCSEEEEESSSSSCHHHHHHHHHHH----TTCEEEEEESTT-------TSSSSCSCH--------------HHHHHHHH
T ss_pred             CCCCeEEEECcCCCCHHHHHHHHHHH----hCCCeEEeeHHH-------HhhcccchH--------------HHHHHHHH
Confidence            36789999999999999999988763    356777775321       111111111              44566666


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++.+.....     ..........+..++..++.... ...+..++++++++.++....  .+
T Consensus       107 ~~~~--~~~~~vl~iDEid~l~~~~~-----~~~~~~~~~~~~~ll~~l~~~~~-~~~~~~v~vi~~tn~~~~l~~--~l  176 (297)
T 3b9p_A          107 AVAR--HMQPSIIFIDEVDSLLSERS-----SSEHEASRRLKTEFLVEFDGLPG-NPDGDRIVVLAATNRPQELDE--AA  176 (297)
T ss_dssp             HHHH--HTCSEEEEEETGGGTSBCC----------CCSHHHHHHHHHHHHHCC-------CEEEEEEESCGGGBCH--HH
T ss_pred             HHHH--HcCCcEEEeccHHHhccccc-----cCcchHHHHHHHHHHHHHhcccc-cCCCCcEEEEeecCChhhCCH--HH
Confidence            6554  23489999999999987421     11111122333333333333211 011345777887876643322  33


Q ss_pred             HHhhccceEEEe
Q 041690          177 KRWISSIFTVKG  188 (233)
Q Consensus       177 ~~~~~~~~~i~~  188 (233)
                      .++++..+.++.
T Consensus       177 ~~R~~~~i~~~~  188 (297)
T 3b9p_A          177 LRRFTKRVYVSL  188 (297)
T ss_dssp             HHHCCEEEECCC
T ss_pred             HhhCCeEEEeCC
Confidence            335666666664

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.31  E-value=4.5e-12  Score=105.46  Aligned_cols=136  Identities=17%  Similarity=0.262  Sum_probs=76.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      ...+++|+||||||||||++.++...    +...++++...       ......+.              ....+..+|.
T Consensus        43 ~~~GvlL~Gp~GtGKTtLakala~~~----~~~~i~i~g~~-------l~~~~~~~--------------~~~~i~~vf~   97 (274)
T 2x8a_A           43 TPAGVLLAGPPGCGKTLLAKAVANES----GLNFISVKGPE-------LLNMYVGE--------------SERAVRQVFQ   97 (274)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHHHT----TCEEEEEETTT-------TCSSTTHH--------------HHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHc----CCCEEEEEcHH-------HHhhhhhH--------------HHHHHHHHHH
Confidence            34459999999999999999887643    34577775332       11111000              0345667777


Q ss_pred             HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHH
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYK  177 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~  177 (233)
                      .+.  ...|+++++||++.+....     .........+..+++...++..    .+...+++++.++.++.........
T Consensus        98 ~a~--~~~p~i~~~Deid~~~~~r-----~~~~~~~~~~~~~~~l~~Lsgg----~~~~~~i~ia~tn~p~~LD~al~r~  166 (274)
T 2x8a_A           98 RAK--NSAPCVIFFDEVDALCPRR-----SDRETGASVRVVNQLLTEMDGL----EARQQVFIMAATNRPDIIDPAILRP  166 (274)
T ss_dssp             HHH--HTCSEEEEEETCTTTCC--------------CTTHHHHHHHHHHTC----CSTTCEEEEEEESCGGGSCHHHHST
T ss_pred             HHH--hcCCCeEeeehhhhhhccc-----CCCcchHHHHHHHHHHHhhhcc----cccCCEEEEeecCChhhCCHhhcCc
Confidence            653  2238999999999987632     1111111112223333222222    2345677888888776543332223


Q ss_pred             HhhccceEEEec
Q 041690          178 RWISSIFTVKGD  189 (233)
Q Consensus       178 ~~~~~~~~i~~~  189 (233)
                      .+|+..++++..
T Consensus       167 gRfd~~i~~~~P  178 (274)
T 2x8a_A          167 GRLDKTLFVGLP  178 (274)
T ss_dssp             TSSCEEEECCSC
T ss_pred             ccCCeEEEeCCc
Confidence            488988888754

>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=99.31  E-value=7.9e-12  Score=107.73  Aligned_cols=136  Identities=17%  Similarity=0.189  Sum_probs=77.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+...++|+||||||||++|+.++.    ..+..+++++..       .......+..              ...++.++
T Consensus       115 ~~~~~vLl~GppGtGKT~la~aia~----~~~~~~~~i~~~-------~l~~~~~g~~--------------~~~~~~~~  169 (357)
T 3d8b_A          115 GPPKGILLFGPPGTGKTLIGKCIAS----QSGATFFSISAS-------SLTSKWVGEG--------------EKMVRALF  169 (357)
T ss_dssp             SCCSEEEEESSTTSSHHHHHHHHHH----HTTCEEEEEEGG-------GGCCSSTTHH--------------HHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH----HcCCeEEEEehH-------HhhccccchH--------------HHHHHHHH
Confidence            3677899999999999999998876    346778888632       1111111111              44556666


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++.+...     +.........+.+..++..++.+.  ......+++|++++.++....  .+
T Consensus       170 ~~a~--~~~~~vl~iDEid~l~~~-----~~~~~~~~~~~~~~~lL~~l~~~~--~~~~~~v~vI~atn~~~~l~~--~l  238 (357)
T 3d8b_A          170 AVAR--CQQPAVIFIDEIDSLLSQ-----RGDGEHESSRRIKTEFLVQLDGAT--TSSEDRILVVGATNRPQEIDE--AA  238 (357)
T ss_dssp             HHHH--HTCSEEEEEETHHHHTBC-----------CHHHHHHHHHHHHHHC------CCCCEEEEEEESCGGGBCH--HH
T ss_pred             HHHH--hcCCeEEEEeCchhhhcc-----CCCCcchHHHHHHHHHHHHHhccc--ccCCCCEEEEEecCChhhCCH--HH
Confidence            6554  233899999999999873     211222233334444433333221  122456778877776543321  34


Q ss_pred             HHhhccceEEEe
Q 041690          177 KRWISSIFTVKG  188 (233)
Q Consensus       177 ~~~~~~~~~i~~  188 (233)
                      .++++..+.++.
T Consensus       239 ~~Rf~~~i~i~~  250 (357)
T 3d8b_A          239 RRRLVKRLYIPL  250 (357)
T ss_dssp             HTTCCEEEECCC
T ss_pred             HhhCceEEEeCC
Confidence            446666666664

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=99.29  E-value=3.2e-11  Score=96.69  Aligned_cols=168  Identities=15%  Similarity=0.100  Sum_probs=86.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-cccCCchhhhcceEE-EEe-------
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-QSIDPSSHVFKLIQM-KYV-------   86 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-~~~~~~~~~~~~i~~-~~~-------   86 (233)
                      .++|..++|+||||||||||+++++.... ..+.+++|++.+.........+. ............+.+ ...       
T Consensus        20 i~~G~~~~i~G~~GsGKTtl~~~l~~~~~-~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (235)
T 2w0m_A           20 IPQGFFIALTGEPGTGKTIFSLHFIAKGL-RDGDPCIYVTTEESRDSIIRQAKQFNWDFEEYIEKKLIIIDALMKEKEDQ   98 (235)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHHHHH-HHTCCEEEEESSSCHHHHHHHHHHTTCCCGGGBTTTEEEEECCC----CT
T ss_pred             CcCCCEEEEEcCCCCCHHHHHHHHHHHHH-HCCCeEEEEEcccCHHHHHHHHHHhcchHHHHhhCCEEEEeccccccCce
Confidence            35899999999999999999999998777 55778999987632111111110 011111000001111 000       


Q ss_pred             -----cCHHHHHH-HHHHhcccCCCCc--EEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh-hhcCCc
Q 041690           87 -----EDDEEIKK-YFAAFHQHDKIPT--AVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA-NKKSPC  157 (233)
Q Consensus        87 -----~~~~~l~~-~~~~~~~~~~~p~--iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-~~~~~~  157 (233)
                           .+...+.. +...+.  ...|+  +|||||+++++..        +.  ...      ..+++.+..+ ++.+.+
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~llilDe~~~~~~~--------d~--~~~------~~~~~~l~~~~~~~~~~  160 (235)
T 2w0m_A           99 WSLVNLTPEELVNKVIEAKQ--KLGYGKARLVIDSVSALFLD--------KP--AMA------RKISYYLKRVLNKWNFT  160 (235)
T ss_dssp             TBCSSCCHHHHHHHHHHHHH--HHCSSCEEEEEETGGGGSSS--------CG--GGH------HHHHHHHHHHHHHTTEE
T ss_pred             eeecCCCHHHHHHHHHHHHH--hhCCCceEEEEECchHhhcC--------CH--HHH------HHHHHHHHHHHHhCCCe
Confidence                 02223222 222222  12388  9999999988742        01  111      1133444443 344677


Q ss_pred             EEEEeecCCCCCchhHHHHHHhhccceEEEec--CC---ccEEEeeccCc
Q 041690          158 KLLLSDTHLGNSTRLLYIYKRWISSIFTVKGD--GP---GSFLLRNKNYS  202 (233)
Q Consensus       158 vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~~--~~---~~~~l~~~~~~  202 (233)
                      ++++++............+.++.+.++.+...  +.   +...+.+.+.+
T Consensus       161 vi~~~h~~~~~~~~~~~~~~~~~d~vi~l~~~~~~~~~~r~l~v~K~r~~  210 (235)
T 2w0m_A          161 IYATSQYAITTSQAFGFGVEHVADGIIRFRRMIRNGELHRYILIEKMRQT  210 (235)
T ss_dssp             EEEEEC-----------CHHHHCSEEEEEEEEEETTEEEEEEEEEEETTC
T ss_pred             EEEEeccCcccccccccchheeeeEEEEEEEEecCCcEEEEEEEEeccCC
Confidence            77777665211000002477889999998864  11   23455554443

>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=99.29  E-value=8.3e-11  Score=98.52  Aligned_cols=173  Identities=6%  Similarity=0.071  Sum_probs=90.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-c--cccCCc------------------
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-S--QSIDPS------------------   74 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~--~~~~~~------------------   74 (233)
                      ..+|..++|.||||+|||||+++++...+...|.+++|++.|........++ .  +.....                  
T Consensus        32 l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~e~~~~~~~~r~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  111 (296)
T 1cr0_A           32 ARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQW  111 (296)
T ss_dssp             BCTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEESSSCHHHHHHHHHHHHTTCCGGGCHHHHHHHHHHTHHHHH
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEeCcCCHHHHHHHHHHHHcCCChhhccccccCCCCHHHHHHH
Confidence            4799999999999999999999999988855577899998763111100000 0  000000                  


Q ss_pred             -hhhhc--ceEEEEe---cCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHH
Q 041690           75 -SHVFK--LIQMKYV---EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAI  148 (233)
Q Consensus        75 -~~~~~--~i~~~~~---~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~  148 (233)
                       ..+++  .+.+...   .....++..+... .....|++|||||++++....       ....+.    .....+++.+
T Consensus       112 ~~~~l~~~~l~i~~~~~~~~~~~l~~~~~a~-~~~~~p~llilDept~~~~~~-------~~~d~~----~~~~~i~~~L  179 (296)
T 1cr0_A          112 FDELFGNDTFHLYDSFAEAETDRLLAKLAYM-RSGLGCDVIILDHISIVVSAS-------GESDER----KMIDNLMTKL  179 (296)
T ss_dssp             HHHHHSSSCEEEECCCCSCCHHHHHHHHHHH-HHTTCCSEEEEEEEC------------------C----HHHHHHHHHH
T ss_pred             HHHHhccCCEEEECCCCCCCHHHHHHHHHHH-HHhcCCCEEEEcCccccCCCC-------CCCCHH----HHHHHHHHHH
Confidence             00111  2333211   1233333333321 113349999999999987520       000010    1112245555


Q ss_pred             HHhh-hcCCcEEEEeecCCCC---------Cc-----hhHHHHHHhhccceEEEecC------CccEEEeecc
Q 041690          149 THAN-KKSPCKLLLSDTHLGN---------ST-----RLLYIYKRWISSIFTVKGDG------PGSFLLRNKN  200 (233)
Q Consensus       149 ~~l~-~~~~~vlvi~~~~~~~---------~~-----~~~~~~~~~~~~~~~i~~~~------~~~~~l~~~~  200 (233)
                      +.++ +.+.+++++++.+..+         .|     ++-..++++.+.++.+....      .+...+.+++
T Consensus       180 ~~la~~~~~~vi~vsh~~r~~~~~~~~~~~~p~l~dl~~s~~i~~~aD~vi~L~~~~~~~~~~~~~l~i~K~R  252 (296)
T 1cr0_A          180 KGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERNQQGDMPNLVLVRILKCR  252 (296)
T ss_dssp             HHHHHHHCCEEEEEEECC-----------------CCC---CHHHHCSEEEEEEEC-------CEEEEEEEET
T ss_pred             HHHHHHhCCeEEEEEecCccccccccccCCCCCHHHhcccHHhHhhCcEEEEEecCcccCCCCeEEEEEEccc
Confidence            5554 3488888888875211         01     11114677899999997632      2356666666

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.27  E-value=2.1e-11  Score=100.02  Aligned_cols=138  Identities=11%  Similarity=0.144  Sum_probs=75.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      ....++|+||||||||++++.++...    +.++++++...       ......+.              ....+..+|.
T Consensus        44 ~~~~vll~G~~GtGKT~la~~la~~~----~~~~~~i~~~~-------~~~~~~~~--------------~~~~~~~~~~   98 (257)
T 1lv7_A           44 IPKGVLMVGPPGTGKTLLAKAIAGEA----KVPFFTISGSD-------FVEMFVGV--------------GASRVRDMFE   98 (257)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH----TCCEEEECSCS-------STTSCCCC--------------CHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHc----CCCEEEEeHHH-------HHHHhhhh--------------hHHHHHHHHH
Confidence            45679999999999999999887643    45677775322       11111111              1456667777


Q ss_pred             HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHH
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYK  177 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~  177 (233)
                      .+.  ...|+++||||++.+........  ..........+..++   ..+.... ....+++|++++.++.........
T Consensus        99 ~a~--~~~~~il~iDeid~l~~~~~~~~--~~~~~~~~~~~~~ll---~~l~~~~-~~~~~~vI~~tn~~~~l~~~l~r~  170 (257)
T 1lv7_A           99 QAK--KAAPCIIFIDEIDAVGRQRGAGL--GGGHDEREQTLNQML---VEMDGFE-GNEGIIVIAATNRPDVLDPALLRP  170 (257)
T ss_dssp             HHH--TTCSEEEEETTHHHHTCCCSTTS--CCTTCHHHHHHHHHH---HHHHTCC-SSSCEEEEEEESCTTTSCGGGGST
T ss_pred             HHH--HcCCeeehhhhhhhhccCCCCCc--CCCchHHHHHHHHHH---HHhhCcc-cCCCEEEEEeeCCchhCCHHHcCC
Confidence            654  33489999999998876321000  001111112222222   2232222 234577777777665332222222


Q ss_pred             HhhccceEEEe
Q 041690          178 RWISSIFTVKG  188 (233)
Q Consensus       178 ~~~~~~~~i~~  188 (233)
                      .+++..+.++.
T Consensus       171 ~rf~~~i~i~~  181 (257)
T 1lv7_A          171 GRFDRQVVVGL  181 (257)
T ss_dssp             TSSCEEEECCC
T ss_pred             CcCCeEEEeCC
Confidence            35666666654

>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=99.27  E-value=8.3e-12  Score=102.28  Aligned_cols=77  Identities=22%  Similarity=0.345  Sum_probs=47.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ..+..++|+||||||||++++.++...    +.++++++...       +.....+..              ...+..++
T Consensus        37 ~~~~~vll~G~~GtGKT~la~~la~~~----~~~~~~~~~~~-------~~~~~~~~~--------------~~~~~~~~   91 (262)
T 2qz4_A           37 KVPKGALLLGPPGCGKTLLAKAVATEA----QVPFLAMAGAE-------FVEVIGGLG--------------AARVRSLF   91 (262)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHH----TCCEEEEETTT-------TSSSSTTHH--------------HHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHh----CCCEEEechHH-------HHhhccChh--------------HHHHHHHH
Confidence            456789999999999999999887744    46778876332       111111110              34556666


Q ss_pred             HHhcccCCCCcEEEEeCCCccccc
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      ..+.  ...|++|+|||++.+...
T Consensus        92 ~~a~--~~~~~vl~iDeid~l~~~  113 (262)
T 2qz4_A           92 KEAR--ARAPCIVYIDEIDAVGKK  113 (262)
T ss_dssp             HHHH--HTCSEEEEEECC------
T ss_pred             HHHH--hcCCeEEEEeCcchhhcc
Confidence            6554  234899999999999763

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=99.27  E-value=1.4e-10  Score=98.29  Aligned_cols=174  Identities=13%  Similarity=0.033  Sum_probs=96.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccccc---ccC------------Cch------
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQ---SID------------PSS------   75 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~---~~~------------~~~------   75 (233)
                      .+|..++|.|+||+|||+|+.+++..++ ..|.+|+|++.|.....-..++..   .++            ..+      
T Consensus        66 ~~G~l~li~G~pG~GKTtl~l~ia~~~a-~~g~~vl~~slE~s~~~l~~R~~~~~~~i~~~~l~~~~~~l~~~~~~~l~~  144 (315)
T 3bh0_A           66 KRRNFVLIAARPSMGKTAFALKQAKNMS-DNDDVVNLHSLEMGKKENIKRLIVTAGSINAQKIKAARRDFASEDWGKLSM  144 (315)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHHHHH-TTTCEEEEEESSSCHHHHHHHHHHHHTTCCHHHHHSCHHHHCSSCHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHH-HcCCeEEEEECCCCHHHHHHHHHHHHcCCCHHHHhcCCCCCCHHHHHHHHH
Confidence            6999999999999999999999999888 567899999987322111111100   010            000      


Q ss_pred             ---hhh-cceEEEEe--cCHHHHHHHHHHhcccCCCCc--EEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHH
Q 041690           76 ---HVF-KLIQMKYV--EDDEEIKKYFAAFHQHDKIPT--AVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNA  147 (233)
Q Consensus        76 ---~~~-~~i~~~~~--~~~~~l~~~~~~~~~~~~~p~--iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  147 (233)
                         .+. ..+.+...  .....+...+..+.. +..++  +||||+++.+...    ..   ...+..    .+..+...
T Consensus       145 a~~~l~~~~i~i~d~~~~~~~~i~~~i~~l~~-~~~~~~~lVVID~l~~l~~~----~~---~~~r~~----~i~~~~~~  212 (315)
T 3bh0_A          145 AIGEISNSNINIFDKAGQSVNYIWSKTRQTKR-KNPGKRVIVMIDYLQLLEPA----KA---NDSRTN----QISQISRD  212 (315)
T ss_dssp             HHHHHHTSCEEEECCSCCBHHHHHHHHHHHHH-TSSSCCEEEEEECGGGSBCS----CT---TSCHHH----HHHHHHHH
T ss_pred             HHHHHhCCCEEEECCCCCCHHHHHHHHHHHHH-hcCCCCeEEEEeCchhcCCC----CC---CCCHHH----HHHHHHHH
Confidence               000 13333211  123344443333321 22367  9999999988752    11   111111    22223333


Q ss_pred             HHH-hhhcCCcEEEEeecCCCC------Cch-----hHHHHHHhhccceEEEecC----------CccEEEeeccCcc
Q 041690          148 ITH-ANKKSPCKLLLSDTHLGN------STR-----LLYIYKRWISSIFTVKGDG----------PGSFLLRNKNYSR  203 (233)
Q Consensus       148 ~~~-l~~~~~~vlvi~~~~~~~------~~~-----~~~~~~~~~~~~~~i~~~~----------~~~~~l~~~~~~~  203 (233)
                      ++. +++.+.+++++++.+...      .|.     +--.+++..|.++.+....          ....++.|+++.+
T Consensus       213 Lk~lAk~~~i~vi~lsql~r~~e~r~~~~p~l~dlr~sg~ie~~aD~vi~L~r~~~~~~~~~~~~~~~l~v~K~R~G~  290 (315)
T 3bh0_A          213 LKKMARELDVVVIALSQLSRQVEQRQDKRPMLSDLRESGQLEQDADIIEFLYRDDYYDKESESKNIVEVIIAKHRDGP  290 (315)
T ss_dssp             HHHHHHHHTCEEEEEECCCGGGTTSSSCCCCGGGGTTTSHHHHHCSEEEEEEEHHHHCTTCTTTTEEEEEEEEETTSC
T ss_pred             HHHHHHHhCCeEEEEeecCcccccCCCCCCCHHHhhhhhhhHhhCCEEEEEecccccCccccCCCcEEEEEECCcCCC
Confidence            443 345578888888765321      121     1125788889999988631          1246677777553

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=99.24  E-value=3.2e-10  Score=100.70  Aligned_cols=177  Identities=12%  Similarity=0.094  Sum_probs=100.5

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-cc--ccC--------Cchhh-------
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-SQ--SID--------PSSHV-------   77 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~~--~~~--------~~~~~-------   77 (233)
                      ..+|..++|.|+||+|||||+++++..++...|.+|+|++.|.....-..++ ..  +++        .....       
T Consensus       200 l~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E~s~~~l~~r~~~~~~~~~~~~l~~g~l~~~~~~~~~~a  279 (454)
T 2r6a_A          200 FQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLEMSAQQLVMRMLCAEGNINAQNLRTGKLTPEDWGKLTMA  279 (454)
T ss_dssp             BCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEESSSCHHHHHHHHHHHHHTCCHHHHHTSCCCHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCCHHHHHHHHHHHHcCCCHHHHhcCCCCHHHHHHHHHH
Confidence            3699999999999999999999999998855688999999873211111111 00  000        00000       


Q ss_pred             -----hcceEEEEec--CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHH
Q 041690           78 -----FKLIQMKYVE--DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITH  150 (233)
Q Consensus        78 -----~~~i~~~~~~--~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~  150 (233)
                           ...+.+....  +...++..+..+.. ...|++||||+++.+....    ..  ...+    ...+..+...++.
T Consensus       280 ~~~l~~~~l~i~d~~~~s~~~i~~~~~~l~~-~~~~~livID~l~~~~~~~----~~--~~~~----~~~i~~i~~~Lk~  348 (454)
T 2r6a_A          280 MGSLSNAGIYIDDTPSIRVSDIRAKCRRLKQ-ESGLGMIVIDYLQLIQGSG----RS--KENR----QQEVSEISRSLKA  348 (454)
T ss_dssp             HHHHHSSCEEEECCTTCCHHHHHHHHHHHHT-TTCCCEEEEECGGGSCCSC----C------C----HHHHHHHHHHHHH
T ss_pred             HHHHhcCCEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEEccHHHhccCC----CC--CCCH----HHHHHHHHHHHHH
Confidence                 0123332221  23444443333221 2349999999999987531    00  0011    1122334455554


Q ss_pred             hh-hcCCcEEEEeecCCCCC------chhHH-----HHHHhhccceEEEecC----------CccEEEeeccCcc
Q 041690          151 AN-KKSPCKLLLSDTHLGNS------TRLLY-----IYKRWISSIFTVKGDG----------PGSFLLRNKNYSR  203 (233)
Q Consensus       151 l~-~~~~~vlvi~~~~~~~~------~~~~~-----~~~~~~~~~~~i~~~~----------~~~~~l~~~~~~~  203 (233)
                      ++ +.+.+++++++.+....      |....     .++++.|.++.+....          ....++.++++.+
T Consensus       349 lAke~~i~vi~~sql~r~~e~~~~~~p~lsdlr~Sg~ie~~aD~vi~l~r~~~~~~~~~~~~~~~l~i~K~R~G~  423 (454)
T 2r6a_A          349 LARELEVPVIALSQLSRSVEQRQDKRPMMSDIRESGSIEQDADIVAFLYRDDYYNKDSENKNIIEIIIAKQRNGP  423 (454)
T ss_dssp             HHHHHTCCEEEEECCCTTSTTC---CCCTHHHHTTCSHHHHCSEEEEEEETTC-------CCEEEEEEEEESSSC
T ss_pred             HHHHhCCeEEEEecCCcccccCCCCCCcHHHhhccchhHhhCCEEEEEecccccCcccCCCCeEEEEEecccCCC
Confidence            43 45788888888664311      32111     4678899999998642          1346677777653

>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=99.23  E-value=9.2e-11  Score=97.52  Aligned_cols=132  Identities=14%  Similarity=0.113  Sum_probs=73.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC----------CCeEEEEecCCccccccccccc-ccCCc----hhhhcce
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS----------NANVVFMCNRSRLQSKRPYLSQ-SIDPS----SHVFKLI   81 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~----------g~~v~yi~~e~~l~~~~~~~~~-~~~~~----~~~~~~i   81 (233)
                      ++|..++|+||||||||||+++++..++ ..          +.+++|++.|+.......++.. .....    ....+++
T Consensus        28 ~~G~i~~i~G~~GsGKTtl~~~l~~~~~-~g~~~~g~~~~~~~~v~~~~~e~~~~~~~~r~~~~g~~~~~~~~~~~~~~l  106 (279)
T 1nlf_A           28 VAGTVGALVSPGGAGKSMLALQLAAQIA-GGPDLLEVGELPTGPVIYLPAEDPPTAIHHRLHALGAHLSAEERQAVADGL  106 (279)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHH-TCCCTTCCCCCCCCCEEEEESSSCHHHHHHHHHHHHTTSCHHHHHHHHHHE
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHHHh-cCCCcCCCccCCCccEEEEECCCCHHHHHHHHHHHHhhcChhhhhhccCce
Confidence            5999999999999999999999998666 32          4689999977533211111111 11111    1112333


Q ss_pred             EEEEe-------cCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh-hh
Q 041690           82 QMKYV-------EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA-NK  153 (233)
Q Consensus        82 ~~~~~-------~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-~~  153 (233)
                      .+...       -+...+..+...+   . .|++|||||++++....       .....      .+..++..+..+ ++
T Consensus       107 ~l~~~~~~~~~~ls~g~~~~i~~l~---~-~~~livlDe~~~~~~~d-------~~~~~------~~~~~~~~L~~l~~~  169 (279)
T 1nlf_A          107 LIQPLIGSLPNIMAPEWFDGLKRAA---E-GRRLMVLDTLRRFHIEE-------ENASG------PMAQVIGRMEAIAAD  169 (279)
T ss_dssp             EECCCTTSCCCTTSHHHHHHHHHHH---T-TCSEEEEECGGGGCCSC-------TTCHH------HHHHHHHHHHHHHHH
T ss_pred             EEeecCCCCcccCCHHHHHHHHHhc---C-CCCEEEECCHHHhcCCC-------cCchH------HHHHHHHHHHHHHHH
Confidence            33111       1122333332222   2 29999999999977520       01111      111244445544 35


Q ss_pred             cCCcEEEEeecCC
Q 041690          154 KSPCKLLLSDTHL  166 (233)
Q Consensus       154 ~~~~vlvi~~~~~  166 (233)
                      .+.+++++++...
T Consensus       170 ~g~tvi~i~H~~~  182 (279)
T 1nlf_A          170 TGCSIVFLHHASK  182 (279)
T ss_dssp             HCCEEEEEEEC--
T ss_pred             cCCEEEEEecCCC
Confidence            6888888888754

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=99.23  E-value=1.8e-10  Score=103.51  Aligned_cols=173  Identities=5%  Similarity=0.021  Sum_probs=97.5

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-cc--ccCCch-----------------
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-SQ--SIDPSS-----------------   75 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~~--~~~~~~-----------------   75 (233)
                      ..+|..++|.|+||+|||+|+.+++.+++...|.+|+|++.|.....-..++ ..  +++...                 
T Consensus       239 l~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~s~~~l~~r~~~~~~~~~~~~~~~~~~g~l~~~~~~~~  318 (503)
T 1q57_A          239 ARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQW  318 (503)
T ss_dssp             CCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSSCHHHHHHHHHHHHTTSCCTTCHHHHHHHHHTSHHHHH
T ss_pred             cCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccCCHHHHHHHHHHHHcCCChhhccccccCCCCHHHHHHH
Confidence            4699999999999999999999999999844488999999874221111111 00  111000                 


Q ss_pred             --hh--hcceEEEEe---cCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHH
Q 041690           76 --HV--FKLIQMKYV---EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAI  148 (233)
Q Consensus        76 --~~--~~~i~~~~~---~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~  148 (233)
                        ..  ..++.+...   .....+...+..+.. +..+++||||+++.+...    .+   ...+..    .+..++..+
T Consensus       319 ~~~~~~~~~l~i~~~~~~~~~~~i~~~i~~~~~-~~~~~lvVID~l~~l~~~----~~---~~~~~~----~~~~~~~~L  386 (503)
T 1q57_A          319 FDELFGNDTFHLYDSFAEAETDRLLAKLAYMRS-GLGCDVIILDHISIVVSA----SG---ESDERK----MIDNLMTKL  386 (503)
T ss_dssp             HHHHHTTTCEEEECCC---CHHHHHHHHHHHHH-TTCCSEEEEECTTCCCSC----CS---CCCHHH----HHHHHHHHH
T ss_pred             HHHHhccCCEEEECCCCCCCHHHHHHHHHHHHH-hcCCCEEEEccchhcCCC----CC---CCCHHH----HHHHHHHHH
Confidence              00  123333221   122333333332211 334999999999887642    11   111111    122233333


Q ss_pred             HH-hhhcCCcEEEEeecCCCC---------Cc-----hhHHHHHHhhccceEEEecC------CccEEEeecc
Q 041690          149 TH-ANKKSPCKLLLSDTHLGN---------ST-----RLLYIYKRWISSIFTVKGDG------PGSFLLRNKN  200 (233)
Q Consensus       149 ~~-l~~~~~~vlvi~~~~~~~---------~~-----~~~~~~~~~~~~~~~i~~~~------~~~~~l~~~~  200 (233)
                      +. +++.+.+++++++.+..+         .|     ++--.+++..|.++.+....      .+..++.|++
T Consensus       387 k~lak~~~i~vi~~~q~~r~~~~~~~~~~~~p~l~dlr~s~~ie~~aD~vi~l~r~~~~~~~~~~~l~v~K~R  459 (503)
T 1q57_A          387 KGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERNQQGDMPNLVLVRILKCR  459 (503)
T ss_dssp             HHHHHHHTCEEEEEEECCCCSSSSCSTTCCCCCSSSCSSSSHHHHHCSEEEEEEECSSSSCTTEEEEEEEEET
T ss_pred             HHHHHHHCCeEEEEEcCCchhccCccccCCCCChhhhccchHhhecCcEEEEEEeCCcCCCCCeEEEEEEecc
Confidence            33 345588888888877421         11     11225788899999998642      2346667777

>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=99.21  E-value=1.4e-10  Score=90.03  Aligned_cols=40  Identities=18%  Similarity=0.114  Sum_probs=34.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+|..++|+||||||||||++.++.......|..++|++.
T Consensus        36 ~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~   75 (180)
T 3ec2_A           36 EEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDT   75 (180)
T ss_dssp             GGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEH
Confidence            3689999999999999999999998876556778888863

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=99.18  E-value=6.8e-10  Score=98.32  Aligned_cols=179  Identities=11%  Similarity=0.084  Sum_probs=97.8

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccc-c--cccCC--------chh--------
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYL-S--QSIDP--------SSH--------   76 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~-~--~~~~~--------~~~--------   76 (233)
                      ..+|..++|+|+||+|||+|+.+++.+++...|.+|+|++.|.....-..++ .  ..++.        .+.        
T Consensus       197 l~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~slE~~~~~l~~R~~~~~~~i~~~~l~~g~l~~~~~~~~~~a  276 (444)
T 2q6t_A          197 LGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSLEMPAAQLTLRMMCSEARIDMNRVRLGQLTDRDFSRLVDV  276 (444)
T ss_dssp             CCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESSSCHHHHHHHHHHHHTTCCTTTCCGGGCCHHHHHHHHHH
T ss_pred             cCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEECCCCHHHHHHHHHHHHcCCCHHHHhCCCCCHHHHHHHHHH
Confidence            3699999999999999999999999999855688999999873211111110 0  00100        000        


Q ss_pred             ---h-hcceEEEEec--CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHH
Q 041690           77 ---V-FKLIQMKYVE--DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITH  150 (233)
Q Consensus        77 ---~-~~~i~~~~~~--~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~  150 (233)
                         . ..++.+....  ....+...+..+.. +..+++||||+++.+.... ....   ...+.    ..+..+...++.
T Consensus       277 ~~~l~~~~l~i~d~~~~s~~~l~~~~~~l~~-~~~~~lIvID~l~~~~~~~-~~~~---~~~r~----~~i~~i~~~Lk~  347 (444)
T 2q6t_A          277 ASRLSEAPIYIDDTPDLTLMEVRARARRLVS-QNQVGLIIIDYLQLMSGPG-SGKS---GENRQ----QEIAAISRGLKA  347 (444)
T ss_dssp             HHHHHTSCEEEECCTTCBHHHHHHHHHHHHH-HSCCCEEEEECGGGCBCC-----------CHH----HHHHHHHHHHHH
T ss_pred             HHHHhcCCEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEEcChhhcCCCc-CCCC---CCCHH----HHHHHHHHHHHH
Confidence               0 0123332221  23344433333221 2249999999999987520 0000   01111    122334444444


Q ss_pred             h-hhcCCcEEEEeecCCC-----C-CchhH-----HHHHHhhccceEEEecC----------CccEEEeeccCcc
Q 041690          151 A-NKKSPCKLLLSDTHLG-----N-STRLL-----YIYKRWISSIFTVKGDG----------PGSFLLRNKNYSR  203 (233)
Q Consensus       151 l-~~~~~~vlvi~~~~~~-----~-~~~~~-----~~~~~~~~~~~~i~~~~----------~~~~~l~~~~~~~  203 (233)
                      + ++.+.+++++++.+..     + .|...     -.++...|.++.+....          .+..++.|+++.+
T Consensus       348 lAke~~v~vi~lsql~r~~e~r~~~~p~l~dlr~Sg~ie~~aD~vi~L~r~~~~~~~~~~~~~~~l~i~K~R~g~  422 (444)
T 2q6t_A          348 LARELGIPIIALSQLSRAVEARPNKRPMLSDLRESGSIEQDADLVMFIYRDEYYNPHSEKAGIAEIIVGKQRNGP  422 (444)
T ss_dssp             HHHHHTSCEEEEEECCGGGGSSSSCSCCGGGGGGGCTTGGGCSEEEEEEEGGGTCSSSSCCSEEEEEEEECSSSC
T ss_pred             HHHHhCCeEEEEecCCcccccCCCCCCChHHhcchhHHHHhCCEEEEEecccccCCcCCCCCeEEEEEEecCCCC
Confidence            3 3457888888876532     1 12211     13567788888887531          2356677777653

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.16  E-value=3.1e-10  Score=113.30  Aligned_cols=162  Identities=14%  Similarity=0.136  Sum_probs=99.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++|++++||||+|||||||+.+++.+++ ..|+.++||+.|+.+.... .-..+++.     +++.+.+.+..+.-.++.
T Consensus      1429 prg~~iei~g~~~sGkttl~~~~~a~~~-~~g~~~~~i~~e~~~~~~~-~~~~Gv~~-----~~l~~~~p~~~e~~l~~~ 1501 (1706)
T 3cmw_A         1429 PMGRIVEIYGPESSGKTTLTLQVIAAAQ-REGKTCAFIDAEHALDPIY-ARKLGVDI-----DNLLCSQPDTGEQALEIC 1501 (1706)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEECTTSCCCHHH-HHHTTCCG-----GGCEEECCSSHHHHHHHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHHH-hcCCeEEEEecCCCCCHHH-HHHcCCCH-----HHeEEeCCCcHHHHHHHH
Confidence            5899999999999999999999998877 7799999999886443322 11112222     246666666665444444


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccc-cccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecC--------CC
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQ-ERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTH--------LG  167 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~--------~~  167 (233)
                      +.+.. ...+++|||||+.++.+...-. +-++...+-..++..  ..+..+...+++.+.+++++....        .+
T Consensus      1502 ~~~~~-s~~~~~vvvDsv~al~~~~e~~~~~~~~~~~~~ar~m~--~~lr~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~ 1578 (1706)
T 3cmw_A         1502 DALAR-SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMS--QAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNP 1578 (1706)
T ss_dssp             HHHHH-HTCCSEEEESCSTTCCCTTTTC-------CCHHHHHHH--HHHHHHHHHHHHHTCEEEEEECBC--------CC
T ss_pred             HHHHH-cCCCCEEEEccHHhCCccccccccccccchhHHHHHHH--HHHHHHHHHHHhCCcEEEEeeccccccceecCCC
Confidence            43322 3449999999999999853111 111111111111110  123444455667777777776553        23


Q ss_pred             CCchhHHHHHHhhccceEEEe
Q 041690          168 NSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +..-+..++.-|....+.|..
T Consensus      1579 ~~~~~g~al~~~~~~r~~~~~ 1599 (1706)
T 3cmw_A         1579 ETTTGGNALKFYASVRLDIRR 1599 (1706)
T ss_dssp             CCBSSCSHHHHHEEEEEEEEE
T ss_pred             ccccCcceeeeeeeeeeeeee
Confidence            333345578888888887774

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.16  E-value=8.2e-11  Score=105.43  Aligned_cols=138  Identities=13%  Similarity=0.182  Sum_probs=75.3

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAA   98 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~   98 (233)
                      ...++|+||||||||+|++.++...    +.++++++...       +.....+..              ...+..+|..
T Consensus        64 p~GvLL~GppGtGKTtLaraIa~~~----~~~~i~i~g~~-------~~~~~~g~~--------------~~~v~~lfq~  118 (499)
T 2dhr_A           64 PKGVLLVGPPGVGKTHLARAVAGEA----RVPFITASGSD-------FVEMFVGVG--------------AARVRDLFET  118 (499)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHHT----TCCEEEEEGGG-------GTSSCTTHH--------------HHHHHHHTTT
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHh----CCCEEEEehhH-------HHHhhhhhH--------------HHHHHHHHHH
Confidence            4459999999999999999887643    46788886331       111111100              3456666665


Q ss_pred             hcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHH
Q 041690           99 FHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKR  178 (233)
Q Consensus        99 ~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~  178 (233)
                      +.  ...|+++||||++.+......+  .+..........+++   +..+... .....++++++++.++........+.
T Consensus       119 a~--~~~p~il~IDEId~l~~~r~~~--~~~~~~e~~~~l~~L---L~~Ldg~-~~~~~viviAatn~p~~LD~aLlr~g  190 (499)
T 2dhr_A          119 AK--RHAPCIVFIDEIDAVGRKRGSG--VGGGNDEREQTLNQL---LVEMDGF-EKDTAIVVMAATNRPDILDPALLRPG  190 (499)
T ss_dssp             SS--SSSSCEEEEECGGGTCCCSSSS--TTTSSHHHHHHHHHH---HHHGGGC-CSSCCCEEEECCSCGGGSCTTTSSTT
T ss_pred             HH--hcCCCEEEEehHHHHHHhhccC--cCCCcHHHHHHHHHH---HHHhccc-ccCccEEEEEecCChhhcCccccccc
Confidence            44  3348999999999987632100  001111111222222   2222111 23345777888877643222223334


Q ss_pred             hhccceEEEec
Q 041690          179 WISSIFTVKGD  189 (233)
Q Consensus       179 ~~~~~~~i~~~  189 (233)
                      +|+..+.++..
T Consensus       191 Rfdr~i~i~~P  201 (499)
T 2dhr_A          191 RFDRQIAIDAP  201 (499)
T ss_dssp             SSCCEEECCCC
T ss_pred             ccceEEecCCC
Confidence            67777777653

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=99.15  E-value=3.3e-10  Score=95.60  Aligned_cols=36  Identities=14%  Similarity=0.210  Sum_probs=31.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+|+.++|+||||||||+|+.+++..    .|.+++|++.
T Consensus       121 ~~gsviLI~GpPGsGKTtLAlqlA~~----~G~~VlyIs~  156 (331)
T 2vhj_A          121 YASGMVIVTGKGNSGKTPLVHALGEA----LGGKDKYATV  156 (331)
T ss_dssp             EESEEEEEECSCSSSHHHHHHHHHHH----HHTTSCCEEE
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHh----CCCCEEEEEe
Confidence            46788999999999999999999875    3567899985

>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=99.15  E-value=3.7e-10  Score=102.01  Aligned_cols=155  Identities=12%  Similarity=0.139  Sum_probs=89.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-cccCCchhhhc--ceEEE-----Eec
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-QSIDPSSHVFK--LIQMK-----YVE   87 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-~~~~~~~~~~~--~i~~~-----~~~   87 (233)
                      ..+|++++|.||||||||||+++++.... ..|.+++|++.++....-..... .+++ ......  .+.+.     .++
T Consensus       278 i~~G~i~~i~G~~GsGKSTLl~~l~g~~~-~~G~~vi~~~~ee~~~~l~~~~~~~g~~-~~~~~~~g~~~~~~~~p~~LS  355 (525)
T 1tf7_A          278 FFKDSIILATGATGTGKTLLVSRFVENAC-ANKERAILFAYEESRAQLLRNAYSWGMD-FEEMERQNLLKIVCAYPESAG  355 (525)
T ss_dssp             EESSCEEEEEECTTSSHHHHHHHHHHHHH-TTTCCEEEEESSSCHHHHHHHHHTTSCC-HHHHHHTTSEEECCCCGGGSC
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHH-hCCCCEEEEEEeCCHHHHHHHHHHcCCC-HHHHHhCCCEEEEEeccccCC
Confidence            36999999999999999999999998877 46778889876632111000000 0111 111111  22221     123


Q ss_pred             CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCC
Q 041690           88 DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLG  167 (233)
Q Consensus        88 ~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~  167 (233)
                      ..+..+.+++.+.  ...|++||+|+++.+...        .+. ...+     ..++++++.+++.|.+++++++....
T Consensus       356 ~g~~q~~~~a~~l--~~~p~llilDp~~~Ld~~--------~~~-~~~~-----~~i~~ll~~l~~~g~tvilvsh~~~~  419 (525)
T 1tf7_A          356 LEDHLQIIKSEIN--DFKPARIAIDSLSALARG--------VSN-NAFR-----QFVIGVTGYAKQEEITGLFTNTSDQF  419 (525)
T ss_dssp             HHHHHHHHHHHHH--TTCCSEEEEECHHHHTSS--------SCH-HHHH-----HHHHHHHHHHHHTTCEEEEEEECSSS
T ss_pred             HHHHHHHHHHHHH--hhCCCEEEEcChHHHHhh--------CCh-HHHH-----HHHHHHHHHHHhCCCEEEEEECcccc
Confidence            3455555666554  334999999954444431        011 1111     12566677777788899988887522


Q ss_pred             CCc-hh-HHHHHHhhccceEEEe
Q 041690          168 NST-RL-LYIYKRWISSIFTVKG  188 (233)
Q Consensus       168 ~~~-~~-~~~~~~~~~~~~~i~~  188 (233)
                      ... .. ...+.++.|.++.+..
T Consensus       420 ~~~~~~~~~~l~~~~D~vi~L~~  442 (525)
T 1tf7_A          420 MGAHSITDSHISTITDTIILLQY  442 (525)
T ss_dssp             SCCCSSCSSCCTTTCSEEEEEEE
T ss_pred             cCcccccCcccceeeeEEEEEEE
Confidence            111 00 0145678899997765

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=99.14  E-value=7.9e-10  Score=83.55  Aligned_cols=39  Identities=15%  Similarity=0.250  Sum_probs=33.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +|..+.|+||+|+|||+|++.++.... ..|.+++|++..
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~-~~g~~~~~~~~~   73 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQAL-EAGKNAAYIDAA   73 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHH-TTTCCEEEEETT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH-hcCCcEEEEcHH
Confidence            789999999999999999999998777 457779999743

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.14  E-value=3.8e-10  Score=94.68  Aligned_cols=78  Identities=15%  Similarity=0.166  Sum_probs=52.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC---CCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS---NANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIK   93 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~---g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~   93 (233)
                      .++..++|+||||||||++++.++..+....   ..++++++..       .......+..              ...+.
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~-------~l~~~~~g~~--------------~~~~~  123 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD-------DLVGQYIGHT--------------APKTK  123 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG-------GTCCSSTTCH--------------HHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH-------Hhhhhccccc--------------HHHHH
Confidence            4667899999999999999999988775221   3367777522       1112222211              34455


Q ss_pred             HHHHHhcccCCCCcEEEEeCCCccccc
Q 041690           94 KYFAAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        94 ~~~~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      ..+..+.     +++|||||++.+...
T Consensus       124 ~~~~~~~-----~~vl~iDEid~l~~~  145 (309)
T 3syl_A          124 EVLKRAM-----GGVLFIDEAYYLYRP  145 (309)
T ss_dssp             HHHHHHT-----TSEEEEETGGGSCCC
T ss_pred             HHHHhcC-----CCEEEEEChhhhccC
Confidence            6665443     789999999999863

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=99.13  E-value=1.4e-09  Score=96.28  Aligned_cols=175  Identities=13%  Similarity=0.042  Sum_probs=98.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccc-c--c------------cCCch-----
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLS-Q--S------------IDPSS-----   75 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~-~--~------------~~~~~-----   75 (233)
                      ..+|..++|.|+||+|||+|+.+++.+++ ..|.+|+|++.|.....-..++. .  +            +...+     
T Consensus       194 l~~G~liiIaG~pG~GKTtlal~ia~~~a-~~g~~vl~fSlEms~~ql~~R~~~~~~~i~~~~l~~g~~~l~~~~~~~l~  272 (444)
T 3bgw_A          194 YKRRNFVLIAARPSMGKTAFALKQAKNMS-DNDDVVNLHSLEMGKKENIKRLIVTAGSINAQKIKAARRDFASEDWGKLS  272 (444)
T ss_dssp             BCSSCEEEEEECSSSSHHHHHHHHHHHHH-HTTCEEEEECSSSCTTHHHHHHHHHHSCCCHHHHHHTGGGTCCSCHHHHH
T ss_pred             CCCCcEEEEEeCCCCChHHHHHHHHHHHH-HcCCEEEEEECCCCHHHHHHHHHHHHcCCCHHHHhcccCCCCHHHHHHHH
Confidence            36999999999999999999999999998 45889999998732211111100 0  0            11100     


Q ss_pred             ----hh-hcceEEEEec--CHHHHHHHHHHhcccCCCCc--EEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHH
Q 041690           76 ----HV-FKLIQMKYVE--DDEEIKKYFAAFHQHDKIPT--AVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYN  146 (233)
Q Consensus        76 ----~~-~~~i~~~~~~--~~~~l~~~~~~~~~~~~~p~--iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  146 (233)
                          .. ..++.+....  ....++..+..+.. +..++  +||||.++.+....    .   ...+..    .+..+..
T Consensus       273 ~a~~~l~~~~l~i~d~~~~s~~~i~~~ir~l~~-~~~~~~~lIVID~Lq~~~~~~----~---~~~r~~----~i~~i~~  340 (444)
T 3bgw_A          273 MAIGEISNSNINIFDKAGQSVNYIWSKTRQTKR-KNPGKRVIVMIDYLQLLEPAK----A---NDSRTN----QISQISR  340 (444)
T ss_dssp             HHHHHHHTSCEEEECCSSCBHHHHHHHHHHHHH-HSCSSCEEEEEECSTTSBCSC----S---SSCHHH----HHHHHHH
T ss_pred             HHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHH-HhCCCCeEEEEecHHhccCCC----C---CCCHHH----HHHHHHH
Confidence                00 1133332211  23344444433322 22488  99999999887521    0   111111    2222333


Q ss_pred             HHHH-hhhcCCcEEEEeecCCC-----C-CchhH-----HHHHHhhccceEEEecC----------CccEEEeeccCcc
Q 041690          147 AITH-ANKKSPCKLLLSDTHLG-----N-STRLL-----YIYKRWISSIFTVKGDG----------PGSFLLRNKNYSR  203 (233)
Q Consensus       147 ~~~~-l~~~~~~vlvi~~~~~~-----~-~~~~~-----~~~~~~~~~~~~i~~~~----------~~~~~l~~~~~~~  203 (233)
                      .++. +++.+.+++++++.++.     + .|...     -.+++..|.++.+..+.          ....++.|+++.+
T Consensus       341 ~Lk~lAke~~v~vi~lsql~r~~e~r~~krp~lsdlr~Sg~ieq~aD~Vi~L~r~~~~~~~~~~~~~~~l~i~K~R~G~  419 (444)
T 3bgw_A          341 DLKKMARELDVVVIALSQLSRQVEQRQDKRPMLSDLRESGQLEQDADIIEFLYRDDYYDKESESKNIVEVIIAKHRDGP  419 (444)
T ss_dssp             HHHHHHHHHTCEEEEEEECCGGGGGSSCCCCCGGGCCSCSHHHHHCSEEEECCBGGGTCTTCSSTTEEEEEEEEESSSC
T ss_pred             HHHHHHHHhCCeEEEEecCCccccccCCCCCchhhhhhhhhHHhhCCEEEEEeccccccccccCCCeEEEEEEcccCCC
Confidence            4443 34558888888886532     1 12211     14788899999887631          1246677777653

>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=99.08  E-value=2.8e-10  Score=93.10  Aligned_cols=138  Identities=12%  Similarity=0.168  Sum_probs=71.6

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAA   98 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~   98 (233)
                      ...++|+||||||||||++.++...    +...++++...       ......+.              ....+..+|..
T Consensus        49 ~~g~ll~G~~G~GKTtl~~~i~~~~----~~~~i~~~~~~-------~~~~~~~~--------------~~~~i~~~~~~  103 (254)
T 1ixz_A           49 PKGVLLVGPPGVGKTHLARAVAGEA----RVPFITASGSD-------FVEMFVGV--------------GAARVRDLFET  103 (254)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEHHH-------HHHSCTTH--------------HHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh----CCCEEEeeHHH-------HHHHHhhH--------------HHHHHHHHHHH
Confidence            3449999999999999999887643    35566665221       11110000              03345666665


Q ss_pred             hcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHH
Q 041690           99 FHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKR  178 (233)
Q Consensus        99 ~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~  178 (233)
                      +.  ...|+++++||++.+.......  ..............   ++..+... .....+++++.++.++........+.
T Consensus       104 ~~--~~~~~i~~~Deid~l~~~~~~~--~~~~~~~~~~~~~~---ll~~l~g~-~~~~~~i~~a~t~~p~~ld~~l~r~~  175 (254)
T 1ixz_A          104 AK--RHAPCIVFIDEIDAVGRKRGSG--VGGGNDEREQTLNQ---LLVEMDGF-EKDTAIVVMAATNRPDILDPALLRPG  175 (254)
T ss_dssp             HT--TSSSEEEEEETHHHHHC-----------CHHHHHHHHH---HHHHHHTC-CTTCCEEEEEEESCGGGSCGGGGSTT
T ss_pred             HH--hcCCeEEEehhhhhhhcccCcc--ccccchHHHHHHHH---HHHHHhCC-CCCCCEEEEEccCCchhCCHHHcCCC
Confidence            54  2348999999998886531100  00011111122222   22222211 23345677777776643332223333


Q ss_pred             hhccceEEEec
Q 041690          179 WISSIFTVKGD  189 (233)
Q Consensus       179 ~~~~~~~i~~~  189 (233)
                      +++..+.++..
T Consensus       176 rf~~~i~i~~p  186 (254)
T 1ixz_A          176 RFDRQIAIDAP  186 (254)
T ss_dssp             SSCEEEECCSC
T ss_pred             cCCeEEeeCCc
Confidence            67777777653

>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=99.07  E-value=5.3e-10  Score=89.81  Aligned_cols=38  Identities=16%  Similarity=0.160  Sum_probs=33.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ++..++|+||||||||++++.++.... ..+.++.|++.
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~~~-~~~~~~~~~~~   88 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACARAN-ELERRSFYIPL   88 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEEG
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEEH
Confidence            678999999999999999999998877 55788999873

>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=99.06  E-value=1.9e-09  Score=97.40  Aligned_cols=157  Identities=13%  Similarity=0.120  Sum_probs=84.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccC-Cchhhh--cceEEEEe------
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSID-PSSHVF--KLIQMKYV------   86 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~-~~~~~~--~~i~~~~~------   86 (233)
                      .++|+.++|.||||||||||+++++.......+...+|++.++.-...... ...++ ..+...  .++.....      
T Consensus        36 i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~g~~~~~~~~~~-~~~~g~~~q~~~~~~~l~~~~~~~~~~~  114 (525)
T 1tf7_A           36 LPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKN-ARSFGWDLAKLVDEGKLFILDASPDPEG  114 (525)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHH-HGGGTCCHHHHHHTTSEEEEECCCCSSC
T ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEeCCHHHHHHH-HHHcCCChHHhhccCcEEEEecCcccch
Confidence            369999999999999999999997544443435678999876411000000 00111 001000  12222111      


Q ss_pred             ----cC---HHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEE
Q 041690           87 ----ED---DEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKL  159 (233)
Q Consensus        87 ----~~---~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vl  159 (233)
                          ..   ..........+.  ...|++|+|||+++..+.        ...+...+..     ++++++.+++.|.+++
T Consensus       115 ~~~l~~~~l~~~~~~~~~~LS--~g~~~~lilDe~t~~~~~--------~~lD~~~~~~-----l~~ll~~l~~~g~tvl  179 (525)
T 1tf7_A          115 QEVVGGFDLSALIERINYAIQ--KYRARRVSIDSVTSVFQQ--------YDASSVVRRE-----LFRLVARLKQIGATTV  179 (525)
T ss_dssp             CSCCSSHHHHHHHHHHHHHHH--HHTCSEEEEECSTTTSTT--------TCCHHHHHHH-----HHHHHHHHHHHTCEEE
T ss_pred             hhhhcccCHHHHHHHHHHHHH--HcCCCEEEECCHHHHHHh--------cCCHHHHHHH-----HHHHHHHHHHCCCEEE
Confidence                11   112222222222  123899999999998763        1111111112     5666777777788888


Q ss_pred             EEeecCCCCCchh-HHHHHHhhccceEEEe
Q 041690          160 LLSDTHLGNSTRL-LYIYKRWISSIFTVKG  188 (233)
Q Consensus       160 vi~~~~~~~~~~~-~~~~~~~~~~~~~i~~  188 (233)
                      ++++......+.. ..+.+.+.|.++.+..
T Consensus       180 ~itH~~~~~~~~~~~~i~~~laD~vi~L~~  209 (525)
T 1tf7_A          180 MTTERIEEYGPIARYGVEEFVSDNVVILRN  209 (525)
T ss_dssp             EEEECSSSSSCSSTTSCHHHHCSEEEEEEE
T ss_pred             EEecCCCCccccccccceeeeeeEEEEEEE
Confidence            8877654321111 1123556888888876

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=99.05  E-value=8.5e-11  Score=104.47  Aligned_cols=79  Identities=23%  Similarity=0.237  Sum_probs=53.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      ++..++|+||||||||++|+.++.... . ...+++++..       .......+.               .+.+.+.|.
T Consensus        62 ~~~~iLl~GppGtGKT~la~ala~~l~-~-~~~~~~~~~~-------~~~~~~~~~---------------~~~~~~~f~  117 (456)
T 2c9o_A           62 AGRAVLLAGPPGTGKTALALAIAQELG-S-KVPFCPMVGS-------EVYSTEIKK---------------TEVLMENFR  117 (456)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHC-T-TSCEEEEEGG-------GGCCSSSCH---------------HHHHHHHHH
T ss_pred             CCCeEEEECCCcCCHHHHHHHHHHHhC-C-CceEEEEeHH-------HHHHHhhhh---------------hHHHHHHHH
Confidence            667899999999999999998887653 1 2567777522       222222211               334777887


Q ss_pred             Hhcc-cCCCCcEEEEeCCCccccc
Q 041690           98 AFHQ-HDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        98 ~~~~-~~~~p~iIvIDei~~~~~~  120 (233)
                      .+.. ....|++|||||++++...
T Consensus       118 ~a~~~~~~~~~il~iDEid~l~~~  141 (456)
T 2c9o_A          118 RAIGLRIKETKEVYEGEVTELTPC  141 (456)
T ss_dssp             HTEEEEEEEEEEEEEEEEEEEEEC
T ss_pred             HHHhhhhcCCcEEEEechhhcccc
Confidence            7611 1233999999999999985

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=99.04  E-value=2e-09  Score=86.64  Aligned_cols=40  Identities=18%  Similarity=0.282  Sum_probs=34.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..++++||||+||||++++++.... ..|.+|+++...
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~~-~~g~kVli~~~~   49 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRLE-YADVKYLVFKPK   49 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEEEEC
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHHH-hcCCEEEEEEec
Confidence            5789999999999999999999999888 668889888533

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.02  E-value=9.8e-10  Score=91.15  Aligned_cols=137  Identities=14%  Similarity=0.182  Sum_probs=71.9

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAF   99 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~~   99 (233)
                      ..++|+||||||||||++.++...    +...++++...       ......+.              ....+..++..+
T Consensus        74 ~gvll~Gp~GtGKTtl~~~i~~~~----~~~~i~~~~~~-------~~~~~~~~--------------~~~~i~~~~~~~  128 (278)
T 1iy2_A           74 KGVLLVGPPGVGKTHLARAVAGEA----RVPFITASGSD-------FVEMFVGV--------------GAARVRDLFETA  128 (278)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEHHH-------HHHSTTTH--------------HHHHHHHHHHHH
T ss_pred             CeEEEECCCcChHHHHHHHHHHHc----CCCEEEecHHH-------HHHHHhhH--------------HHHHHHHHHHHH
Confidence            349999999999999999887643    34566665221       11100000              033455666655


Q ss_pred             cccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHh
Q 041690          100 HQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRW  179 (233)
Q Consensus       100 ~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~  179 (233)
                      .  ...|+++++||++.+.......  .......   ....+..++..+... .....+++++.++.++........+.+
T Consensus       129 ~--~~~~~i~~iDeid~l~~~~~~~--~~~~~~~---~~~~~~~ll~~lsgg-~~~~~~i~~a~t~~p~~ld~~l~r~~r  200 (278)
T 1iy2_A          129 K--RHAPCIVFIDEIDAVGRKRGSG--VGGGNDE---REQTLNQLLVEMDGF-EKDTAIVVMAATNRPDILDPALLRPGR  200 (278)
T ss_dssp             H--TSCSEEEEEETHHHHHCC----------CHH---HHHHHHHHHHHHTTC-CTTCCEEEEEEESCTTSSCHHHHSTTS
T ss_pred             H--hcCCcEEehhhhHhhhcccccc--cCCcchH---HHHHHHHHHHHHhCC-CCCCCEEEEEecCCchhCCHhHcCCCc
Confidence            4  2348999999998876531100  0000111   111122222222111 223456777777777554433233346


Q ss_pred             hccceEEEec
Q 041690          180 ISSIFTVKGD  189 (233)
Q Consensus       180 ~~~~~~i~~~  189 (233)
                      ++..+.++..
T Consensus       201 f~~~i~i~~p  210 (278)
T 1iy2_A          201 FDRQIAIDAP  210 (278)
T ss_dssp             SCCEEECCCC
T ss_pred             CCeEEEeCCc
Confidence            7888887754

>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=99.02  E-value=2.4e-09  Score=90.67  Aligned_cols=38  Identities=18%  Similarity=0.225  Sum_probs=32.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+..++|+||||||||+|++.++.... ..+.+++|++.
T Consensus        36 ~~~~lll~G~~GtGKT~la~~i~~~~~-~~~~~~~~i~~   73 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLLQAAGNEAK-KRGYRVIYSSA   73 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHHHHHHHHHH-HTTCCEEEEEH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEEH
Confidence            457899999999999999999998776 44788999963

>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=99.00  E-value=7.8e-10  Score=91.91  Aligned_cols=27  Identities=22%  Similarity=0.257  Sum_probs=24.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus        32 ~~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           32 KRGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            699999999999999999999776543

>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=99.00  E-value=1.9e-12  Score=106.80  Aligned_cols=76  Identities=20%  Similarity=0.327  Sum_probs=44.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      .+..++|+||||||||++++.++....    .++++++...       +.....+..              ...++.+|.
T Consensus        43 ~~~~vll~G~~GtGKT~la~~la~~~~----~~~~~v~~~~-------~~~~~~~~~--------------~~~~~~~~~   97 (268)
T 2r62_A           43 IPKGVLLVGPPGTGKTLLAKAVAGEAH----VPFFSMGGSS-------FIEMFVGLG--------------ASRVRDLFE   97 (268)
T ss_dssp             CCSCCCCBCSSCSSHHHHHHHHHHHHT----CCCCCCCSCT-------TTTSCSSSC--------------SSSSSTTHH
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHhC----CCEEEechHH-------HHHhhcchH--------------HHHHHHHHH
Confidence            355699999999999999998887543    4455553221       111111110              111222333


Q ss_pred             HhcccCCCCcEEEEeCCCccccc
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      .+.  ...|++|||||++.+...
T Consensus        98 ~a~--~~~~~vl~iDEid~l~~~  118 (268)
T 2r62_A           98 TAK--KQAPSIIFIDEIDAIGKS  118 (268)
T ss_dssp             HHH--HSCSCEEEESCGGGTTC-
T ss_pred             HHH--hcCCeEEEEeChhhhccc
Confidence            333  223899999999998764

>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=98.99  E-value=6.1e-10  Score=92.04  Aligned_cols=78  Identities=31%  Similarity=0.376  Sum_probs=50.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+...++|+||||||||++|+.++...    +.+++++..-.      ..    .+....          .....+..++
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~~----~~~~~~i~~~~------~~----~g~~~~----------~~~~~~~~~~  117 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEES----NFPFIKICSPD------KM----IGFSET----------AKCQAMKKIF  117 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHHH----TCSEEEEECGG------GC----TTCCHH----------HHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHh----CCCEEEEeCHH------Hh----cCCchH----------HHHHHHHHHH
Confidence            456789999999999999999887753    45677764211      11    111100          0023555666


Q ss_pred             HHhcccCCCCcEEEEeCCCccccc
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      ..+.  ...+.+|||||++.++..
T Consensus       118 ~~~~--~~~~~vl~iDEid~l~~~  139 (272)
T 1d2n_A          118 DDAY--KSQLSCVVVDDIERLLDY  139 (272)
T ss_dssp             HHHH--TSSEEEEEECCHHHHTTC
T ss_pred             HHHH--hcCCcEEEEEChhhhhcc
Confidence            6543  233899999999998763

>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=98.97  E-value=8.3e-10  Score=95.00  Aligned_cols=57  Identities=14%  Similarity=0.244  Sum_probs=40.6

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      |+++++||+++-++.             .....     ++++++.++++ |.+++++++..        ....++.++++
T Consensus       182 P~lLLlDEPTs~LD~-------------~~~~~-----i~~lL~~l~~~~g~Tii~vTHdl--------~~~~~~aDrv~  235 (366)
T 3tui_C          182 PKVLLCDQATSALDP-------------ATTRS-----ILELLKDINRRLGLTILLITHEM--------DVVKRICDCVA  235 (366)
T ss_dssp             CSEEEEESTTTTSCH-------------HHHHH-----HHHHHHHHHHHSCCEEEEEESCH--------HHHHHHCSEEE
T ss_pred             CCEEEEECCCccCCH-------------HHHHH-----HHHHHHHHHHhCCCEEEEEecCH--------HHHHHhCCEEE
Confidence            999999999999984             11112     66777776554 78888887642        25677788888


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       236 vl~~  239 (366)
T 3tui_C          236 VISN  239 (366)
T ss_dssp             EEET
T ss_pred             EEEC
Confidence            8774

>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=98.96  E-value=1.5e-09  Score=94.00  Aligned_cols=29  Identities=31%  Similarity=0.479  Sum_probs=25.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|..+.|.||+|||||||++.++....
T Consensus        26 i~~Ge~~~llGpsGsGKSTLLr~iaGl~~   54 (381)
T 3rlf_A           26 IHEGEFVVFVGPSGCGKSTLLRMIAGLET   54 (381)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             ECCCCEEEEEcCCCchHHHHHHHHHcCCC
Confidence            37999999999999999999998875443

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=98.96  E-value=2.2e-09  Score=91.61  Aligned_cols=41  Identities=17%  Similarity=0.369  Sum_probs=38.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      .+|..++|.|+||+|||+|+.+++..++ ..|.+|+|++.|.
T Consensus        44 ~~G~LiiIaG~pG~GKTt~al~ia~~~a-~~g~~Vl~fSlEm   84 (338)
T 4a1f_A           44 NKGSLVIIGARPSMGKTSLMMNMVLSAL-NDDRGVAVFSLEM   84 (338)
T ss_dssp             CTTCEEEEEECTTSCHHHHHHHHHHHHH-HTTCEEEEEESSS
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHH-HcCCeEEEEeCCC
Confidence            6999999999999999999999999998 5789999999873

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=98.95  E-value=1.1e-09  Score=90.03  Aligned_cols=144  Identities=8%  Similarity=0.024  Sum_probs=79.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-----CeEEEEecCCccccc---cccccccc---------CCc-----
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-----ANVVFMCNRSRLQSK---RPYLSQSI---------DPS-----   74 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-----~~v~yi~~e~~l~~~---~~~~~~~~---------~~~-----   74 (233)
                      ++|..+.|.||+|||||||++.++.......|     ..+.|+..+..+...   .+.+....         ...     
T Consensus        29 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~I~~~~~i~~v~q~~~~~~~~tv~enl~~~~~~~~~~~~~~~~~~~~~  108 (253)
T 2nq2_C           29 NKGDILAVLGQNGCGKSTLLDLLLGIHRPIQGKIEVYQSIGFVPQFFSSPFAYSVLDIVLMGRSTHINTFAKPKSHDYQV  108 (253)
T ss_dssp             ETTCEEEEECCSSSSHHHHHHHHTTSSCCSEEEEEECSCEEEECSCCCCSSCCBHHHHHHGGGGGGSCTTCCCCHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEEeccEEEEcCCCccCCCCCHHHHHHHhhhhhcccccCCCHHHHHH
Confidence            69999999999999999999977654432212     346677654222110   00000000         000     


Q ss_pred             -hhhhcceEE--------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHH
Q 041690           75 -SHVFKLIQM--------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCY  145 (233)
Q Consensus        75 -~~~~~~i~~--------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~  145 (233)
                       ..+++.+.+        ..++.++..+-.++.+-..  .|+++++||+++-++.             ..+..     ++
T Consensus       109 ~~~~l~~~~l~~~~~~~~~~LSgGq~qrv~lAraL~~--~p~lllLDEPts~LD~-------------~~~~~-----l~  168 (253)
T 2nq2_C          109 AMQALDYLNLTHLAKREFTSLSGGQRQLILIARAIAS--ECKLILLDEPTSALDL-------------ANQDI-----VL  168 (253)
T ss_dssp             HHHHHHHTTCGGGTTSBGGGSCHHHHHHHHHHHHHHT--TCSEEEESSSSTTSCH-------------HHHHH-----HH
T ss_pred             HHHHHHHcCChHHhcCChhhCCHHHHHHHHHHHHHHc--CCCEEEEeCCcccCCH-------------HHHHH-----HH
Confidence             001111111        1123334444444433322  2999999999999984             11112     55


Q ss_pred             HHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          146 NAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       146 ~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +.+..++++ +.+++++++..        ....++.+.++.+..
T Consensus       169 ~~l~~l~~~~g~tvi~vtHd~--------~~~~~~~d~v~~l~~  204 (253)
T 2nq2_C          169 SLLIDLAQSQNMTVVFTTHQP--------NQVVAIANKTLLLNK  204 (253)
T ss_dssp             HHHHHHHHTSCCEEEEEESCH--------HHHHHHCSEEEEEET
T ss_pred             HHHHHHHHhcCCEEEEEecCH--------HHHHHhCCEEEEEeC
Confidence            666666555 77777776531        145677888888863

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.95  E-value=5.2e-09  Score=88.56  Aligned_cols=93  Identities=9%  Similarity=0.021  Sum_probs=56.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC------CCeEEEEecCCccccccc----ccccccCCchhhhcceEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS------NANVVFMCNRSRLQSKRP----YLSQSIDPSSHVFKLIQMKYV   86 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~------g~~v~yi~~e~~l~~~~~----~~~~~~~~~~~~~~~i~~~~~   86 (233)
                      .++..++|+||||||||++++.++..+....      ...++||...... ....    .+.+..+.        .....
T Consensus        43 ~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~-t~~~~~~~I~~~L~g~--------~~~~~  113 (318)
T 3te6_A           43 SQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELA-GMDALYEKIWFAISKE--------NLCGD  113 (318)
T ss_dssp             TCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC---HHHHHHHHHHHSCC--------C--CC
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccC-CHHHHHHHHHHHhcCC--------CCCch
Confidence            4788999999999999999999998775321      2356777643210 1000    11111111        01112


Q ss_pred             cCHHHHHHHHHHhcccCCCCcEEEEeCCCccc
Q 041690           87 EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLF  118 (233)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~  118 (233)
                      ...+.+..+|..+......+.+|++||++.+.
T Consensus       114 ~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A          114 ISLEALNFYITNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             CCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC
T ss_pred             HHHHHHHHHHHHhhhccCCceEEEEecHHHhh
Confidence            23567777777642223348899999999988

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=98.94  E-value=9.1e-10  Score=90.60  Aligned_cols=28  Identities=29%  Similarity=0.197  Sum_probs=24.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|..+.|.||+|||||||++.++...
T Consensus        38 i~~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           38 IEEGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            3799999999999999999999776543

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=98.93  E-value=8.2e-10  Score=91.37  Aligned_cols=76  Identities=8%  Similarity=0.058  Sum_probs=46.8

Q ss_pred             cCHHHHHHHHHHhccc----CCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcC-CcEEEE
Q 041690           87 EDDEEIKKYFAAFHQH----DKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKS-PCKLLL  161 (233)
Q Consensus        87 ~~~~~l~~~~~~~~~~----~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~-~~vlvi  161 (233)
                      +.++..+-.++.+-..    +..|+++++||+++-++.             ..+..     +++.+..+++++ .+++++
T Consensus       143 SgGq~QRv~iAraL~~~~~~~~~p~lLllDEPts~LD~-------------~~~~~-----i~~~l~~l~~~~~~tvi~v  204 (266)
T 4g1u_C          143 SGGEQQRVQLARVLAQLWQPQPTPRWLFLDEPTSALDL-------------YHQQH-----TLRLLRQLTRQEPLAVCCV  204 (266)
T ss_dssp             CHHHHHHHHHHHHHHHTCCSSCCCEEEEECCCCSSCCH-------------HHHHH-----HHHHHHHHHHHSSEEEEEE
T ss_pred             CHHHHHHHHHHHHHhcccccCCCCCEEEEeCccccCCH-------------HHHHH-----HHHHHHHHHHcCCCEEEEE
Confidence            3344555455544332    113999999999999984             11212     666777766654 466666


Q ss_pred             eecCCCCCchhHHHHHHhhccceEEEe
Q 041690          162 SDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      ++.-        ....++.++++.+..
T Consensus       205 tHdl--------~~~~~~~d~v~vl~~  223 (266)
T 4g1u_C          205 LHDL--------NLAALYADRIMLLAQ  223 (266)
T ss_dssp             CSCH--------HHHHHHCSEEEEEET
T ss_pred             EcCH--------HHHHHhCCEEEEEEC
Confidence            5531        156778898888874

>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=98.92  E-value=3.7e-09  Score=90.83  Aligned_cols=29  Identities=31%  Similarity=0.343  Sum_probs=25.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|..+.|.||+|||||||++.++....
T Consensus        27 i~~Ge~~~llGpsGsGKSTLLr~iaGl~~   55 (359)
T 3fvq_A           27 LDPGEILFIIGASGCGKTTLLRCLAGFEQ   55 (359)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EcCCCEEEEECCCCchHHHHHHHHhcCCC
Confidence            37999999999999999999998875443

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=98.91  E-value=1.6e-09  Score=89.43  Aligned_cols=57  Identities=7%  Similarity=0.168  Sum_probs=39.8

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++.             ..+..     +++.+..+++++.+++++++..        ....++.+.++.
T Consensus       178 p~lllLDEPts~LD~-------------~~~~~-----~~~~l~~l~~~g~tvi~vtHd~--------~~~~~~~d~v~~  231 (263)
T 2olj_A          178 PKIMLFDEPTSALDP-------------EMVGE-----VLSVMKQLANEGMTMVVVTHEM--------GFAREVGDRVLF  231 (263)
T ss_dssp             CSEEEEESTTTTSCH-------------HHHHH-----HHHHHHHHHHTTCEEEEECSCH--------HHHHHHCSEEEE
T ss_pred             CCEEEEeCCcccCCH-------------HHHHH-----HHHHHHHHHhCCCEEEEEcCCH--------HHHHHhCCEEEE
Confidence            999999999999984             11222     5666666666677777775531        156778888888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       232 l~~  234 (263)
T 2olj_A          232 MDG  234 (263)
T ss_dssp             EET
T ss_pred             EEC
Confidence            874

>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=98.91  E-value=3.6e-09  Score=91.03  Aligned_cols=28  Identities=32%  Similarity=0.450  Sum_probs=24.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|..+.|.||+|||||||++.++...
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           26 VKDGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EcCCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            3799999999999999999999887543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.91  E-value=4.7e-09  Score=80.92  Aligned_cols=83  Identities=14%  Similarity=0.217  Sum_probs=50.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc------CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ------SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDE   90 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~------~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   90 (233)
                      ..+..++|+||||||||++++.++......      .+.++++++...       ... ......           ....
T Consensus        41 ~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~-~~~~~~-----------~~~~  101 (195)
T 1jbk_A           41 RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA-------LVA-GAKYRG-----------EFEE  101 (195)
T ss_dssp             SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH-------HHT-TTCSHH-----------HHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHH-------Hhc-cCCccc-----------cHHH
Confidence            356789999999999999999998876521      356777775221       000 000000           0023


Q ss_pred             HHHHHHHHhcccCCCCcEEEEeCCCcccc
Q 041690           91 EIKKYFAAFHQHDKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        91 ~l~~~~~~~~~~~~~p~iIvIDei~~~~~  119 (233)
                      .+..++..+.. ...+.+|+|||++.+..
T Consensus       102 ~~~~~~~~~~~-~~~~~vl~iDe~~~l~~  129 (195)
T 1jbk_A          102 RLKGVLNDLAK-QEGNVILFIDELHTMVG  129 (195)
T ss_dssp             HHHHHHHHHHH-STTTEEEEEETGGGGTT
T ss_pred             HHHHHHHHHhh-cCCCeEEEEeCHHHHhc
Confidence            44455543322 23378999999999875

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=98.91  E-value=2.7e-09  Score=91.60  Aligned_cols=27  Identities=30%  Similarity=0.251  Sum_probs=24.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus        39 ~~Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           39 REGEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            699999999999999999999887543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.91  E-value=3.3e-09  Score=81.66  Aligned_cols=83  Identities=14%  Similarity=0.221  Sum_probs=50.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc------CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ------SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDE   90 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~------~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   90 (233)
                      ..+..++|+||||||||++++.++......      .+..+++++...       .... .....           ....
T Consensus        41 ~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~-~~~~~-----------~~~~  101 (187)
T 2p65_A           41 RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSS-------LIAG-AKYRG-----------DFEE  101 (187)
T ss_dssp             SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHH-------HHHH-CCSHH-----------HHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHH-------hhcC-CCchh-----------HHHH
Confidence            356789999999999999999999877521      256677764211       0000 00000           0022


Q ss_pred             HHHHHHHHhcccCCCCcEEEEeCCCcccc
Q 041690           91 EIKKYFAAFHQHDKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        91 ~l~~~~~~~~~~~~~p~iIvIDei~~~~~  119 (233)
                      .+..++..+... ..+.+|||||++.+..
T Consensus       102 ~~~~~~~~~~~~-~~~~vl~iDe~~~l~~  129 (187)
T 2p65_A          102 RLKSILKEVQDA-EGQVVMFIDEIHTVVG  129 (187)
T ss_dssp             HHHHHHHHHHHT-TTSEEEEETTGGGGSS
T ss_pred             HHHHHHHHHHhc-CCceEEEEeCHHHhcc
Confidence            344444444322 2378999999999875

>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=98.90  E-value=9e-09  Score=91.01  Aligned_cols=38  Identities=18%  Similarity=0.238  Sum_probs=31.7

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcC-CCeEEEEec
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQS-NANVVFMCN   56 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~-g~~v~yi~~   56 (233)
                      +..++|+||||||||+|++.++....... +.+++|++.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~  168 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS  168 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence            57899999999999999999988776332 778999873

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=98.89  E-value=3.5e-09  Score=86.30  Aligned_cols=57  Identities=9%  Similarity=0.009  Sum_probs=39.3

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhh-cCCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANK-KSPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~-~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      |+++++||+++-++.             ..+..     +++.+..+++ .+.+++++++..        .....+.+.++
T Consensus       145 p~lllLDEPts~LD~-------------~~~~~-----~~~~l~~l~~~~g~tvi~vtHd~--------~~~~~~~d~i~  198 (240)
T 2onk_A          145 PRLLLLDEPLSAVDL-------------KTKGV-----LMEELRFVQREFDVPILHVTHDL--------IEAAMLADEVA  198 (240)
T ss_dssp             CSSBEEESTTSSCCH-------------HHHHH-----HHHHHHHHHHHHTCCEEEEESCH--------HHHHHHCSEEE
T ss_pred             CCEEEEeCCcccCCH-------------HHHHH-----HHHHHHHHHHhcCCEEEEEeCCH--------HHHHHhCCEEE
Confidence            999999999999984             11212     5666666654 377888876531        14567788888


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       199 ~l~~  202 (240)
T 2onk_A          199 VMLN  202 (240)
T ss_dssp             EEET
T ss_pred             EEEC
Confidence            8874

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=98.89  E-value=4e-09  Score=90.83  Aligned_cols=28  Identities=29%  Similarity=0.388  Sum_probs=24.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|..+.|.||+|||||||++.++...
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           26 IKDGEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCchHHHHHHHHhcCC
Confidence            3799999999999999999999887543

>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=98.89  E-value=3.8e-09  Score=90.78  Aligned_cols=28  Identities=21%  Similarity=0.106  Sum_probs=24.5

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|..+.|.||+|||||||++.++...
T Consensus        28 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           28 IENGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3799999999999999999999887543

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=98.88  E-value=2.4e-09  Score=86.94  Aligned_cols=28  Identities=18%  Similarity=0.241  Sum_probs=24.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+|..+.|.||+|||||||++.++...
T Consensus        28 i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           28 IKEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            3799999999999999999999776543

>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=98.88  E-value=5.5e-09  Score=90.34  Aligned_cols=27  Identities=33%  Similarity=0.399  Sum_probs=24.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus        27 ~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           27 KDGEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCcHHHHHHHHHHcCC
Confidence            699999999999999999999887543

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=98.88  E-value=3.9e-09  Score=85.97  Aligned_cols=57  Identities=12%  Similarity=0.124  Sum_probs=39.9

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++.             ..+..     +++.+..+++.+.+++++++..        ....++.+.++.
T Consensus       158 p~lllLDEPts~LD~-------------~~~~~-----l~~~l~~~~~~g~tvi~vtHd~--------~~~~~~~d~v~~  211 (240)
T 1ji0_A          158 PKLLMMDEPSLGLAP-------------ILVSE-----VFEVIQKINQEGTTILLVEQNA--------LGALKVAHYGYV  211 (240)
T ss_dssp             CSEEEEECTTTTCCH-------------HHHHH-----HHHHHHHHHHTTCCEEEEESCH--------HHHHHHCSEEEE
T ss_pred             CCEEEEcCCcccCCH-------------HHHHH-----HHHHHHHHHHCCCEEEEEecCH--------HHHHHhCCEEEE
Confidence            999999999999984             11212     5666666655677888876531        145678888888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       212 l~~  214 (240)
T 1ji0_A          212 LET  214 (240)
T ss_dssp             EET
T ss_pred             EEC
Confidence            874

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=98.88  E-value=5.1e-09  Score=84.42  Aligned_cols=27  Identities=19%  Similarity=0.299  Sum_probs=23.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus        28 ~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           28 KKGEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             ETTCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            699999999999999999999776443

>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=98.86  E-value=4.6e-09  Score=90.76  Aligned_cols=28  Identities=32%  Similarity=0.357  Sum_probs=24.5

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|..+.|.||+|||||||++.++...
T Consensus        34 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           34 IKDGEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            3799999999999999999999877543

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=98.84  E-value=3.9e-09  Score=87.07  Aligned_cols=57  Identities=9%  Similarity=0.163  Sum_probs=40.0

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++.             ..+..     +++.+..++++|.+++++++..        ....++.+.++.
T Consensus       172 p~lllLDEPts~LD~-------------~~~~~-----~~~~l~~l~~~g~tvi~vtHd~--------~~~~~~~d~v~~  225 (262)
T 1b0u_A          172 PDVLLFDEPTSALDP-------------ELVGE-----VLRIMQQLAEEGKTMVVVTHEM--------GFARHVSSHVIF  225 (262)
T ss_dssp             CSEEEEESTTTTSCH-------------HHHHH-----HHHHHHHHHHTTCCEEEECSCH--------HHHHHHCSEEEE
T ss_pred             CCEEEEeCCCccCCH-------------HHHHH-----HHHHHHHHHhCCCEEEEEeCCH--------HHHHHhCCEEEE
Confidence            999999999999984             11222     5666666666677887776531        156677888888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       226 l~~  228 (262)
T 1b0u_A          226 LHQ  228 (262)
T ss_dssp             EET
T ss_pred             EEC
Confidence            874

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=98.84  E-value=3.9e-09  Score=86.83  Aligned_cols=27  Identities=26%  Similarity=0.358  Sum_probs=24.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus        31 ~~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           31 NKGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            699999999999999999999776543

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.83  E-value=8.9e-09  Score=77.13  Aligned_cols=37  Identities=16%  Similarity=0.125  Sum_probs=28.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..+..++|+||||||||++|+.++.... ..+.+++ ++
T Consensus        22 ~~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~v-~~   58 (145)
T 3n70_A           22 ETDIAVWLYGAPGTGRMTGARYLHQFGR-NAQGEFV-YR   58 (145)
T ss_dssp             TCCSCEEEESSTTSSHHHHHHHHHHSST-TTTSCCE-EE
T ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHhCC-ccCCCEE-EE
Confidence            3567799999999999999998876554 4455666 54

>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=98.82  E-value=5.2e-09  Score=89.68  Aligned_cols=28  Identities=25%  Similarity=0.205  Sum_probs=24.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|..+.|.||+|||||||++.++...
T Consensus        23 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           23 VESGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             ECTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EcCCCEEEEECCCCccHHHHHHHHHcCC
Confidence            3799999999999999999999887543

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=98.82  E-value=4.9e-09  Score=86.69  Aligned_cols=28  Identities=25%  Similarity=0.209  Sum_probs=24.4

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+|..+.|.||+|||||||++.++...
T Consensus        30 i~~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           30 INEGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3799999999999999999999876543

>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=98.82  E-value=8.1e-09  Score=84.56  Aligned_cols=28  Identities=32%  Similarity=0.410  Sum_probs=24.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..+.|.||+|||||||++.++....
T Consensus        24 ~~Ge~~~liG~NGsGKSTLlk~l~Gl~~   51 (249)
T 2qi9_C           24 RAGEILHLVGPNGAGKSTLLARMAGMTS   51 (249)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            6999999999999999999998765443

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.80  E-value=3.3e-08  Score=77.76  Aligned_cols=35  Identities=29%  Similarity=0.262  Sum_probs=31.4

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..++|+||||||||+|+..++.... ..+.+++|++
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~-~~~~~~~~~~   89 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELA-KRNVSSLIVY   89 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHH-TTTCCEEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEE
Confidence            7899999999999999999998877 6678899886

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=98.78  E-value=1.5e-07  Score=77.35  Aligned_cols=42  Identities=12%  Similarity=0.047  Sum_probs=38.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      ..+|+.++|.|.||+|||+|+.||+.+.+ +.|.+++|++.++
T Consensus        18 l~~gs~~li~g~p~~~~~~l~~qfl~~g~-~~Ge~~~~~~~~e   59 (260)
T 3bs4_A           18 KKHSLILIHEEDASSRGKDILFYILSRKL-KSDNLVGMFSISY   59 (260)
T ss_dssp             CTTCEEEEEECSGGGCHHHHHHHHHHHHH-HTTCEEEEEECSS
T ss_pred             CCCCcEEEEEeCCCccHHHHHHHHHHHHH-HCCCcEEEEEEeC
Confidence            36999999999999999999999999999 7799999998663

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.78  E-value=2.4e-08  Score=78.00  Aligned_cols=37  Identities=24%  Similarity=0.376  Sum_probs=31.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +|.+.+++||||+||||++.+++.... ..|.+++++.
T Consensus         2 ~g~i~vi~G~~gsGKTT~ll~~~~~~~-~~g~~v~~~~   38 (184)
T 2orw_A            2 SGKLTVITGPMYSGKTTELLSFVEIYK-LGKKKVAVFK   38 (184)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHH-HTTCEEEEEE
T ss_pred             ccEEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEe
Confidence            477899999999999999999988776 5677888875

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.76  E-value=9.7e-09  Score=86.64  Aligned_cols=37  Identities=19%  Similarity=0.190  Sum_probs=31.8

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +..++|+||||||||+|+..++.......|.+++|++
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~  188 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLH  188 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEE
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEE
Confidence            6899999999999999999999876624578899986

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=98.75  E-value=1.4e-08  Score=91.78  Aligned_cols=144  Identities=18%  Similarity=0.233  Sum_probs=81.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC------CCeEEEEecCCccccc---cccccc----cc-CC---chhhhc
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS------NANVVFMCNRSRLQSK---RPYLSQ----SI-DP---SSHVFK   79 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~------g~~v~yi~~e~~l~~~---~~~~~~----~~-~~---~~~~~~   79 (233)
                      .+|.++.|.||+|||||||++.++.......      +..+.|+.........   .+.+..    .. ..   ...+++
T Consensus       292 ~~Gei~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~~~~i~~~~q~~~~~~~~tv~~~l~~~~~~~~~~~~~~~~~~l~  371 (538)
T 3ozx_A          292 KEGEIIGILGPNGIGKTTFARILVGEITADEGSVTPEKQILSYKPQRIFPNYDGTVQQYLENASKDALSTSSWFFEEVTK  371 (538)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSSCCSBCCEESSCCCEEEECSSCCCCCSSBHHHHHHHHCSSTTCTTSHHHHHTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCeeeEeechhcccccCCCHHHHHHHhhhhccchhHHHHHHHHH
Confidence            5899999999999999999998775443221      3345566543110000   000000    00 00   011111


Q ss_pred             ceEE--------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh
Q 041690           80 LIQM--------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA  151 (233)
Q Consensus        80 ~i~~--------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l  151 (233)
                      .+.+        ..++.++..+-.++.+-..+  |+++++||+++.++.             ..+.     .+++.++.+
T Consensus       372 ~~~l~~~~~~~~~~LSGGq~QRv~iAraL~~~--p~lLlLDEPT~gLD~-------------~~~~-----~i~~~l~~l  431 (538)
T 3ozx_A          372 RLNLHRLLESNVNDLSGGELQKLYIAATLAKE--ADLYVLDQPSSYLDV-------------EERY-----IVAKAIKRV  431 (538)
T ss_dssp             TTTGGGCTTSBGGGCCHHHHHHHHHHHHHHSC--CSEEEEESTTTTCCH-------------HHHH-----HHHHHHHHH
T ss_pred             HcCCHHHhcCChhhCCHHHHHHHHHHHHHHcC--CCEEEEeCCccCCCH-------------HHHH-----HHHHHHHHH
Confidence            1111        22334555555555544323  999999999999984             1111     256666666


Q ss_pred             hh-cCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          152 NK-KSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       152 ~~-~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .+ .+.+++++++.        .....++.|+++.+.+
T Consensus       432 ~~~~g~tvi~vsHd--------l~~~~~~aDri~vl~~  461 (538)
T 3ozx_A          432 TRERKAVTFIIDHD--------LSIHDYIADRIIVFKG  461 (538)
T ss_dssp             HHHTTCEEEEECSC--------HHHHHHHCSEEEEEEE
T ss_pred             HHhCCCEEEEEeCC--------HHHHHHhCCEEEEEeC
Confidence            54 46777777553        1256777888888875

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=98.74  E-value=1.5e-08  Score=82.68  Aligned_cols=29  Identities=17%  Similarity=0.324  Sum_probs=25.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|..+.|.||+|||||||++.++....
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   53 (243)
T 1mv5_A           25 AQPNSIIAFAGPSGGGKSTIFSLLERFYQ   53 (243)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            37999999999999999999998765443

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.73  E-value=2.7e-08  Score=90.02  Aligned_cols=144  Identities=15%  Similarity=0.176  Sum_probs=84.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-----CeEEEEecCCccccc---cccccc----ccCC---chhhhcce
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-----ANVVFMCNRSRLQSK---RPYLSQ----SIDP---SSHVFKLI   81 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-----~~v~yi~~e~~l~~~---~~~~~~----~~~~---~~~~~~~i   81 (233)
                      .+|..+.|.||+|||||||++.++.......|     ..+.|+..+......   .+.+..    ....   ...+++.+
T Consensus       310 ~~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p~~G~i~~~~~i~~v~Q~~~~~~~~tv~~~~~~~~~~~~~~~~~~~~~l~~~  389 (538)
T 1yqt_A          310 KKGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGKIEWDLTVAYKPQYIKADYEGTVYELLSKIDASKLNSNFYKTELLKPL  389 (538)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHHTSSCCSBCCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHTCHHHHHHTTTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECceEEEEecCCcCCCCCcHHHHHHhhhccCCCHHHHHHHHHHHc
Confidence            58999999999999999999988765442222     357788765321100   000000    0000   01111111


Q ss_pred             EE--------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhh-
Q 041690           82 QM--------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHAN-  152 (233)
Q Consensus        82 ~~--------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~-  152 (233)
                      .+        ..++.++..+-.++.+-.  ..|+++++||+++-++.             ...     ..+++.+..+. 
T Consensus       390 ~l~~~~~~~~~~LSGGe~qrv~lAraL~--~~p~lLlLDEPt~~LD~-------------~~~-----~~i~~~l~~l~~  449 (538)
T 1yqt_A          390 GIIDLYDREVNELSGGELQRVAIAATLL--RDADIYLLDEPSAYLDV-------------EQR-----LAVSRAIRHLME  449 (538)
T ss_dssp             TCGGGTTSBGGGCCHHHHHHHHHHHHHT--SCCSEEEEECTTTTCCH-------------HHH-----HHHHHHHHHHHH
T ss_pred             CChhhhcCChhhCCHHHHHHHHHHHHHH--hCCCEEEEeCCcccCCH-------------HHH-----HHHHHHHHHHHH
Confidence            11        223345555555555442  23999999999999984             111     12566666654 


Q ss_pred             hcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          153 KKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       153 ~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +.+.+++++++.        ...+.++.++++.+.+
T Consensus       450 ~~g~tvi~vsHd--------~~~~~~~~drv~vl~~  477 (538)
T 1yqt_A          450 KNEKTALVVEHD--------VLMIDYVSDRLMVFEG  477 (538)
T ss_dssp             HHTCEEEEECSC--------HHHHHHHCSEEEEEEE
T ss_pred             hCCCEEEEEeCC--------HHHHHHhCCEEEEEeC
Confidence            457788887653        1256788899888874

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.73  E-value=5.1e-08  Score=88.26  Aligned_cols=72  Identities=18%  Similarity=0.133  Sum_probs=45.9

Q ss_pred             HHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCC
Q 041690           89 DEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGN  168 (233)
Q Consensus        89 ~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~  168 (233)
                      ++..+-.++.+-.  ..|+++++||+++-++.             .....     +++.++.+++.+.+++++++.    
T Consensus       162 GekQRv~iAraL~--~~P~lLlLDEPTs~LD~-------------~~~~~-----l~~~L~~l~~~g~tvi~vsHd----  217 (538)
T 1yqt_A          162 GELQRVAIAAALL--RNATFYFFDEPSSYLDI-------------RQRLN-----AARAIRRLSEEGKSVLVVEHD----  217 (538)
T ss_dssp             HHHHHHHHHHHHH--SCCSEEEEESTTTTCCH-------------HHHHH-----HHHHHHHHHHTTCEEEEECSC----
T ss_pred             HHHHHHHHHHHHh--cCCCEEEEECCcccCCH-------------HHHHH-----HHHHHHHHHhcCCEEEEEeCC----
Confidence            4444444444332  23999999999999984             11111     566666666667788877653    


Q ss_pred             CchhHHHHHHhhccceEEEe
Q 041690          169 STRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~  188 (233)
                          ...+.++.+.++.+.+
T Consensus       218 ----~~~~~~~~dri~vl~~  233 (538)
T 1yqt_A          218 ----LAVLDYLSDIIHVVYG  233 (538)
T ss_dssp             ----HHHHHHHCSEEEEEEE
T ss_pred             ----HHHHHHhCCEEEEEcC
Confidence                1256777888887764

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=98.73  E-value=6.5e-09  Score=86.55  Aligned_cols=27  Identities=26%  Similarity=0.126  Sum_probs=23.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus        45 ~~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           45 AKGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            699999999999999999999776543

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=98.72  E-value=1.4e-08  Score=81.26  Aligned_cols=27  Identities=26%  Similarity=0.320  Sum_probs=23.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus        33 ~~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           33 EKGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             ETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            699999999999999999999876543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.72  E-value=3.1e-08  Score=85.00  Aligned_cols=40  Identities=15%  Similarity=0.125  Sum_probs=31.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCN   56 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~   56 (233)
                      ..+..++|+||||||||++++.++......     .+..++|++.
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNA   86 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEET
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEEC
Confidence            467789999999999999999998876522     1567788864

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=98.72  E-value=3.4e-09  Score=81.69  Aligned_cols=60  Identities=12%  Similarity=0.143  Sum_probs=35.6

Q ss_pred             CCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeec
Q 041690          103 DKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDT  164 (233)
Q Consensus       103 ~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~  164 (233)
                      ...|.++++||+++.++.... .|... ......+......+++.+..++++|.+++++++.
T Consensus        99 ~~~p~~lllDEPt~~Ld~~~~-~R~~~-~~~~~vi~~~~~~l~~~l~~l~~~g~tvi~vtH~  158 (171)
T 4gp7_A           99 HCFPVAVVFNLPEKVCQERNK-NRTDR-QVEEYVIRKHTQQMKKSIKGLQREGFRYVYILNS  158 (171)
T ss_dssp             TCEEEEEEECCCHHHHHHHHH-TCSSC-CCCHHHHHHHHHHHHHHSTTHHHHTCSEEEEECS
T ss_pred             CCcEEEEEEeCCHHHHHHHHh-cccCC-CCCHHHHHHHHHHhhhhhhhHHhcCCcEEEEeCC
Confidence            344999999999998874211 11101 1122223334445666776676778888888764

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.71  E-value=8.6e-08  Score=71.56  Aligned_cols=23  Identities=13%  Similarity=0.092  Sum_probs=19.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a   40 (233)
                      .+..++|+||||||||++|+.++
T Consensus        26 ~~~~vll~G~~GtGKt~lA~~i~   48 (143)
T 3co5_A           26 RTSPVFLTGEAGSPFETVARYFH   48 (143)
T ss_dssp             CSSCEEEEEETTCCHHHHHGGGC
T ss_pred             CCCcEEEECCCCccHHHHHHHHH
Confidence            55679999999999999999543

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=98.71  E-value=9.2e-09  Score=84.13  Aligned_cols=27  Identities=15%  Similarity=0.111  Sum_probs=24.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus        33 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           33 KQGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            699999999999999999999876543

>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=98.71  E-value=1.8e-07  Score=77.94  Aligned_cols=34  Identities=26%  Similarity=0.282  Sum_probs=28.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ++..++|+||||||||++++.++...    +.++++++
T Consensus        49 ~~~~vll~G~~GtGKT~la~~la~~l----~~~~~~i~   82 (310)
T 1ofh_A           49 TPKNILMIGPTGVGKTEIARRLAKLA----NAPFIKVE   82 (310)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH----TCCEEEEE
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHh----CCCEEEEc
Confidence            46789999999999999999888754    45677776

>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=98.70  E-value=3.4e-08  Score=90.59  Aligned_cols=144  Identities=15%  Similarity=0.187  Sum_probs=82.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-----CeEEEEecCCccccc---ccccccc----cCCc---hhhhcce
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-----ANVVFMCNRSRLQSK---RPYLSQS----IDPS---SHVFKLI   81 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-----~~v~yi~~e~~l~~~---~~~~~~~----~~~~---~~~~~~i   81 (233)
                      .+|.++.|.||+|||||||++.++.......|     ..+.|+..+......   .+.+...    ....   ..+++.+
T Consensus       380 ~~Gei~~i~G~NGsGKSTLlk~l~Gl~~p~~G~I~~~~~i~~v~Q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~~  459 (607)
T 3bk7_A          380 RKGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDSSKLNSNFYKTELLKPL  459 (607)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHHTSSCCSBSCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHHCHHHHHHTHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEEeeEEEEEecCccCCCCCcHHHHHHhhhccCCCHHHHHHHHHHHc
Confidence            58999999999999999999988765432222     357787765211100   0000000    0000   1111111


Q ss_pred             EE--------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhh-
Q 041690           82 QM--------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHAN-  152 (233)
Q Consensus        82 ~~--------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~-  152 (233)
                      .+        ..++.++..+-.++.+-.  ..|+++++||+++.++.             ..+..     +++.++.+. 
T Consensus       460 ~l~~~~~~~~~~LSGGe~QRv~iAraL~--~~p~lLlLDEPt~~LD~-------------~~~~~-----l~~~l~~l~~  519 (607)
T 3bk7_A          460 GIIDLYDRNVEDLSGGELQRVAIAATLL--RDADIYLLDEPSAYLDV-------------EQRLA-----VSRAIRHLME  519 (607)
T ss_dssp             TCTTTTTSBGGGCCHHHHHHHHHHHHHT--SCCSEEEEECTTTTCCH-------------HHHHH-----HHHHHHHHHH
T ss_pred             CCchHhcCChhhCCHHHHHHHHHHHHHH--hCCCEEEEeCCccCCCH-------------HHHHH-----HHHHHHHHHH
Confidence            11        123334555555554432  23999999999999984             11222     566666654 


Q ss_pred             hcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          153 KKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       153 ~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +.+.+++++++.        .....++.++++.+.+
T Consensus       520 ~~g~tvi~vsHd--------~~~~~~~adrv~vl~~  547 (607)
T 3bk7_A          520 KNEKTALVVEHD--------VLMIDYVSDRLIVFEG  547 (607)
T ss_dssp             HTTCEEEEECSC--------HHHHHHHCSEEEEEEE
T ss_pred             hCCCEEEEEeCC--------HHHHHHhCCEEEEEcC
Confidence            357777777653        1256778898888874

>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=98.68  E-value=1.2e-08  Score=85.91  Aligned_cols=27  Identities=22%  Similarity=0.235  Sum_probs=24.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            799999999999999999999776544

>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=98.67  E-value=7.2e-08  Score=88.42  Aligned_cols=73  Identities=15%  Similarity=0.100  Sum_probs=46.0

Q ss_pred             CHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCC
Q 041690           88 DDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLG  167 (233)
Q Consensus        88 ~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~  167 (233)
                      .++..+-.++.+-..  .|+++++||+++.++.             ..+..     +++.++.+++.+.+++++++.   
T Consensus       231 GGekQRvaIAraL~~--~P~lLlLDEPTs~LD~-------------~~~~~-----l~~~L~~l~~~g~tvIivsHd---  287 (607)
T 3bk7_A          231 GGELQRVAIAAALLR--KAHFYFFDEPSSYLDI-------------RQRLK-----VARVIRRLANEGKAVLVVEHD---  287 (607)
T ss_dssp             HHHHHHHHHHHHHHS--CCSEEEEECTTTTCCH-------------HHHHH-----HHHHHHHHHHTTCEEEEECSC---
T ss_pred             HHHHHHHHHHHHHhc--CCCEEEEECCcccCCH-------------HHHHH-----HHHHHHHHHhcCCEEEEEecC---
Confidence            344444445444322  3999999999999984             11112     566666665667788777663   


Q ss_pred             CCchhHHHHHHhhccceEEEe
Q 041690          168 NSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~i~~  188 (233)
                           ...+.++.+.++.+.+
T Consensus       288 -----l~~~~~~adri~vl~~  303 (607)
T 3bk7_A          288 -----LAVLDYLSDVIHVVYG  303 (607)
T ss_dssp             -----HHHHHHHCSEEEEEES
T ss_pred             -----hHHHHhhCCEEEEECC
Confidence                 1155677788877764

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.67  E-value=1.5e-07  Score=79.90  Aligned_cols=67  Identities=19%  Similarity=0.272  Sum_probs=44.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      +...++|+||||||||++++.++..    .+.++++++...        .     .              ....+...+.
T Consensus        54 ~~~~vll~G~~GtGKT~la~~ia~~----~~~~~~~~~~~~--------~-----~--------------~~~~~~~~~~  102 (338)
T 3pfi_A           54 CLDHILFSGPAGLGKTTLANIISYE----MSANIKTTAAPM--------I-----E--------------KSGDLAAILT  102 (338)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHH----TTCCEEEEEGGG--------C-----C--------------SHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHH----hCCCeEEecchh--------c-----c--------------chhHHHHHHH
Confidence            4467999999999999999988663    355666664210        0     0              0233334443


Q ss_pred             HhcccCCCCcEEEEeCCCcccc
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~  119 (233)
                      ..    ..+.+|||||++.+-.
T Consensus       103 ~~----~~~~vl~lDEi~~l~~  120 (338)
T 3pfi_A          103 NL----SEGDILFIDEIHRLSP  120 (338)
T ss_dssp             TC----CTTCEEEEETGGGCCH
T ss_pred             hc----cCCCEEEEechhhcCH
Confidence            21    2378999999998764

>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=98.66  E-value=1.7e-07  Score=80.53  Aligned_cols=39  Identities=15%  Similarity=0.227  Sum_probs=30.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .++..++|.||+|||||||++.++.......++.++.+.
T Consensus       121 ~~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~e  159 (356)
T 3jvv_A          121 VPRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIE  159 (356)
T ss_dssp             CSSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEcc
Confidence            477799999999999999999988777644456665553

>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=98.66  E-value=2e-07  Score=80.04  Aligned_cols=35  Identities=26%  Similarity=0.265  Sum_probs=29.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcC-CCeEEEEec
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQS-NANVVFMCN   56 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~-g~~v~yi~~   56 (233)
                      .++|+||||+|||++++.++.... .. +..++|++.
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~-~~~~~~~~~i~~   81 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYK-DKTTARFVYING   81 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT-TSCCCEEEEEET
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHh-hhcCeeEEEEeC
Confidence            899999999999999999987766 33 567888873

>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=98.65  E-value=2.3e-08  Score=81.18  Aligned_cols=41  Identities=20%  Similarity=0.335  Sum_probs=30.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC-----CCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS-----NANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~-----g~~v~yi~~e   57 (233)
                      ++|..+.|.||+|||||||++.++.......     ++.+.|+..+
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~I~~~g~i~~v~Q~   74 (237)
T 2cbz_A           29 PEGALVAVVGQVGCGKSSLLSALLAEMDKVEGHVAIKGSVAYVPQQ   74 (237)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTCSEEEEEEEEECSCEEEECSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCEEEEEcCC
Confidence            7999999999999999999998765443221     1245677654

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=98.63  E-value=7.6e-08  Score=88.18  Aligned_cols=143  Identities=13%  Similarity=0.168  Sum_probs=81.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCC-----eEEEEecCCcccc--c-cccccc----ccCCc---hhhhcceE
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNA-----NVVFMCNRSRLQS--K-RPYLSQ----SIDPS---SHVFKLIQ   82 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~-----~v~yi~~e~~l~~--~-~~~~~~----~~~~~---~~~~~~i~   82 (233)
                      +|.++.|.||+|||||||++.++.......|.     .+.|+........  . .+.+..    .....   ..+++.+.
T Consensus       377 ~GEiv~iiG~NGsGKSTLlk~l~Gl~~p~~G~~~~~~~i~~~~q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~l~  456 (608)
T 3j16_B          377 DSEILVMMGENGTGKTTLIKLLAGALKPDEGQDIPKLNVSMKPQKIAPKFPGTVRQLFFKKIRGQFLNPQFQTDVVKPLR  456 (608)
T ss_dssp             TTCEEEEESCTTSSHHHHHHHHHTSSCCSBCCCCCSCCEEEECSSCCCCCCSBHHHHHHHHCSSTTTSHHHHHHTHHHHT
T ss_pred             cceEEEEECCCCCcHHHHHHHHhcCCCCCCCcCccCCcEEEecccccccCCccHHHHHHHHhhcccccHHHHHHHHHHcC
Confidence            45789999999999999999887655433332     4667654411000  0 000000    00000   01111111


Q ss_pred             --------EEEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhh-h
Q 041690           83 --------MKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHAN-K  153 (233)
Q Consensus        83 --------~~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~-~  153 (233)
                              ...++.++..+-.++.+-.  ..|+++++||+++-++.             ..+.     .++++++.+. +
T Consensus       457 l~~~~~~~~~~LSGGqkQRv~iAraL~--~~p~lLlLDEPT~gLD~-------------~~~~-----~i~~ll~~l~~~  516 (608)
T 3j16_B          457 IDDIIDQEVQHLSGGELQRVAIVLALG--IPADIYLIDEPSAYLDS-------------EQRI-----ICSKVIRRFILH  516 (608)
T ss_dssp             STTTSSSBSSSCCHHHHHHHHHHHHTT--SCCSEEEECCTTTTCCH-------------HHHH-----HHHHHHHHHHHH
T ss_pred             ChhhhcCChhhCCHHHHHHHHHHHHHH--hCCCEEEEECCCCCCCH-------------HHHH-----HHHHHHHHHHHh
Confidence                    1233445555656665443  33999999999999984             1111     2566666654 4


Q ss_pred             cCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          154 KSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       154 ~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .|.+++++++.-        ....++.++++.+.+
T Consensus       517 ~g~tviivtHdl--------~~~~~~aDrvivl~~  543 (608)
T 3j16_B          517 NKKTAFIVEHDF--------IMATYLADKVIVFEG  543 (608)
T ss_dssp             HTCEEEEECSCH--------HHHHHHCSEEEECEE
T ss_pred             CCCEEEEEeCCH--------HHHHHhCCEEEEEeC
Confidence            578888886531        156677888888875

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.62  E-value=1.4e-07  Score=83.52  Aligned_cols=69  Identities=26%  Similarity=0.263  Sum_probs=42.8

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAA   98 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~   98 (233)
                      ...++|+||||||||++++.++...    +..++.++...              ..              ...++..+..
T Consensus        50 ~~~vLL~GppGtGKTtlAr~ia~~~----~~~f~~l~a~~--------------~~--------------~~~ir~~~~~   97 (447)
T 3pvs_A           50 LHSMILWGPPGTGKTTLAEVIARYA----NADVERISAVT--------------SG--------------VKEIREAIER   97 (447)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHT----TCEEEEEETTT--------------CC--------------HHHHHHHHHH
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHh----CCCeEEEEecc--------------CC--------------HHHHHHHHHH
Confidence            3579999999999999999887643    45555554110              00              2233444433


Q ss_pred             hccc--CCCCcEEEEeCCCcccc
Q 041690           99 FHQH--DKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        99 ~~~~--~~~p~iIvIDei~~~~~  119 (233)
                      +...  ...+.+|||||++.+-.
T Consensus        98 a~~~~~~~~~~iLfIDEI~~l~~  120 (447)
T 3pvs_A           98 ARQNRNAGRRTILFVDEVHRFNK  120 (447)
T ss_dssp             HHHHHHTTCCEEEEEETTTCC--
T ss_pred             HHHhhhcCCCcEEEEeChhhhCH
Confidence            3211  22378999999998765

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=98.62  E-value=7.9e-08  Score=79.60  Aligned_cols=28  Identities=21%  Similarity=0.233  Sum_probs=24.5

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|..+.|.||+|||||||++.++...
T Consensus        42 i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           42 LYPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3799999999999999999999876544

>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=98.62  E-value=5e-08  Score=80.62  Aligned_cols=27  Identities=26%  Similarity=0.388  Sum_probs=24.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .++|..+.|.||+|||||||++.++..
T Consensus        43 i~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           43 VHPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            379999999999999999999988764

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=98.61  E-value=7.8e-08  Score=79.16  Aligned_cols=28  Identities=14%  Similarity=0.071  Sum_probs=24.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|..+.|.||+|||||||++.++...
T Consensus        43 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           43 IPSGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            3799999999999999999999877543

>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=98.61  E-value=2.9e-08  Score=85.37  Aligned_cols=34  Identities=26%  Similarity=0.190  Sum_probs=27.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ++..++|+||||||||++|+.++...    +.+++.++
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~----~~~~~~~~   83 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLL----DVPFTMAD   83 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEE
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc----CCCEEEec
Confidence            66789999999999999999887644    56677664

>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=98.60  E-value=1.1e-07  Score=81.29  Aligned_cols=39  Identities=13%  Similarity=0.091  Sum_probs=31.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC--CCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS--NANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~--g~~v~yi~   55 (233)
                      ..+..++|+||||+|||+|++.++.......  +..++|++
T Consensus        43 ~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~   83 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYIN   83 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEE
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEE
Confidence            3577899999999999999999988765332  56788886

>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=98.59  E-value=1.1e-07  Score=74.83  Aligned_cols=26  Identities=38%  Similarity=0.520  Sum_probs=22.5

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ...++|+||||+|||++++.++....
T Consensus        38 ~~~~ll~G~~G~GKT~l~~~l~~~~~   63 (226)
T 2chg_A           38 IPHLLFSGPPGTGKTATAIALARDLF   63 (226)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHh
Confidence            34599999999999999999988764

>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=98.59  E-value=4.7e-07  Score=76.32  Aligned_cols=34  Identities=29%  Similarity=0.439  Sum_probs=27.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+..++++||||||||++++.++...    +..+++++
T Consensus        47 ~~~~~L~~G~~G~GKT~la~~la~~l----~~~~~~i~   80 (324)
T 3u61_B           47 IPHIILHSPSPGTGKTTVAKALCHDV----NADMMFVN   80 (324)
T ss_dssp             CCSEEEECSSTTSSHHHHHHHHHHHT----TEEEEEEE
T ss_pred             CCeEEEeeCcCCCCHHHHHHHHHHHh----CCCEEEEc
Confidence            44678889999999999999887643    56788886

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=98.58  E-value=2.1e-07  Score=84.21  Aligned_cols=31  Identities=23%  Similarity=0.145  Sum_probs=25.9

Q ss_pred             ccCCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           14 LETHVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        14 ~~~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +..++|.++.|.||+|||||||++.++....
T Consensus        20 ~~~~~Gei~gLiGpNGaGKSTLlkiL~Gl~~   50 (538)
T 3ozx_A           20 PTPKNNTILGVLGKNGVGKTTVLKILAGEII   50 (538)
T ss_dssp             CCCCTTEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            3447999999999999999999998775443

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=98.58  E-value=3.2e-08  Score=79.94  Aligned_cols=41  Identities=20%  Similarity=0.280  Sum_probs=30.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC-----CCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS-----NANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~-----g~~v~yi~~e   57 (233)
                      ++|..+.|.||+|||||||++.++.......     ++.+.|+..+
T Consensus        32 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~i~~v~q~   77 (229)
T 2pze_A           32 ERGQLLAVAGSTGAGKTSLLMMIMGELEPSEGKIKHSGRISFCSQF   77 (229)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEECSCEEEECSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCcCCccEEEECCEEEEEecC
Confidence            6999999999999999999997765443211     2246677654

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=98.58  E-value=8.3e-08  Score=87.95  Aligned_cols=57  Identities=9%  Similarity=0.089  Sum_probs=40.2

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++.++.             ..+.     .+++.++.+++.+.+++++++.        ...+.++.+.++.
T Consensus       240 p~llllDEPts~LD~-------------~~~~-----~l~~~l~~l~~~g~tvi~vtHd--------l~~~~~~~drv~v  293 (608)
T 3j16_B          240 ADVYMFDEPSSYLDV-------------KQRL-----NAAQIIRSLLAPTKYVICVEHD--------LSVLDYLSDFVCI  293 (608)
T ss_dssp             CSEEEEECTTTTCCH-------------HHHH-----HHHHHHHGGGTTTCEEEEECSC--------HHHHHHHCSEEEE
T ss_pred             CCEEEEECcccCCCH-------------HHHH-----HHHHHHHHHHhCCCEEEEEeCC--------HHHHHHhCCEEEE
Confidence            999999999999983             1111     2677777787778887777553        1255667777777


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +.+
T Consensus       294 l~~  296 (608)
T 3j16_B          294 IYG  296 (608)
T ss_dssp             EES
T ss_pred             EeC
Confidence            753

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.58  E-value=2.5e-07  Score=77.33  Aligned_cols=38  Identities=21%  Similarity=0.155  Sum_probs=31.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      +...++|+||||||||++++.++.... ..+.++++++.
T Consensus        46 ~~~~~ll~G~~GtGKt~la~~la~~~~-~~~~~~~~~~~   83 (311)
T 4fcw_A           46 PIGSFLFLGPTGVGKTELAKTLAATLF-DTEEAMIRIDM   83 (311)
T ss_dssp             CSEEEEEESCSSSSHHHHHHHHHHHHH-SCGGGEEEEEG
T ss_pred             CceEEEEECCCCcCHHHHHHHHHHHHc-CCCcceEEeec
Confidence            345899999999999999999998776 55667888863

>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=98.58  E-value=9.2e-08  Score=78.25  Aligned_cols=26  Identities=27%  Similarity=0.291  Sum_probs=23.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ++|..+.|.||+|||||||++.++..
T Consensus        27 ~~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           27 PKGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            69999999999999999999988764

>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=98.55  E-value=7.7e-08  Score=87.22  Aligned_cols=34  Identities=38%  Similarity=0.497  Sum_probs=27.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +|..++|+||||||||||++.++....    .+...+.
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~~l~----~~~~~i~  140 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAKSLG----RKFVRIS  140 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHHHHT----CEEEEEC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhcC----CCeEEEE
Confidence            788999999999999999998887553    3444443

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=98.54  E-value=1e-07  Score=78.53  Aligned_cols=26  Identities=27%  Similarity=0.330  Sum_probs=23.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      + |..+.|.||+|||||||++.++...
T Consensus        29 ~-Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           29 N-GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             C-SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             C-CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            6 9999999999999999999877544

>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=98.53  E-value=1e-06  Score=69.94  Aligned_cols=26  Identities=31%  Similarity=0.268  Sum_probs=22.8

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +..++|+||||+|||++++.++....
T Consensus        45 ~~~~ll~G~~G~GKT~l~~~~~~~~~   70 (250)
T 1njg_A           45 HHAYLFSGTRGVGKTSIARLLAKGLN   70 (250)
T ss_dssp             CSEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            35899999999999999999987665

>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=98.52  E-value=2.7e-07  Score=84.34  Aligned_cols=28  Identities=18%  Similarity=0.168  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       367 ~~G~~~~ivG~sGsGKSTll~~l~g~~~  394 (582)
T 3b5x_A          367 PQGKTVALVGRSGSGKSTIANLFTRFYD  394 (582)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            7999999999999999999998876554

>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=98.52  E-value=2.8e-07  Score=79.48  Aligned_cols=34  Identities=24%  Similarity=0.260  Sum_probs=27.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +...++|+||||||||++|+.++...    +.++++++
T Consensus        71 ~~~~ill~Gp~GtGKT~la~~la~~l----~~~~~~~~  104 (376)
T 1um8_A           71 SKSNILLIGPTGSGKTLMAQTLAKHL----DIPIAISD  104 (376)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEE
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHh----CCCEEEec
Confidence            56789999999999999999887644    56777775

>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=98.51  E-value=3.3e-07  Score=78.69  Aligned_cols=38  Identities=16%  Similarity=0.084  Sum_probs=30.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc------C-CCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ------S-NANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~------~-g~~v~yi~   55 (233)
                      .+..++|+||||+|||++++.++......      . +..++|++
T Consensus        44 ~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~   88 (384)
T 2qby_B           44 VKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVN   88 (384)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEE
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEE
Confidence            46789999999999999999998876422      1 67788886

>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=98.51  E-value=4e-07  Score=70.68  Aligned_cols=32  Identities=16%  Similarity=0.277  Sum_probs=27.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           22 TLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      ++|+|++|||||++|.+++.    . +.+++|++|..
T Consensus         2 ilV~Gg~~SGKS~~A~~la~----~-~~~~~yiaT~~   33 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIG----D-APQVLYIATSQ   33 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHC----S-CSSEEEEECCC
T ss_pred             EEEECCCCCcHHHHHHHHHh----c-CCCeEEEecCC
Confidence            79999999999999998764    3 67899999864

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.49  E-value=8.9e-07  Score=79.72  Aligned_cols=35  Identities=26%  Similarity=0.283  Sum_probs=28.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      +...++|+||||||||++|+.++...    +..+++++.
T Consensus        76 ~~~~lLL~GppGtGKTtla~~la~~l----~~~~i~in~  110 (516)
T 1sxj_A           76 VFRAAMLYGPPGIGKTTAAHLVAQEL----GYDILEQNA  110 (516)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHT----TCEEEEECT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc----CCCEEEEeC
Confidence            45789999999999999999887644    677888863

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=98.49  E-value=1.8e-07  Score=85.73  Aligned_cols=28  Identities=21%  Similarity=0.241  Sum_probs=24.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       379 ~~G~~~~ivG~sGsGKSTll~~l~g~~~  406 (598)
T 3qf4_B          379 KPGQKVALVGPTGSGKTTIVNLLMRFYD  406 (598)
T ss_dssp             CTTCEEEEECCTTSSTTHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            7999999999999999999997765443

>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=98.48  E-value=9.3e-07  Score=72.41  Aligned_cols=38  Identities=16%  Similarity=0.220  Sum_probs=31.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..+..++|+||||||||++|+.++.... ..+.++++++
T Consensus        27 ~~~~~vll~G~~GtGKt~la~~i~~~~~-~~~~~~~~v~   64 (265)
T 2bjv_A           27 PLDKPVLIIGERGTGKELIASRLHYLSS-RWQGPFISLN   64 (265)
T ss_dssp             TSCSCEEEECCTTSCHHHHHHHHHHTST-TTTSCEEEEE
T ss_pred             CCCCCEEEECCCCCcHHHHHHHHHHhcC-ccCCCeEEEe
Confidence            3567899999999999999998887655 4467788886

>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=98.46  E-value=1.3e-06  Score=74.29  Aligned_cols=25  Identities=28%  Similarity=0.344  Sum_probs=21.7

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..++|+||||+||||+++.++....
T Consensus        37 ~~~ll~Gp~G~GKTtl~~~la~~l~   61 (354)
T 1sxj_E           37 PHLLLYGPNGTGKKTRCMALLESIF   61 (354)
T ss_dssp             CCEEEECSTTSSHHHHHHTHHHHHS
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHc
Confidence            3499999999999999999988554

>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=98.46  E-value=1.1e-07  Score=82.68  Aligned_cols=27  Identities=26%  Similarity=0.188  Sum_probs=24.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .++|..+.|.||+|||||||++.++..
T Consensus        44 i~~Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           44 ISPGQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhCC
Confidence            379999999999999999999988754

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.46  E-value=3e-07  Score=77.31  Aligned_cols=34  Identities=32%  Similarity=0.325  Sum_probs=27.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+..++|+||||||||++++.++...    +.++++++
T Consensus        37 ~~~~vll~G~~GtGKT~la~~i~~~~----~~~~~~~~   70 (324)
T 1hqc_A           37 PLEHLLLFGPPGLGKTTLAHVIAHEL----GVNLRVTS   70 (324)
T ss_dssp             CCCCCEEECCTTCCCHHHHHHHHHHH----TCCEEEEC
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHh----CCCEEEEe
Confidence            45789999999999999999887644    45677664

>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=98.45  E-value=3.1e-07  Score=83.94  Aligned_cols=28  Identities=14%  Similarity=0.119  Sum_probs=24.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus       367 ~~G~~~~ivG~sGsGKSTLl~~l~g~~~  394 (582)
T 3b60_A          367 PAGKTVALVGRSGSGKSTIASLITRFYD  394 (582)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhccC
Confidence            7999999999999999999998775443

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=98.45  E-value=8.8e-07  Score=72.86  Aligned_cols=40  Identities=13%  Similarity=0.227  Sum_probs=31.2

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .++|..++|.||+|||||||++.++........+.+.+..
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g   61 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIE   61 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEE
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcC
Confidence            4689999999999999999999988766533245565553

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=98.45  E-value=1.8e-06  Score=67.70  Aligned_cols=43  Identities=14%  Similarity=0.162  Sum_probs=32.9

Q ss_pred             ccCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           14 LETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        14 ~~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .....|...+++||.|+||||.+.+.+.+.. ..+.+++|+..+
T Consensus        15 ~~~~~g~l~fiyG~MgsGKTt~Ll~~i~n~~-~~~~kvl~~kp~   57 (195)
T 1w4r_A           15 GSKTRGQIQVILGPMFSGKSTELMRRVRRFQ-IAQYKCLVIKYA   57 (195)
T ss_dssp             ----CCEEEEEEECTTSCHHHHHHHHHHHHH-HTTCCEEEEEET
T ss_pred             CCCCceEEEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEccc
Confidence            3345788999999999999987777777776 568899998744

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=98.45  E-value=1.2e-07  Score=86.63  Aligned_cols=27  Identities=15%  Similarity=0.190  Sum_probs=23.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus       367 ~~Ge~~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          367 KPGSLVAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             CTTCEEEEECSSSSSHHHHHHTTTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            799999999999999999999766443

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.44  E-value=1.2e-06  Score=82.25  Aligned_cols=83  Identities=13%  Similarity=0.199  Sum_probs=51.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc------CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ------SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDE   90 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~------~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   90 (233)
                      ..+..++|+||||||||++++.++......      .+..++.++..... ..    ....+.              ...
T Consensus       205 ~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~-~~----~~~~g~--------------~e~  265 (758)
T 1r6b_X          205 RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL-AG----TKYRGD--------------FEK  265 (758)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC----CC----CCCSSC--------------HHH
T ss_pred             cCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHh-cc----ccccch--------------HHH
Confidence            367889999999999999999999876521      13334433211100 00    000011              145


Q ss_pred             HHHHHHHHhcccCCCCcEEEEeCCCccccc
Q 041690           91 EIKKYFAAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        91 ~l~~~~~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      .++.++..+.  ...+.+|||||++.+...
T Consensus       266 ~l~~~~~~~~--~~~~~iL~IDEi~~l~~~  293 (758)
T 1r6b_X          266 RFKALLKQLE--QDTNSILFIDEIHTIIGA  293 (758)
T ss_dssp             HHHHHHHHHS--SSSCEEEEETTTTTTTTS
T ss_pred             HHHHHHHHHH--hcCCeEEEEechHHHhhc
Confidence            6677777665  233799999999999863

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.44  E-value=6.2e-07  Score=85.41  Aligned_cols=83  Identities=18%  Similarity=0.207  Sum_probs=47.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc------CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ------SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEE   91 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~------~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   91 (233)
                      ....++|+||||||||++++.++......      .+.++++++....... .    ...+              .....
T Consensus       190 ~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g-~----~~~g--------------~~~~~  250 (854)
T 1qvr_A          190 TKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAG-A----KYRG--------------EFEER  250 (854)
T ss_dssp             SCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC------------------------------CHHHH
T ss_pred             CCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhcc-C----ccch--------------HHHHH
Confidence            45678999999999999999999877521      2667777752210000 0    0000              11445


Q ss_pred             HHHHHHHhcccCCCCcEEEEeCCCccccc
Q 041690           92 IKKYFAAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        92 l~~~~~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      +..++..+... ..+.+|||||++.+...
T Consensus       251 l~~~~~~~~~~-~~~~iL~IDEi~~l~~~  278 (854)
T 1qvr_A          251 LKAVIQEVVQS-QGEVILFIDELHTVVGA  278 (854)
T ss_dssp             HHHHHHHHHTT-CSSEEEEECCC------
T ss_pred             HHHHHHHHHhc-CCCeEEEEecHHHHhcc
Confidence            66677665422 23789999999999863

>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=98.44  E-value=2.3e-07  Score=77.60  Aligned_cols=41  Identities=20%  Similarity=0.308  Sum_probs=30.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC-----CCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS-----NANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~-----g~~v~yi~~e   57 (233)
                      ++|..+.|.||+|||||||++.++.......     ++.+.|+..+
T Consensus        62 ~~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p~~G~I~~~g~i~~v~Q~  107 (290)
T 2bbs_A           62 ERGQLLAVAGSTGAGKTSLLMMIMGELEPSEGKIKHSGRISFCSQN  107 (290)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHTTSSCEEEEEEECCSCEEEECSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCCCCCCcEEEECCEEEEEeCC
Confidence            6999999999999999999997765443221     2346777655

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.44  E-value=7.1e-07  Score=76.39  Aligned_cols=36  Identities=19%  Similarity=0.344  Sum_probs=27.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ++..++|+||||||||++++.++.... . ..+.+.+.
T Consensus        69 ~~~~vLl~GppGtGKT~la~~la~~l~-~-~~~~~~~~  104 (368)
T 3uk6_A           69 AGRAVLIAGQPGTGKTAIAMGMAQALG-P-DTPFTAIA  104 (368)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHC-S-SCCEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhc-c-cCCccccc
Confidence            567999999999999999999987665 2 23455544

>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=98.43  E-value=6.1e-07  Score=76.30  Aligned_cols=83  Identities=7%  Similarity=0.147  Sum_probs=47.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++|..++|.||+|||||||++.++.... . ....+.+.....+..     ..       ..+.+.+.+ ......+..+
T Consensus       169 ~~g~~v~i~G~~GsGKTTll~~l~g~~~-~-~~g~i~i~~~~e~~~-----~~-------~~~~i~~~~-ggg~~~r~~l  233 (330)
T 2pt7_A          169 AIGKNVIVCGGTGSGKTTYIKSIMEFIP-K-EERIISIEDTEEIVF-----KH-------HKNYTQLFF-GGNITSADCL  233 (330)
T ss_dssp             HHTCCEEEEESTTSCHHHHHHHGGGGSC-T-TSCEEEEESSCCCCC-----SS-------CSSEEEEEC-BTTBCHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCc-C-CCcEEEECCeecccc-----cc-------chhEEEEEe-CCChhHHHHH
Confidence            5789999999999999999998775544 3 334555543221110     00       001111111 0223334444


Q ss_pred             HHhcccCCCCcEEEEeCCCc
Q 041690           97 AAFHQHDKIPTAVVVDDFGD  116 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~  116 (233)
                      +.+-  ...|+++++||+++
T Consensus       234 a~aL--~~~p~ilildE~~~  251 (330)
T 2pt7_A          234 KSCL--RMRPDRIILGELRS  251 (330)
T ss_dssp             HHHT--TSCCSEEEECCCCS
T ss_pred             HHHh--hhCCCEEEEcCCCh
Confidence            4433  23399999999987

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.43  E-value=5.9e-07  Score=70.94  Aligned_cols=24  Identities=33%  Similarity=0.476  Sum_probs=20.5

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      -+++++|+||||||+++...+...
T Consensus         6 mi~l~tG~pGsGKT~~a~~~~~~~   29 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMVSMMAND   29 (199)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH
Confidence            478999999999999998876554

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=98.42  E-value=6.4e-08  Score=85.28  Aligned_cols=129  Identities=12%  Similarity=0.021  Sum_probs=42.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccccc-ccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQ-SIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++..++|+||||||||++++.+|...    +.+++.++..       .+... +.+.             +....++.++
T Consensus        49 ~~~~iLl~GppGtGKT~lar~lA~~l----~~~~~~v~~~-------~~~~~g~vG~-------------d~e~~lr~lf  104 (444)
T 1g41_A           49 TPKNILMIGPTGVGKTEIARRLAKLA----NAPFIKVEAT-------KFTEVGYVGK-------------EVDSIIRDLT  104 (444)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEGG-------GGC----CCC-------------CTHHHHHHHH
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHc----CCCceeecch-------hhcccceeec-------------cHHHHHHHHH
Confidence            45679999999999999999887644    4566666421       11111 1111             1155667777


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+..      ++.+|+++.+...        .....+.++..+|+..++.+..   .+  .+..+++|.++.......-
T Consensus       105 ~~a~~------~~~~De~d~~~~~--------~~~~~e~rvl~~LL~~~dg~~~---~~--~v~a~~TN~~~~ld~aL~r  165 (444)
T 1g41_A          105 DSAMK------LVRQQEIAKNRAR--------AEDVAEERILDALLPPAKNQWG---EV--ENHDSHSSTRQAFRKKLRE  165 (444)
T ss_dssp             HHHHH------HHHHHHHHSCC----------------------------------------------------------
T ss_pred             HHHHh------cchhhhhhhhhcc--------chhhHHHHHHHHHHHHhhcccc---cc--ccccccccCHHHHHHHHHc
Confidence            65532      2347887665542        1222344566677766666532   11  1233337777655544455


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      .+++|..++|+-.
T Consensus       166 ggr~D~~i~i~lP  178 (444)
T 1g41_A          166 GQLDDKEIEIDVS  178 (444)
T ss_dssp             -------------
T ss_pred             CCCcceEEEEcCC
Confidence            5688888888764

>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=98.40  E-value=1.2e-06  Score=74.26  Aligned_cols=36  Identities=25%  Similarity=0.433  Sum_probs=26.9

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEe
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMC   55 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~   55 (233)
                      ..++|+||||+|||++++.++......  ....+++++
T Consensus        59 ~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~   96 (353)
T 1sxj_D           59 PHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELN   96 (353)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEEC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEc
Confidence            459999999999999999998876421  234455554

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.39  E-value=1.1e-06  Score=82.48  Aligned_cols=35  Identities=20%  Similarity=0.217  Sum_probs=30.5

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..++|+||||||||++|+.++.... ..+.++++++
T Consensus       522 ~~~Ll~Gp~GtGKT~lA~ala~~l~-~~~~~~i~i~  556 (758)
T 3pxi_A          522 GSFIFLGPTGVGKTELARALAESIF-GDEESMIRID  556 (758)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHHHHH-SCTTCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhc-CCCcceEEEe
Confidence            3799999999999999999998776 5577888886

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=98.38  E-value=1.5e-06  Score=68.23  Aligned_cols=38  Identities=13%  Similarity=0.198  Sum_probs=32.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+|.+.+++||+|+||||.+.+++.... ..|.+|+.+.
T Consensus         6 ~~g~i~v~~G~mgsGKTT~ll~~a~r~~-~~g~kV~v~k   43 (191)
T 1xx6_A            6 DHGWVEVIVGPMYSGKSEELIRRIRRAK-IAKQKIQVFK   43 (191)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEE
Confidence            3678999999999999999999998887 6688888774

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=98.37  E-value=1.4e-07  Score=86.02  Aligned_cols=27  Identities=15%  Similarity=0.112  Sum_probs=23.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus       365 ~~G~~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          365 EKGETVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            799999999999999999999666443

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.35  E-value=2.2e-06  Score=71.95  Aligned_cols=38  Identities=21%  Similarity=0.226  Sum_probs=30.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..+..++|+||||||||++|+.++.... ..+.++++++
T Consensus        23 ~~~~~vLi~Ge~GtGKt~lAr~i~~~~~-~~~~~~v~v~   60 (304)
T 1ojl_A           23 PSDATVLIHGDSGTGKELVARALHACSA-RSDRPLVTLN   60 (304)
T ss_dssp             STTSCEEEESCTTSCHHHHHHHHHHHSS-CSSSCCCEEE
T ss_pred             CCCCcEEEECCCCchHHHHHHHHHHhCc-ccCCCeEEEe
Confidence            3567899999999999999998887555 5567788875

>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=98.35  E-value=2.9e-06  Score=74.66  Aligned_cols=40  Identities=23%  Similarity=0.305  Sum_probs=35.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++.++++.|+||+||||++..+|..+. ..|.+|+.++..
T Consensus        98 ~~p~vIlivG~~G~GKTTt~~kLA~~l~-~~G~kVllv~~D  137 (443)
T 3dm5_A           98 EKPTILLMVGIQGSGKTTTVAKLARYFQ-KRGYKVGVVCSD  137 (443)
T ss_dssp             SSSEEEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEEECC
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHHHHH-HCCCeEEEEeCC
Confidence            3578999999999999999999998888 678999999854

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=98.34  E-value=4.6e-06  Score=66.32  Aligned_cols=38  Identities=13%  Similarity=0.168  Sum_probs=33.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+|.+.+++||.|+||||.+++.+.... ..|.+|+++.
T Consensus        26 ~~G~l~vitG~MgsGKTT~lL~~a~r~~-~~g~kVli~k   63 (214)
T 2j9r_A           26 QNGWIEVICGSMFSGKSEELIRRVRRTQ-FAKQHAIVFK   63 (214)
T ss_dssp             CSCEEEEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEE
Confidence            5788889999999999999999999887 6688888874

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=98.34  E-value=3.4e-06  Score=65.27  Aligned_cols=23  Identities=26%  Similarity=0.452  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+.|.||||||||||++.++...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999888665

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.34  E-value=4.9e-06  Score=70.64  Aligned_cols=27  Identities=15%  Similarity=0.260  Sum_probs=23.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+..++++||||+|||++++.++..+.
T Consensus        23 ~~~a~L~~G~~G~GKt~~a~~la~~l~   49 (334)
T 1a5t_A           23 GHHALLIQALPGMGDDALIYALSRYLL   49 (334)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cceeEEEECCCCchHHHHHHHHHHHHh
Confidence            345699999999999999999998765

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=98.33  E-value=2.6e-06  Score=79.00  Aligned_cols=54  Identities=7%  Similarity=-0.029  Sum_probs=36.3

Q ss_pred             Cc--EEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccc
Q 041690          106 PT--AVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSI  183 (233)
Q Consensus       106 p~--iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~  183 (233)
                      |+  ++++||+++-++..             ....     +++.++.+++.|.++|++++..       . .+. ..+.+
T Consensus       221 p~~~lLlLDEPtsgLD~~-------------~~~~-----l~~~l~~l~~~g~tvi~vtHd~-------~-~~~-~~d~i  273 (670)
T 3ux8_A          221 LTGVLYVLDEPSIGLHQR-------------DNDR-----LIATLKSMRDLGNTLIVVEHDE-------D-TML-AADYL  273 (670)
T ss_dssp             CCSCEEEEECTTTTCCGG-------------GHHH-----HHHHHHHHHHTTCEEEEECCCH-------H-HHH-HCSEE
T ss_pred             CCCCEEEEECCccCCCHH-------------HHHH-----HHHHHHHHHHcCCEEEEEeCCH-------H-HHh-hCCEE
Confidence            55  99999999999841             1111     5667777767788888876631       1 233 37877


Q ss_pred             eEE
Q 041690          184 FTV  186 (233)
Q Consensus       184 ~~i  186 (233)
                      +.+
T Consensus       274 i~l  276 (670)
T 3ux8_A          274 IDI  276 (670)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            777

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=98.32  E-value=5.9e-07  Score=89.12  Aligned_cols=28  Identities=18%  Similarity=0.360  Sum_probs=24.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||+..+.....
T Consensus       442 ~~G~~vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          442 NAGQTVALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             CTTCEEEEEECSSSCHHHHHHHHTTSSC
T ss_pred             cCCcEEEEEecCCCcHHHHHHHhccccc
Confidence            7999999999999999999997765444

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.30  E-value=3.7e-06  Score=78.98  Aligned_cols=35  Identities=20%  Similarity=0.204  Sum_probs=28.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      +...++|+||||||||++|+.++...    +.++++++.
T Consensus       487 p~~~~ll~G~~GtGKT~la~~la~~l----~~~~~~i~~  521 (758)
T 1r6b_X          487 PVGSFLFAGPTGVGKTEVTVQLSKAL----GIELLRFDM  521 (758)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH----TCEEEEEEG
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHHh----cCCEEEEec
Confidence            44579999999999999999888755    467888763

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=98.29  E-value=1.6e-06  Score=67.86  Aligned_cols=29  Identities=31%  Similarity=0.469  Sum_probs=24.5

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSN   48 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g   48 (233)
                      |..+.|.||+|||||||++.++.... ..|
T Consensus         1 G~~i~i~G~nG~GKTTll~~l~g~~~-~~G   29 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTLIHKASEVLK-SSG   29 (189)
T ss_dssp             CCCEEEESCCSSCHHHHHHHHHHHHH-HTT
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhcc-cCC
Confidence            46789999999999999999988765 444

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=98.28  E-value=7.3e-06  Score=68.87  Aligned_cols=75  Identities=9%  Similarity=0.056  Sum_probs=47.3

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhh--cCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCAS--QSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~--~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ...++++||||+|||++++.++..+..  .....+.+++.++   .          .             ..-+.+++++
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~---~----------~-------------~~id~ir~li   71 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG---E----------N-------------IGIDDIRTIK   71 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS---S----------C-------------BCHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCc---C----------C-------------CCHHHHHHHH
Confidence            468999999999999999999875320  1123455553110   0          0             0144566666


Q ss_pred             HHhccc--CCCCcEEEEeCCCcccc
Q 041690           97 AAFHQH--DKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        97 ~~~~~~--~~~p~iIvIDei~~~~~  119 (233)
                      ..+...  ....++|||||++.+-.
T Consensus        72 ~~~~~~p~~~~~kvviIdead~lt~   96 (305)
T 2gno_A           72 DFLNYSPELYTRKYVIVHDCERMTQ   96 (305)
T ss_dssp             HHHTSCCSSSSSEEEEETTGGGBCH
T ss_pred             HHHhhccccCCceEEEeccHHHhCH
Confidence            665432  22368999999988764

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.28  E-value=2.6e-06  Score=71.32  Aligned_cols=27  Identities=33%  Similarity=0.493  Sum_probs=23.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ....++|+||||+|||++++.++....
T Consensus        45 ~~~~~ll~G~~G~GKT~la~~l~~~l~   71 (327)
T 1iqp_A           45 SMPHLLFAGPPGVGKTTAALALARELF   71 (327)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHhc
Confidence            334699999999999999999988764

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.27  E-value=3.1e-06  Score=72.29  Aligned_cols=26  Identities=31%  Similarity=0.268  Sum_probs=22.7

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +..++|+||||+|||++++.++....
T Consensus        38 ~~~~ll~G~~G~GKT~la~~la~~l~   63 (373)
T 1jr3_A           38 HHAYLFSGTRGVGKTSIARLLAKGLN   63 (373)
T ss_dssp             CSEEEEESCTTSSHHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45689999999999999999987665

>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=98.27  E-value=1.4e-06  Score=83.38  Aligned_cols=141  Identities=12%  Similarity=0.120  Sum_probs=74.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh-hc---CCCeEEEEecCC-ccccc---cccccc-ccCC---chhhhcceEE-
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA-SQ---SNANVVFMCNRS-RLQSK---RPYLSQ-SIDP---SSHVFKLIQM-   83 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~-~~---~g~~v~yi~~e~-~l~~~---~~~~~~-~~~~---~~~~~~~i~~-   83 (233)
                      .+|..+.|.||+|||||||++.++.-.. ..   ...++.|+..+. .+...   .+.+.. ..+.   ....++.+.+ 
T Consensus       459 ~~Ge~v~LiGpNGsGKSTLLk~LagG~i~g~~~~~~~~~~~v~q~~~~~~~~ltv~e~l~~~~~~~~~~v~~~L~~lgL~  538 (986)
T 2iw3_A          459 KRARRYGICGPNGCGKSTLMRAIANGQVDGFPTQEECRTVYVEHDIDGTHSDTSVLDFVFESGVGTKEAIKDKLIEFGFT  538 (986)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHHTCSTTCCCTTTSCEEETTCCCCCCCTTSBHHHHHHTTCSSCHHHHHHHHHHTTCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCcCCCccccceeEEEEcccccccccCCcHHHHHHHhhcCHHHHHHHHHHHcCCC
Confidence            6999999999999999999998873111 00   112355654321 00000   011100 0000   0011111111 


Q ss_pred             --------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcC
Q 041690           84 --------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKS  155 (233)
Q Consensus        84 --------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~  155 (233)
                              ..++.++..+-.++.+-..  .|+++++||+++-++..             .+..     +.+.+..   .+
T Consensus       539 ~~~~~~~~~~LSGGqkQRvaLArAL~~--~P~lLLLDEPTs~LD~~-------------~~~~-----l~~~L~~---~g  595 (986)
T 2iw3_A          539 DEMIAMPISALSGGWKMKLALARAVLR--NADILLLDEPTNHLDTV-------------NVAW-----LVNYLNT---CG  595 (986)
T ss_dssp             HHHHHSBGGGCCHHHHHHHHHHHHHHT--TCSEEEEESTTTTCCHH-------------HHHH-----HHHHHHH---SC
T ss_pred             hhhhcCCcccCCHHHHHHHHHHHHHhc--CCCEEEEECCccCCCHH-------------HHHH-----HHHHHHh---CC
Confidence                    1233344444444443322  39999999999999841             1111     4455544   46


Q ss_pred             CcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          156 PCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       156 ~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .+++++++.        ...+.++.++++.+..
T Consensus       596 ~tvIivSHd--------l~~l~~~adrii~L~~  620 (986)
T 2iw3_A          596 ITSITISHD--------SVFLDNVCEYIINYEG  620 (986)
T ss_dssp             SEEEEECSC--------HHHHHHHCSEEEEEET
T ss_pred             CEEEEEECC--------HHHHHHhCCEEEEEEC
Confidence            777777553        1256777888888763

>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=98.27  E-value=2.7e-06  Score=71.25  Aligned_cols=41  Identities=20%  Similarity=0.255  Sum_probs=36.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++.+++|.||+|+||||++..++...+...|.+|.+++..
T Consensus       103 ~~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D  143 (296)
T 2px0_A          103 IHSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTD  143 (296)
T ss_dssp             CCSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecC
Confidence            47889999999999999999999988874468899999865

>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=98.26  E-value=3e-06  Score=73.23  Aligned_cols=40  Identities=13%  Similarity=0.227  Sum_probs=31.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..+|..++|.||+||||||++..++........+.++++.
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e  172 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIE  172 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEE
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEec
Confidence            3688999999999999999999998876633255666664

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=98.24  E-value=2e-06  Score=82.30  Aligned_cols=26  Identities=19%  Similarity=0.321  Sum_probs=23.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..++|.||+|+||||++++++..
T Consensus       660 ~~g~i~~ItGpNGsGKSTlLr~ial~  685 (934)
T 3thx_A          660 DKQMFHIITGPNMGGKSTYIRQTGVI  685 (934)
T ss_dssp             TTBCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999998543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.23  E-value=2e-06  Score=76.48  Aligned_cols=28  Identities=25%  Similarity=0.297  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .....++|+||||||||++++.++....
T Consensus       199 ~~~~~~LL~G~pG~GKT~la~~la~~l~  226 (468)
T 3pxg_A          199 RTKNNPVLIGEPGVGKTAIAEGLAQQII  226 (468)
T ss_dssp             SSSCEEEEESCTTTTTHHHHHHHHHHHH
T ss_pred             cCCCCeEEECCCCCCHHHHHHHHHHHHH
Confidence            3567889999999999999999998775

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.23  E-value=1.6e-06  Score=72.35  Aligned_cols=36  Identities=33%  Similarity=0.491  Sum_probs=26.2

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcC-CCeEEEEe
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQS-NANVVFMC   55 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~-g~~v~yi~   55 (233)
                      ..++|+||||+|||++++.++....... +..+++++
T Consensus        39 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   75 (319)
T 2chq_A           39 PHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMN   75 (319)
T ss_dssp             CCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEE
T ss_pred             CeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEe
Confidence            3599999999999999999988764221 22355554

>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=98.22  E-value=6.7e-06  Score=72.25  Aligned_cols=40  Identities=23%  Similarity=0.248  Sum_probs=35.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++.++++.||+|+||||++..++..+. ..|.+|++++..
T Consensus        95 ~~~~vI~lvG~~GsGKTTt~~kLA~~l~-~~G~kVllv~~D  134 (433)
T 3kl4_A           95 KLPFIIMLVGVQGSGKTTTAGKLAYFYK-KRGYKVGLVAAD  134 (433)
T ss_dssp             SSSEEEEECCCTTSCHHHHHHHHHHHHH-HTTCCEEEEEEC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEecC
Confidence            4678999999999999999999999888 678999998754

>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=98.22  E-value=2.6e-06  Score=72.42  Aligned_cols=23  Identities=39%  Similarity=0.554  Sum_probs=21.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhh
Q 041690           22 TLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|+|||||||||+++.++....
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l~   71 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREIY   71 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHc
Confidence            99999999999999999998765

>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=98.22  E-value=3.1e-06  Score=71.91  Aligned_cols=26  Identities=42%  Similarity=0.506  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +...++|+||||||||||++.++...
T Consensus        50 ~~~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           50 VLDHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             CCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            34789999999999999999888754

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=98.21  E-value=7.2e-06  Score=65.77  Aligned_cols=39  Identities=21%  Similarity=0.160  Sum_probs=32.6

Q ss_pred             CCC-EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDP-ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~-~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +|. .+++.|+||+||||++..++..++ ..|.+|++++.+
T Consensus         4 ~g~l~I~~~~kgGvGKTt~a~~la~~l~-~~G~~V~v~d~D   43 (228)
T 2r8r_A            4 RGRLKVFLGAAPGVGKTYAMLQAAHAQL-RQGVRVMAGVVE   43 (228)
T ss_dssp             CCCEEEEEESSTTSSHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHH-HCCCCEEEEEeC
Confidence            344 477899999999999999999888 678888887754

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.20  E-value=3.8e-06  Score=70.18  Aligned_cols=36  Identities=25%  Similarity=0.324  Sum_probs=26.3

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEEe
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFMC   55 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi~   55 (233)
                      ..++|+||||+|||++++.++...... .+..+++++
T Consensus        43 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   79 (323)
T 1sxj_B           43 PHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELN   79 (323)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEEC
T ss_pred             CeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEec
Confidence            349999999999999999998876422 123455554

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=98.20  E-value=1.6e-06  Score=79.00  Aligned_cols=39  Identities=18%  Similarity=0.165  Sum_probs=33.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+..++|.|||||||||++..++..+. ..+.+++++...
T Consensus       203 ~~~~~~I~G~pGTGKTt~i~~l~~~l~-~~g~~Vl~~ApT  241 (574)
T 3e1s_A          203 GHRLVVLTGGPGTGKSTTTKAVADLAE-SLGLEVGLCAPT  241 (574)
T ss_dssp             TCSEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             hCCEEEEEcCCCCCHHHHHHHHHHHHH-hcCCeEEEecCc
Confidence            568999999999999999999988777 678888888643

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.20  E-value=4.7e-06  Score=79.35  Aligned_cols=37  Identities=22%  Similarity=0.176  Sum_probs=31.1

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ...++|+||||||||++|+.++.... ..+.++++++.
T Consensus       588 ~~~vLl~Gp~GtGKT~lA~~la~~~~-~~~~~~i~i~~  624 (854)
T 1qvr_A          588 IGSFLFLGPTGVGKTELAKTLAATLF-DTEEAMIRIDM  624 (854)
T ss_dssp             SEEEEEBSCSSSSHHHHHHHHHHHHH-SSGGGEEEECT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhc-CCCCcEEEEec
Confidence            35899999999999999999998776 55678888863

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=98.19  E-value=3.3e-06  Score=80.54  Aligned_cols=26  Identities=27%  Similarity=0.470  Sum_probs=23.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|+|||||+++++..
T Consensus       671 ~~g~i~~ItGPNGaGKSTlLr~i~~i  696 (918)
T 3thx_B          671 DSERVMIITGPNMGGKSSYIKQVALI  696 (918)
T ss_dssp             TSCCEEEEESCCCHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCchHHHHHHHHHH
Confidence            57899999999999999999998754

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=98.18  E-value=6.1e-06  Score=77.83  Aligned_cols=27  Identities=22%  Similarity=0.346  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|+|||||+++++...
T Consensus       605 ~~g~i~~ItGpNGsGKSTlLr~iagl~  631 (800)
T 1wb9_A          605 PQRRMLIITGPNMGGKSTYMRQTALIA  631 (800)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            588999999999999999999998754

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=98.14  E-value=1.5e-06  Score=86.35  Aligned_cols=28  Identities=21%  Similarity=0.374  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||+..+..-..
T Consensus      1103 ~~Ge~vaIVG~SGsGKSTL~~lL~rl~~ 1130 (1321)
T 4f4c_A         1103 EPGQTLALVGPSGCGKSTVVALLERFYD 1130 (1321)
T ss_dssp             CTTCEEEEECSTTSSTTSHHHHHTTSSC
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhcCcc
Confidence            7999999999999999999997765443

>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=98.14  E-value=2.2e-06  Score=72.06  Aligned_cols=40  Identities=18%  Similarity=0.148  Sum_probs=35.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++.+++|.||+|+||||++..+|.... ..|++|++++..
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l~-~~g~kV~lv~~D  141 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMFV-DEGKSVVLAAAD  141 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEEC
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHHH-hcCCEEEEEccc
Confidence            5788999999999999999999998887 568889998754

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.13  E-value=4e-06  Score=78.81  Aligned_cols=28  Identities=25%  Similarity=0.297  Sum_probs=24.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .....++|+||||||||++++.++....
T Consensus       199 ~~~~~vLL~G~pGtGKT~la~~la~~l~  226 (758)
T 3pxi_A          199 RTKNNPVLIGEPGVGKTAIAEGLAQQII  226 (758)
T ss_dssp             SSSCEEEEESCTTTTTHHHHHHHHHHHH
T ss_pred             CCCCCeEEECCCCCCHHHHHHHHHHHHh
Confidence            3567899999999999999999998765

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=98.13  E-value=3.2e-06  Score=81.70  Aligned_cols=25  Identities=28%  Similarity=0.374  Sum_probs=22.3

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      |..++|.||+|+|||||+++++...
T Consensus       789 g~i~~ItGpNgsGKSTlLr~iGl~~  813 (1022)
T 2o8b_B          789 AYCVLVTGPNMGGKSTLMRQAGLLA  813 (1022)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHHHH
Confidence            7999999999999999999995443

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=98.12  E-value=1.6e-06  Score=85.85  Aligned_cols=27  Identities=19%  Similarity=0.267  Sum_probs=23.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus       414 ~~G~~~~ivG~sGsGKSTl~~ll~g~~  440 (1284)
T 3g5u_A          414 KSGQTVALVGNSGCGKSTTVQLMQRLY  440 (1284)
T ss_dssp             CTTCEEEEECCSSSSHHHHHHHTTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            799999999999999999999776543

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=98.12  E-value=6.5e-06  Score=73.71  Aligned_cols=36  Identities=14%  Similarity=0.304  Sum_probs=26.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+..++|+||||||||+||+.++....  .+..+.++.
T Consensus        40 ~~~~VLL~GpPGtGKT~LAraLa~~l~--~~~~f~~~~   75 (500)
T 3nbx_X           40 SGESVFLLGPPGIAKSLIARRLKFAFQ--NARAFEYLM   75 (500)
T ss_dssp             HTCEEEEECCSSSSHHHHHHHGGGGBS--SCCEEEEEC
T ss_pred             cCCeeEeecCchHHHHHHHHHHHHHHh--hhhHHHHHH
Confidence            567899999999999999997765442  233444443

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=98.12  E-value=2.6e-05  Score=62.63  Aligned_cols=38  Identities=16%  Similarity=0.237  Sum_probs=32.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..|.+.+++||.|+||||-+.+.+.... ..|.+++++.
T Consensus        17 ~~g~l~v~~G~MgsGKTT~lL~~~~r~~-~~g~kvli~k   54 (234)
T 2orv_A           17 TRGQIQVILGPMFSGKSTELMRRVRRFQ-IAQYKCLVIK   54 (234)
T ss_dssp             -CCEEEEEECCTTSCHHHHHHHHHHHHH-TTTCCEEEEE
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHH-HCCCeEEEEe
Confidence            4688999999999999999999998887 6688888775

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=98.08  E-value=1e-05  Score=75.05  Aligned_cols=74  Identities=11%  Similarity=0.025  Sum_probs=46.5

Q ss_pred             cCHHHHHHHHHHhcccC-CCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecC
Q 041690           87 EDDEEIKKYFAAFHQHD-KIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTH  165 (233)
Q Consensus        87 ~~~~~l~~~~~~~~~~~-~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~  165 (233)
                      +..+..+-.++.+-..+ ..|+++++||+++-++..             ..     ..+++++..+++.|.+++++++..
T Consensus       545 SgG~~qrv~iAraL~~~p~~p~llllDEPt~~LD~~-------------~~-----~~i~~~l~~l~~~g~tvi~vtHd~  606 (670)
T 3ux8_A          545 SGGEAQRVKLAAELHRRSNGRTLYILDEPTTGLHVD-------------DI-----ARLLDVLHRLVDNGDTVLVIEHNL  606 (670)
T ss_dssp             CHHHHHHHHHHHHHHSCCCSCEEEEEESTTTTCCHH-------------HH-----HHHHHHHHHHHHTTCEEEEECCCH
T ss_pred             CHHHHHHHHHHHHHhhCCCCCcEEEEeCCCCCCCHH-------------HH-----HHHHHHHHHHHHCCCEEEEEeCCH
Confidence            33555555555443322 236899999999999831             11     126667777767788888886632


Q ss_pred             CCCCchhHHHHHHhhccceEEE
Q 041690          166 LGNSTRLLYIYKRWISSIFTVK  187 (233)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~i~  187 (233)
                             . .. .+.|.++.+.
T Consensus       607 -------~-~~-~~~d~i~~l~  619 (670)
T 3ux8_A          607 -------D-VI-KTADYIIDLG  619 (670)
T ss_dssp             -------H-HH-TTCSEEEEEE
T ss_pred             -------H-HH-HhCCEEEEec
Confidence                   1 23 3578888884

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=98.07  E-value=9.7e-06  Score=70.57  Aligned_cols=26  Identities=12%  Similarity=0.134  Sum_probs=22.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+| .+.|+||+|+|||||+..+....
T Consensus        59 ~~G-~~~lvG~NGaGKStLl~aI~~l~   84 (415)
T 4aby_A           59 GGG-FCAFTGETGAGKSIIVDALGLLL   84 (415)
T ss_dssp             CSS-EEEEEESHHHHHHHHTHHHHHHT
T ss_pred             CCC-cEEEECCCCCCHHHHHHHHHHHh
Confidence            577 99999999999999999876544

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=98.06  E-value=6.6e-06  Score=71.14  Aligned_cols=39  Identities=15%  Similarity=0.094  Sum_probs=30.4

Q ss_pred             CCCEEEE--EcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEec
Q 041690           18 VDPITLL--SGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll--~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~   56 (233)
                      .+..++|  +||||+|||+|+++++......     .+..++|++.
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNA   94 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEG
T ss_pred             CCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEEC
Confidence            4568889  9999999999999998776532     1456888873

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=98.04  E-value=3.3e-06  Score=83.63  Aligned_cols=27  Identities=19%  Similarity=0.303  Sum_probs=24.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus      1057 ~~Ge~v~ivG~sGsGKSTl~~~l~g~~ 1083 (1284)
T 3g5u_A         1057 KKGQTLALVGSSGCGKSTVVQLLERFY 1083 (1284)
T ss_dssp             CSSSEEEEECSSSTTHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            799999999999999999999776543

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=98.04  E-value=7.8e-06  Score=72.44  Aligned_cols=36  Identities=14%  Similarity=0.211  Sum_probs=29.3

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCC-eEEEEec
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNA-NVVFMCN   56 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~-~v~yi~~   56 (233)
                      ..++|.||||||||+++..++..+. ..+. .++.++.
T Consensus        46 ~~~li~G~aGTGKT~ll~~~~~~l~-~~~~~~il~~a~   82 (459)
T 3upu_A           46 HHVTINGPAGTGATTLTKFIIEALI-STGETGIILAAP   82 (459)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH-HTTCCCEEEEES
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHH-hcCCceEEEecC
Confidence            4899999999999999999998887 4454 6666653

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=98.00  E-value=2.4e-05  Score=62.14  Aligned_cols=38  Identities=21%  Similarity=0.210  Sum_probs=29.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..|.+.+++||-|+||||.+.+.+.... ..+.+++.+.
T Consensus        26 ~~G~I~vitG~M~sGKTT~Llr~~~r~~-~~g~kvli~k   63 (219)
T 3e2i_A           26 HSGWIECITGSMFSGKSEELIRRLRRGI-YAKQKVVVFK   63 (219)
T ss_dssp             -CCEEEEEEECTTSCHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHH-HcCCceEEEE
Confidence            4788999999999999997777777666 5577776664

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=97.99  E-value=5.7e-05  Score=60.64  Aligned_cols=41  Identities=27%  Similarity=0.468  Sum_probs=29.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC----CeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN----ANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g----~~v~yi~~e   57 (233)
                      ..|..+++.||+|||||+++..++.......+    ..++++...
T Consensus        74 ~~g~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~p~  118 (235)
T 3llm_A           74 SQNSVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPR  118 (235)
T ss_dssp             HHCSEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEESS
T ss_pred             hcCCEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEeccc
Confidence            36899999999999999988777655432333    267777643

>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=97.99  E-value=7e-06  Score=64.36  Aligned_cols=40  Identities=13%  Similarity=0.106  Sum_probs=33.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..+.|.|||||||||+++.++.... ..|..++|++..
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~-~~G~~~~~~d~d   62 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLY-QKGKLCYILDGD   62 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEEHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH-hcCceEEEecCc
Confidence            5789999999999999999999988776 556666788754

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=97.98  E-value=2e-05  Score=73.92  Aligned_cols=25  Identities=32%  Similarity=0.535  Sum_probs=23.2

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      |..+.|.||+|+|||||+++++...
T Consensus       576 g~i~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          576 HELVLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHhhh
Confidence            8999999999999999999998754

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.96  E-value=6.3e-06  Score=63.76  Aligned_cols=37  Identities=27%  Similarity=0.280  Sum_probs=29.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..+.|.|||||||||+++.++..    .+...++++..
T Consensus         7 ~~g~~i~l~G~~GsGKSTl~~~La~~----~~~g~i~i~~d   43 (191)
T 1zp6_A            7 LGGNILLLSGHPGSGKSTIAEALANL----PGVPKVHFHSD   43 (191)
T ss_dssp             CTTEEEEEEECTTSCHHHHHHHHHTC----SSSCEEEECTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHhc----cCCCeEEEccc
Confidence            47889999999999999999977653    34456777654

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.95  E-value=4.3e-05  Score=64.56  Aligned_cols=40  Identities=25%  Similarity=0.213  Sum_probs=35.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++.+++|.||+|+||||++..++...+ ..|++|++++..
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~l~-~~g~kVllid~D  142 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANYYA-ELGYKVLIAAAD  142 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEeCC
Confidence            5788999999999999999999998888 668899999754

>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=97.93  E-value=9.4e-06  Score=67.94  Aligned_cols=39  Identities=21%  Similarity=0.233  Sum_probs=34.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++.++.+.|++|+||||++..++...+ ..|.++++++..
T Consensus        97 ~~~vi~i~G~~G~GKTT~~~~la~~~~-~~g~~v~l~~~D  135 (297)
T 1j8m_F           97 IPYVIMLVGVQGTGKTTTAGKLAYFYK-KKGFKVGLVGAD  135 (297)
T ss_dssp             SSEEEEEECSSCSSTTHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEecC
Confidence            478899999999999999999998888 668899999865

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=97.92  E-value=1.3e-05  Score=67.08  Aligned_cols=39  Identities=15%  Similarity=0.153  Sum_probs=34.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++.++.+.|++|+||||++..++...+ ..++++.+++..
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~-~~~~~v~l~~~d  135 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK-GKGRRPLLVAAD  135 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEecCC
Confidence            788999999999999999999998888 668899999854

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.90  E-value=1.3e-05  Score=61.98  Aligned_cols=40  Identities=20%  Similarity=0.228  Sum_probs=33.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..+.|.|+|||||||+++.++.... ..|.++.+++.+
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~l~-~~~~~~~~~~~d   50 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADLLQ-KEGYRVEVLDGD   50 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHH-hcCCeEEEeeHH
Confidence            4788999999999999999999998776 557778888643

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.86  E-value=0.00016  Score=56.66  Aligned_cols=37  Identities=22%  Similarity=0.104  Sum_probs=32.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ....++|++++|.||||.|..++...+ ..|.+|+++.
T Consensus        27 ~~g~i~v~tG~GkGKTTaA~GlalRA~-g~G~rV~~vQ   63 (196)
T 1g5t_A           27 ERGIIIVFTGNGKGKTTAAFGTAARAV-GHGKNVGVVQ   63 (196)
T ss_dssp             CCCCEEEEESSSSCHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEE
Confidence            446789999999999999999999988 7799999985

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=97.86  E-value=0.00023  Score=63.44  Aligned_cols=40  Identities=20%  Similarity=0.255  Sum_probs=33.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ..+|.++.|.||+|||||||+..++.... ..+++|.+...
T Consensus       290 i~~GeVI~LVGpNGSGKTTLl~~LAgll~-~~~G~V~l~g~  329 (503)
T 2yhs_A          290 GKAPFVILMVGVNGVGKTTTIGKLARQFE-QQGKSVMLAAG  329 (503)
T ss_dssp             SCTTEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEECC
T ss_pred             ccCCeEEEEECCCcccHHHHHHHHHHHhh-hcCCeEEEecC
Confidence            36889999999999999999999998776 55777877653

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.85  E-value=8e-06  Score=64.54  Aligned_cols=27  Identities=19%  Similarity=0.249  Sum_probs=23.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +...++|+||||||||++|..++..+.
T Consensus        57 kkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           57 KKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             TCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            456799999999999999998887653

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=97.85  E-value=0.00012  Score=76.76  Aligned_cols=35  Identities=31%  Similarity=0.330  Sum_probs=25.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+..+|++||||||||++++.++...   .+..++.+.
T Consensus      1266 ~~~~vLL~GPpGtGKT~la~~~l~~~---~~~~~~~in 1300 (2695)
T 4akg_A         1266 SKRGIILCGPPGSGKTMIMNNALRNS---SLYDVVGIN 1300 (2695)
T ss_dssp             HTCEEEEECSTTSSHHHHHHHHHHSC---SSCEEEEEE
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHhcC---CCCceEEEE
Confidence            67899999999999999997665432   234455543

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=97.84  E-value=5e-05  Score=59.28  Aligned_cols=40  Identities=8%  Similarity=-0.076  Sum_probs=27.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh-----cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS-----QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~-----~~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||..+...+.....     ..+.+++|+...
T Consensus        37 ~~~~~li~~~TGsGKT~~~~~~~~~~l~~~~~~~~~~~~lil~P~   81 (207)
T 2gxq_A           37 EGKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPT   81 (207)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHHHCCCCCCTTCCCSEEEECSS
T ss_pred             CCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCcEEEEECC
Confidence            5678999999999999875544433321     235678888754

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.81  E-value=1.9e-05  Score=62.33  Aligned_cols=41  Identities=20%  Similarity=0.173  Sum_probs=32.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+|..+.|.||+|||||||++.++.... ..|..+.+|...
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~~~-~~g~~~g~v~~d   59 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAALS-AQGLPAEVVPMD   59 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHHHH-HTTCCEEEEESG
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHh-hcCCceEEEecC
Confidence            35789999999999999999999987766 335556666643

>3pih_A Uvrabc system protein A; hydrolase, ABC ATPase, DNA repair, nucleotide excision repai hydrolase-DNA complex; HET: DNA; 2.90A {Thermotoga maritima}

Probab=97.80  E-value=0.00021  Score=68.18  Aligned_cols=57  Identities=7%  Similarity=-0.013  Sum_probs=39.0

Q ss_pred             CCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          105 IPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       105 ~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      .|.++++||+++-++..             ..     ..+++.+..+.+.|.++|+|++.-       . .+.. .|.++
T Consensus       826 ~p~LLILDEPTsGLD~~-------------~~-----~~L~~lL~~L~~~G~TVIvI~HdL-------~-~i~~-ADrIi  878 (916)
T 3pih_A          826 GRTLYILDEPTVGLHFE-------------DV-----RKLVEVLHRLVDRGNTVIVIEHNL-------D-VIKN-ADHII  878 (916)
T ss_dssp             SSEEEEEESTTTTCCHH-------------HH-----HHHHHHHHHHHHTTCEEEEECCCH-------H-HHTT-CSEEE
T ss_pred             CCCEEEEECCCCCCCHH-------------HH-----HHHHHHHHHHHhcCCEEEEEeCCH-------H-HHHh-CCEEE
Confidence            37899999999999831             11     125666666767788888886642       1 3333 78888


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+.+
T Consensus       879 vLgp  882 (916)
T 3pih_A          879 DLGP  882 (916)
T ss_dssp             EEES
T ss_pred             EecC
Confidence            8865

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.79  E-value=2.2e-05  Score=60.42  Aligned_cols=36  Identities=17%  Similarity=0.232  Sum_probs=27.7

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +..++|.|||||||||+++.++.... ..|.++.+++
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l~-~~g~~~~~i~   38 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNLR-KEGVNYKMVS   38 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH-TTTCCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-hcCcceEEEe
Confidence            56899999999999999999887655 3343355555

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.79  E-value=2.5e-05  Score=60.20  Aligned_cols=34  Identities=21%  Similarity=0.304  Sum_probs=28.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .++|.|+|||||||++..++.... ..|.++.+++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~-~~g~~~~~~~   36 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD-NQGINNKIIN   36 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH-TTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-hcCceEEEEE
Confidence            588999999999999999988766 4566788876

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=97.79  E-value=3.2e-05  Score=65.17  Aligned_cols=43  Identities=16%  Similarity=0.094  Sum_probs=34.5

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-CeEEEEecCC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSN-ANVVFMCNRS   58 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-~~v~yi~~e~   58 (233)
                      ..+|.++.|.||+|||||||++.++.......| ..+.|++...
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd~  130 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTDG  130 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGGG
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhhccccCCCCeEEEEecCc
Confidence            468999999999999999999998877653333 4688887653

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=97.78  E-value=3.4e-05  Score=64.76  Aligned_cols=40  Identities=18%  Similarity=0.255  Sum_probs=33.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|.++.|.||+||||||++..++.... ..++++.+....
T Consensus       100 ~~g~vi~lvG~nGsGKTTll~~Lagll~-~~~g~V~l~g~D  139 (304)
T 1rj9_A          100 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ-NLGKKVMFCAGD  139 (304)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH-TTTCCEEEECCC
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH-hcCCEEEEEeec
Confidence            3788999999999999999999998777 557788877643

>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=97.78  E-value=2.7e-05  Score=59.41  Aligned_cols=33  Identities=12%  Similarity=0.167  Sum_probs=25.2

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +..++|.|+|||||||+++.++...    +..++.++
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l----~~~~~~~~   35 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVL----PEPWLAFG   35 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS----SSCEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc----CCCeEEec
Confidence            4679999999999999999877643    34455544

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=97.76  E-value=4.6e-05  Score=66.82  Aligned_cols=39  Identities=15%  Similarity=0.153  Sum_probs=34.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++.++.+.||+|+||||++..++...+ ..|.+|+.++..
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~-~~g~~Vllvd~D  135 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK-GKGRRPLLVAAD  135 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEeecc
Confidence            678899999999999999999998888 668899998754

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=97.76  E-value=3e-05  Score=59.46  Aligned_cols=39  Identities=13%  Similarity=0.056  Sum_probs=32.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +|..+.|.|++||||||+++.++.... ..|.++++++.+
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l~-~~g~~~i~~d~~   42 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYLV-CHGIPCYTLDGD   42 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHh-hCCCcEEEECCh
Confidence            678899999999999999999987665 356678877643

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.74  E-value=1.9e-05  Score=61.72  Aligned_cols=26  Identities=27%  Similarity=0.390  Sum_probs=23.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||+|||||||++.++..
T Consensus         5 ~~g~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            5 NKANLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhh
Confidence            37889999999999999999988764

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.74  E-value=2.1e-05  Score=61.57  Aligned_cols=27  Identities=30%  Similarity=0.216  Sum_probs=23.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++..+.|.|||||||||+++.++...
T Consensus        23 ~~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           23 NAMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            578899999999999999999888644

>2vf7_A UVRA2, excinuclease ABC, subunit A.; DNA-binding protein, nucleotide-binding, zinc-binding domain, SOS response, metal-binding; HET: ADP; 2.30A {Deinococcus radiodurans} PDB: 2vf8_A*

Probab=97.74  E-value=0.00015  Score=68.58  Aligned_cols=56  Identities=5%  Similarity=-0.043  Sum_probs=39.4

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++|+||+++-++..             ..     ..+++.+..+.+.|.+++++++..       . .+ ...+.++.
T Consensus       752 p~lLILDEPTsGLD~~-------------~~-----~~l~~lL~~L~~~G~tVIvisHdl-------~-~i-~~aDrii~  804 (842)
T 2vf7_A          752 GTVYVLDEPTTGLHPA-------------DV-----ERLQRQLVKLVDAGNTVIAVEHKM-------Q-VV-AASDWVLD  804 (842)
T ss_dssp             CEEEEEECTTTTCCHH-------------HH-----HHHHHHHHHHHHTTCEEEEECCCH-------H-HH-TTCSEEEE
T ss_pred             CCEEEEECCCCCCCHH-------------HH-----HHHHHHHHHHHhCCCEEEEEcCCH-------H-HH-HhCCEEEE
Confidence            7999999999999831             11     226666777767788888886631       1 34 56888998


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +.+
T Consensus       805 L~p  807 (842)
T 2vf7_A          805 IGP  807 (842)
T ss_dssp             ECS
T ss_pred             ECC
Confidence            864

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.73  E-value=2.1e-05  Score=61.53  Aligned_cols=35  Identities=17%  Similarity=0.177  Sum_probs=27.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..+.|.|||||||||+++.++...    |  .++++..
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~----g--~~~i~~d   61 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET----G--LEFAEAD   61 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH----C--CEEEEGG
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh----C--CeEEccc
Confidence            478999999999999999999887644    2  4556544

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.72  E-value=0.00068  Score=60.67  Aligned_cols=40  Identities=18%  Similarity=0.333  Sum_probs=33.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+...++|.|+||+||||++..++..++ ..|.++..++..
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~l~-~~G~kVllVd~D  138 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYYYQ-RKGWKTCLICAD  138 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEEEC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEecc
Confidence            3566899999999999999999998888 668899998753

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=97.72  E-value=0.00038  Score=54.83  Aligned_cols=40  Identities=18%  Similarity=0.261  Sum_probs=28.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||..+...+......  .+.+++|+...
T Consensus        50 ~~~~~li~~~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~Pt   91 (220)
T 1t6n_A           50 LGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHT   91 (220)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHHHCCCCTTCCCEEEECSC
T ss_pred             CCCCEEEECCCCCchhhhhhHHHHHhhhccCCCEEEEEEeCC
Confidence            56779999999999998776655544322  23478888754

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=97.70  E-value=0.00019  Score=57.84  Aligned_cols=36  Identities=17%  Similarity=0.174  Sum_probs=27.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+..++|+||+|+|||.++..++...    +.+++++...
T Consensus       107 ~~~~~ll~~~tG~GKT~~a~~~~~~~----~~~~liv~P~  142 (237)
T 2fz4_A          107 VDKRGCIVLPTGSGKTHVAMAAINEL----STPTLIVVPT  142 (237)
T ss_dssp             TTSEEEEEESSSTTHHHHHHHHHHHS----CSCEEEEESS
T ss_pred             hCCCEEEEeCCCCCHHHHHHHHHHHc----CCCEEEEeCC
Confidence            44569999999999999998766533    5678887643

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.70  E-value=2.4e-05  Score=60.30  Aligned_cols=26  Identities=12%  Similarity=0.151  Sum_probs=23.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +|..+.|.||+|||||||++.++...
T Consensus         4 ~g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            68899999999999999999887654

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.69  E-value=4e-05  Score=60.11  Aligned_cols=40  Identities=18%  Similarity=0.138  Sum_probs=32.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++..+.|.||+||||||++..++.... ..+..+.+++..
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~~~~-~~~~~v~~~~~d   59 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQTLR-EQGISVCVFHMD   59 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHHH-HTTCCEEEEEGG
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHh-hcCCeEEEeccC
Confidence            4678999999999999999999887665 456677777533

>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=97.69  E-value=2.9e-05  Score=59.24  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=23.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.|||||||||+++.++..
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~~   31 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAHQ   31 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHh
Confidence            46889999999999999999988764

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=97.68  E-value=3.7e-05  Score=62.87  Aligned_cols=39  Identities=21%  Similarity=0.310  Sum_probs=30.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++..++|.|+|||||||+++.++..+. ..|..+++++.+
T Consensus         3 ~~~lIvl~G~pGSGKSTla~~La~~L~-~~g~~~i~~~~D   41 (260)
T 3a4m_A            3 DIMLIILTGLPGVGKSTFSKNLAKILS-KNNIDVIVLGSD   41 (260)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEECTH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-hCCCEEEEECch
Confidence            356799999999999999999887655 456677766643

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=97.68  E-value=0.00029  Score=60.39  Aligned_cols=37  Identities=14%  Similarity=0.317  Sum_probs=29.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ++|..++|.||+|||||||++.++.... . ....+.+.
T Consensus       173 ~~G~~i~ivG~sGsGKSTll~~l~~~~~-~-~~g~I~ie  209 (361)
T 2gza_A          173 QLERVIVVAGETGSGKTTLMKALMQEIP-F-DQRLITIE  209 (361)
T ss_dssp             HTTCCEEEEESSSSCHHHHHHHHHTTSC-T-TSCEEEEE
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHhcCC-C-CceEEEEC
Confidence            5899999999999999999998876544 2 34455554

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.68  E-value=2.4e-05  Score=59.47  Aligned_cols=24  Identities=29%  Similarity=0.357  Sum_probs=21.0

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +..+.|.|||||||||+++.++..
T Consensus         4 ~~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            4 KRNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            467999999999999999987764

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=97.68  E-value=4.2e-05  Score=64.88  Aligned_cols=40  Identities=18%  Similarity=0.176  Sum_probs=34.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|.++.|.||+||||||++..++.... ..++++.+....
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~-~~~g~V~l~g~D  166 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLK-NHGFSVVIAASD  166 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEEC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH-hcCCEEEEEeec
Confidence            5789999999999999999999998777 567788887643

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.67  E-value=4.1e-05  Score=64.16  Aligned_cols=41  Identities=17%  Similarity=0.208  Sum_probs=34.2

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+|.++.|.||+||||||++..++.... ..++++.+....
T Consensus        97 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~-~~~g~V~l~g~d  137 (302)
T 3b9q_A           97 FRKPAVIMIVGVNGGGKTTSLGKLAHRLK-NEGTKVLMAAGD  137 (302)
T ss_dssp             SSSCEEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEECCC
T ss_pred             cCCCcEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeec
Confidence            36889999999999999999999998777 557778777543

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=97.67  E-value=3.3e-05  Score=60.98  Aligned_cols=40  Identities=13%  Similarity=0.171  Sum_probs=32.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+|..+.|.|+|||||||+++.++.......|.++++++.
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~   62 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDG   62 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECC
Confidence            5788999999999999999999887665334666888864

>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=97.67  E-value=2.6e-05  Score=61.48  Aligned_cols=29  Identities=24%  Similarity=0.424  Sum_probs=23.8

Q ss_pred             cCCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           15 ETHVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        15 ~~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..++|..+.|.||+|||||||++.++...
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45799999999999999999999887654

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.67  E-value=4.8e-05  Score=59.50  Aligned_cols=35  Identities=14%  Similarity=0.068  Sum_probs=27.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      ++..+.|.|+|||||||+++.++.... ..| .++..
T Consensus         3 ~~~~I~i~G~~GsGKsT~~~~L~~~l~-~~g-~~~~~   37 (213)
T 2plr_A            3 KGVLIAFEGIDGSGKSSQATLLKDWIE-LKR-DVYLT   37 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHT-TTS-CEEEE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHh-hcC-CEEEe
Confidence            356799999999999999999987665 334 56544

>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, at cassette, DNA damage, DNA excision; HET: ADP; 3.20A {Geobacillus stearothermophilus} PDB: 3uwx_A

Probab=97.67  E-value=0.00028  Score=67.39  Aligned_cols=56  Identities=9%  Similarity=0.023  Sum_probs=38.4

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++..             ..     ..+++.+..+.+.|.+++++++..       . .+ .+.+.++.
T Consensus       867 p~lLILDEPTsGLD~~-------------~~-----~~l~~lL~~L~~~G~TVIvisHdl-------~-~i-~~aDrIiv  919 (972)
T 2r6f_A          867 RTLYILDEPTTGLHVD-------------DI-----ARLLDVLHRLVDNGDTVLVIEHNL-------D-VI-KTADYIID  919 (972)
T ss_dssp             CEEEEEECTTTTCCHH-------------HH-----HHHHHHHHHHHHTTCEEEEECCCH-------H-HH-TTCSEEEE
T ss_pred             CCEEEEECCCCCCCHH-------------HH-----HHHHHHHHHHHhCCCEEEEEcCCH-------H-HH-HhCCEEEE
Confidence            6999999999999831             11     125666766767788888886531       1 23 35788888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +.+
T Consensus       920 L~p  922 (972)
T 2r6f_A          920 LGP  922 (972)
T ss_dssp             ECS
T ss_pred             EcC
Confidence            854

>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=97.65  E-value=3.2e-05  Score=61.05  Aligned_cols=27  Identities=22%  Similarity=0.242  Sum_probs=23.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+||||||+++.++...
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            478999999999999999999887654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.65  E-value=3.2e-05  Score=60.36  Aligned_cols=27  Identities=22%  Similarity=0.278  Sum_probs=23.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.|||||||||+++.++...
T Consensus         4 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            4 EKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            478899999999999999999887654

>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=97.65  E-value=3.6e-05  Score=58.32  Aligned_cols=27  Identities=22%  Similarity=0.194  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            689999999999999999999988766

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=97.65  E-value=0.00014  Score=66.61  Aligned_cols=40  Identities=18%  Similarity=0.277  Sum_probs=29.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh---cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS---QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~---~~g~~v~yi~~e   57 (233)
                      .+..++|.|||||||||++..++..+..   ..+.+++.+...
T Consensus       163 ~~~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~APT  205 (608)
T 1w36_D          163 TRRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPT  205 (608)
T ss_dssp             TBSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSS
T ss_pred             cCCCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEEeCC
Confidence            5789999999999999998887766552   234567666543

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=97.63  E-value=0.00048  Score=64.89  Aligned_cols=41  Identities=24%  Similarity=0.270  Sum_probs=29.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC--CCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS--NANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~--g~~v~yi~~e   57 (233)
                      ..+..++|.||+|||||+++-+++.......  +..++++...
T Consensus       107 ~~~~~vii~gpTGSGKTtllp~ll~~~~~~~~~g~~ilvl~P~  149 (773)
T 2xau_A          107 QNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLENTQVACTQPR  149 (773)
T ss_dssp             HHCSEEEEECCTTSSHHHHHHHHHHHHHCGGGGTCEEEEEESC
T ss_pred             hCCCeEEEECCCCCCHHHHHHHHHHHhccccCCCceEEecCch
Confidence            3678899999999999998777755433222  5557777543

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=97.63  E-value=2.9e-05  Score=74.42  Aligned_cols=27  Identities=19%  Similarity=0.287  Sum_probs=24.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|||||||++.++...
T Consensus       697 ~~GeivaIiGpNGSGKSTLLklLaGll  723 (986)
T 2iw3_A          697 SLSSRIAVIGPNGAGKSTLINVLTGEL  723 (986)
T ss_dssp             ETTCEEEECSCCCHHHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            699999999999999999999876543

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=97.62  E-value=0.00014  Score=56.60  Aligned_cols=40  Identities=10%  Similarity=0.047  Sum_probs=27.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh--cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS--QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~--~~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||..+...+.....  ..+.+++|+...
T Consensus        39 ~~~~~lv~apTGsGKT~~~~~~~~~~~~~~~~~~~~lil~Pt   80 (206)
T 1vec_A           39 SGRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIVPT   80 (206)
T ss_dssp             TTCCEEEECCSSSTTHHHHHHHHHHHCCTTSCSCCEEEECSC
T ss_pred             cCCCEEEECCCCCchHHHHHHHHHHHhcccCCCeeEEEEeCc
Confidence            5678999999999999755543333221  235578888754

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=97.62  E-value=9.6e-05  Score=58.47  Aligned_cols=40  Identities=13%  Similarity=0.078  Sum_probs=26.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHH-hhh-cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYN-CAS-QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~-~~~-~~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||......+.. ... ..+.+++|+...
T Consensus        50 ~~~~~lv~~pTGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt   91 (224)
T 1qde_A           50 EGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPT   91 (224)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHHHHHCCTTCCSCCEEEECSS
T ss_pred             cCCCEEEECCCCCcHHHHHHHHHHHHHhccCCCceEEEEECC
Confidence            5677999999999999774333322 221 235578888754

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.62  E-value=5.8e-05  Score=59.28  Aligned_cols=37  Identities=19%  Similarity=0.176  Sum_probs=29.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..+.|.||+|||||||++.++....    ..+.|++..
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~~~----~~i~~v~~d   40 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALARTLG----ERVALLPMD   40 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHHHG----GGEEEEEGG
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhC----CCeEEEecC
Confidence            3778999999999999999998876543    157788755

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.62  E-value=3.9e-05  Score=58.94  Aligned_cols=25  Identities=32%  Similarity=0.081  Sum_probs=21.8

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +..++|.|||||||||+++.++...
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999887644

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.61  E-value=0.0001  Score=64.79  Aligned_cols=39  Identities=15%  Similarity=0.222  Sum_probs=34.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC-CCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS-NANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~-g~~v~yi~~e   57 (233)
                      ++.++++.|++|+||||++..+|..++ .. |.+|+.++..
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~-~~~G~kVllvd~D  138 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLR-EKHKKKVLVVSAD  138 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHH-HTSCCCEEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HhcCCeEEEEecC
Confidence            467888999999999999999999988 55 9999999865

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.61  E-value=3.5e-05  Score=60.53  Aligned_cols=27  Identities=22%  Similarity=0.319  Sum_probs=24.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..++|.|||||||||++..++...
T Consensus        10 ~~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           10 ARIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            578899999999999999999887754

>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=97.61  E-value=3.9e-05  Score=57.99  Aligned_cols=23  Identities=26%  Similarity=0.680  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+.|.|||||||||+++.++...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68899999999999999887643

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=97.61  E-value=0.00038  Score=64.81  Aligned_cols=41  Identities=15%  Similarity=0.122  Sum_probs=33.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+..+++.||+|||||+.+.+.+.......+.+++|+...
T Consensus        44 ~~~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~il~i~P~   84 (715)
T 2va8_A           44 LEGNRLLLTSPTGSGKTLIAEMGIISFLLKNGGKAIYVTPL   84 (715)
T ss_dssp             TTTCCEEEECCTTSCHHHHHHHHHHHHHHHSCSEEEEECSC
T ss_pred             cCCCcEEEEcCCCCcHHHHHHHHHHHHHHHCCCeEEEEeCc
Confidence            46889999999999999999877765543467899999765

>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=97.60  E-value=3.8e-05  Score=59.29  Aligned_cols=26  Identities=27%  Similarity=0.454  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++..++|.|+|||||||+++.++...
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999887644

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=97.60  E-value=0.00012  Score=68.29  Aligned_cols=41  Identities=17%  Similarity=0.117  Sum_probs=31.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+..+++.||+|||||+.+...+.......+.+++|+...
T Consensus        37 ~~~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~~l~i~P~   77 (720)
T 2zj8_A           37 LEGKNALISIPTASGKTLIAEIAMVHRILTQGGKAVYIVPL   77 (720)
T ss_dssp             GGTCEEEEECCGGGCHHHHHHHHHHHHHHHHCSEEEEECSS
T ss_pred             cCCCcEEEEcCCccHHHHHHHHHHHHHHHhCCCEEEEEcCc
Confidence            45889999999999999988655544432357899999865

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.59  E-value=4.1e-05  Score=63.65  Aligned_cols=36  Identities=33%  Similarity=0.378  Sum_probs=27.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ..+..++|.|||||||||+++.++...    +...++|+.
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~~~----~~~~~~Is~   66 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFEET----QGNVIVIDN   66 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHT----TTCCEEECT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh----CCCeEEEec
Confidence            467889999999999999999887643    234667764

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.59  E-value=3.9e-05  Score=64.64  Aligned_cols=34  Identities=21%  Similarity=0.135  Sum_probs=26.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+..++|+||||||||+|++.++...    +.++.++.
T Consensus        45 ~~~~vll~G~pGtGKT~la~~la~~~----~~~~~~i~   78 (331)
T 2r44_A           45 TGGHILLEGVPGLAKTLSVNTLAKTM----DLDFHRIQ   78 (331)
T ss_dssp             HTCCEEEESCCCHHHHHHHHHHHHHT----TCCEEEEE
T ss_pred             cCCeEEEECCCCCcHHHHHHHHHHHh----CCCeEEEe
Confidence            45789999999999999999887644    34566554

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=97.59  E-value=0.00017  Score=57.96  Aligned_cols=40  Identities=18%  Similarity=0.053  Sum_probs=27.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc---CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ---SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~---~g~~v~yi~~e   57 (233)
                      .|..+++.+|+|+|||......+......   .+.+++|+...
T Consensus        65 ~~~~~l~~a~TGsGKT~~~~l~~l~~l~~~~~~~~~~lil~Pt  107 (245)
T 3dkp_A           65 HGRELLASAPTGSGKTLAFSIPILMQLKQPANKGFRALIISPT  107 (245)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHHHHCSCCSSSCCEEEECSS
T ss_pred             CCCCEEEECCCCCcHHHHHHHHHHHHHhhcccCCceEEEEeCC
Confidence            56779999999999998654333333212   35578888754

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.59  E-value=3.6e-05  Score=58.66  Aligned_cols=32  Identities=22%  Similarity=0.266  Sum_probs=24.0

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ..++|.|+|||||||+++.++..   .  ....+++.
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~---~--~~~~~i~~   34 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAK---N--PGFYNINR   34 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH---S--TTEEEECH
T ss_pred             eEEEEecCCCCCHHHHHHHHHhh---c--CCcEEecH
Confidence            46899999999999999987752   1  23566653

>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae}

Probab=97.58  E-value=0.00042  Score=67.71  Aligned_cols=40  Identities=15%  Similarity=0.135  Sum_probs=33.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..|..+++.||.|+|||+.+...+.... ..+.+++|+...
T Consensus       197 ~~g~dvLV~ApTGSGKTlva~l~i~~~l-~~g~rvlvl~Pt  236 (1108)
T 3l9o_A          197 DRGESVLVSAHTSAGKTVVAEYAIAQSL-KNKQRVIYTSPI  236 (1108)
T ss_dssp             TTTCCEEEECCSSSHHHHHHHHHHHHHH-HTTCEEEEEESS
T ss_pred             HcCCCEEEECCCCCChHHHHHHHHHHHH-hcCCeEEEEcCc
Confidence            5788999999999999998876666555 668899999865

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.58  E-value=3.7e-05  Score=59.11  Aligned_cols=26  Identities=27%  Similarity=0.433  Sum_probs=22.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +|..+.|.|+|||||||+++.++...
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            46689999999999999999887643

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=97.58  E-value=5.1e-05  Score=58.13  Aligned_cols=27  Identities=37%  Similarity=0.466  Sum_probs=22.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++..++|.|+|||||||+++.++...
T Consensus         9 ~~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A            9 MLLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            456789999999999999999887643

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*

Probab=97.57  E-value=8.3e-05  Score=59.68  Aligned_cols=40  Identities=8%  Similarity=0.000  Sum_probs=27.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||......+......  .+.+++|+...
T Consensus        66 ~~~~~li~apTGsGKT~~~~l~~l~~l~~~~~~~~~lil~Pt  107 (237)
T 3bor_A           66 KGYDVIAQAQSGTGKTATFAISILQQLEIEFKETQALVLAPT  107 (237)
T ss_dssp             TTCCEEECCCSSHHHHHHHHHHHHHHCCTTSCSCCEEEECSS
T ss_pred             CCCCEEEECCCCCcHHHHHHHHHHHHHHhcCCCceEEEEECc
Confidence            56779999999999997755444333211  35678888754

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=97.57  E-value=0.00031  Score=57.78  Aligned_cols=39  Identities=15%  Similarity=0.245  Sum_probs=34.5

Q ss_pred             CCCEEEEEcC-CCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGP-PCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~Gp-pGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +..++.|+|+ +|+||||++..+|..++ +.|.+|+.|+..
T Consensus        81 ~~kvI~vts~kgG~GKTt~a~nLA~~lA-~~G~rVLLID~D  120 (271)
T 3bfv_A           81 AVQSIVITSEAPGAGKSTIAANLAVAYA-QAGYKTLIVDGD  120 (271)
T ss_dssp             CCCEEEEECSSTTSSHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHH-hCCCeEEEEeCC
Confidence            5678888876 89999999999999999 789999999865

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=97.57  E-value=7e-05  Score=64.24  Aligned_cols=41  Identities=17%  Similarity=0.208  Sum_probs=34.1

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+|.++.|.||+||||||++..++.... ..++++.+....
T Consensus       154 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~-~~~G~V~l~g~D  194 (359)
T 2og2_A          154 FRKPAVIMIVGVNGGGKTTSLGKLAHRLK-NEGTKVLMAAGD  194 (359)
T ss_dssp             SSSSEEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEECCC
T ss_pred             cCCCeEEEEEcCCCChHHHHHHHHHhhcc-ccCCEEEEeccc
Confidence            35889999999999999999999998777 557778777543

>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=97.57  E-value=5e-05  Score=61.39  Aligned_cols=26  Identities=27%  Similarity=0.344  Sum_probs=22.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++..+.|.|||||||||+++.++...
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999888543

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=97.55  E-value=9.2e-05  Score=58.08  Aligned_cols=36  Identities=11%  Similarity=0.171  Sum_probs=28.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      ++..+.|.|+|||||||++..++.... ..+..+..+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l~-~~~~~v~~~   43 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEALC-AAGHRAELL   43 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEe
Confidence            577899999999999999999987765 445556444

>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=97.55  E-value=4.7e-05  Score=60.83  Aligned_cols=28  Identities=21%  Similarity=0.325  Sum_probs=24.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            6899999999999999999998876543

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.55  E-value=4.5e-05  Score=59.73  Aligned_cols=26  Identities=31%  Similarity=0.388  Sum_probs=21.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +|..+.|.||+|||||||++.++...
T Consensus         3 ~g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            3 GPRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             --CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            67889999999999999999887654

>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=97.54  E-value=6.1e-05  Score=58.16  Aligned_cols=26  Identities=31%  Similarity=0.318  Sum_probs=22.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .++..++|+|+|||||||+++.++..
T Consensus         8 ~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            8 PKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            35778999999999999999988764

>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=97.54  E-value=3.6e-05  Score=59.52  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      |..+.|.|||||||||+++.++.
T Consensus         2 g~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            2 KKLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHhc
Confidence            45789999999999999998864

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.54  E-value=4.3e-05  Score=60.83  Aligned_cols=27  Identities=19%  Similarity=0.251  Sum_probs=23.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++|..+.|.||+|||||||++.++...
T Consensus        21 ~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           21 NNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             -CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            689999999999999999999887644

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.53  E-value=6.1e-05  Score=58.23  Aligned_cols=26  Identities=19%  Similarity=0.241  Sum_probs=22.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++..+.|.|+|||||||+++.++...
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            56789999999999999999887643

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.53  E-value=6.3e-05  Score=60.02  Aligned_cols=35  Identities=11%  Similarity=0.158  Sum_probs=27.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+..+++|.|||||||+|.|..++....      +.+|++-
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~g------~~hIstG   61 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKFH------FNHLSSG   61 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHHC------CEEECHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHC------CceEcHH
Confidence            5677899999999999999998876443      5667653

>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=97.51  E-value=6.5e-05  Score=59.43  Aligned_cols=31  Identities=26%  Similarity=0.396  Sum_probs=24.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +++|.|||||||+|.|..++....      +.+|++-
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g------~~~istG   32 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG------FVHISTG   32 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC------CEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC------CeEEcHH
Confidence            478899999999999998877443      6777753

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=97.51  E-value=0.00024  Score=55.48  Aligned_cols=40  Identities=18%  Similarity=0.267  Sum_probs=30.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||..+...+......     .+.+++|+...
T Consensus        47 ~~~~~li~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~~lil~p~   91 (216)
T 3b6e_A           47 EGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNK   91 (216)
T ss_dssp             TTCCEEEECSCHHHHHHHHHHHHHHHHHHHHHTTCCCCEEEEESS
T ss_pred             cCCCEEEEcCCCCCHHHHHHHHHHHHHhhcccccCCCcEEEEECH
Confidence            56789999999999999988777654321     25678888754

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=97.51  E-value=0.00025  Score=56.26  Aligned_cols=40  Identities=8%  Similarity=0.058  Sum_probs=27.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh--------cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS--------QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~--------~~g~~v~yi~~e   57 (233)
                      .|..+++.+|+|+|||......+.....        ..+..++|+...
T Consensus        56 ~~~~~l~~apTGsGKT~~~~l~~~~~l~~~~~~~~~~~~~~~lil~Pt  103 (228)
T 3iuy_A           56 QGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPT  103 (228)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHHHHC---------CCCSEEEECSS
T ss_pred             CCCCEEEECCCCChHHHHHHHHHHHHHHhccchhhccCCCcEEEEeCC
Confidence            6778999999999999765443332211        246678888754

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.51  E-value=0.00011  Score=56.54  Aligned_cols=34  Identities=18%  Similarity=0.076  Sum_probs=27.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+.|.|+|||||||+++.++.... ..|..++..+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~-~~g~~~i~~d   35 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK-QKGYFVSLYR   35 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEe
Confidence            578999999999999999887664 3466666654

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.50  E-value=5.8e-05  Score=58.14  Aligned_cols=25  Identities=16%  Similarity=0.240  Sum_probs=21.3

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +..++|.|+|||||||+++.++...
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4678999999999999999887643

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A

Probab=97.50  E-value=0.00015  Score=67.45  Aligned_cols=40  Identities=20%  Similarity=0.140  Sum_probs=32.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+..+++.||+|||||+.+...+.... ..+.+++|+...
T Consensus        38 ~~~~~~lv~apTGsGKT~~~~l~il~~~-~~~~~~l~i~P~   77 (702)
T 2p6r_A           38 FSGKNLLLAMPTAAGKTLLAEMAMVREA-IKGGKSLYVVPL   77 (702)
T ss_dssp             TTCSCEEEECSSHHHHHHHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             hCCCcEEEEcCCccHHHHHHHHHHHHHH-HhCCcEEEEeCc
Confidence            4688999999999999999877766554 347789999865

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=97.50  E-value=0.0006  Score=59.78  Aligned_cols=39  Identities=21%  Similarity=0.255  Sum_probs=28.9

Q ss_pred             CCCEEEEEcCCCCcHHHHH-HHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLL-FQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa-~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +|..+++.||+|||||..+ ..+..... ..|..++|+...
T Consensus         1 kg~~~lv~a~TGsGKT~~~l~~~l~~~~-~~g~~~lvl~Pt   40 (431)
T 2v6i_A            1 KRELTVLDLHPGAGKTRRVLPQLVREAV-KKRLRTVILAPT   40 (431)
T ss_dssp             -CCEEEEECCTTSCTTTTHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHH-hCCCCEEEECcH
Confidence            4678999999999999986 43443444 567789998755

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.50  E-value=0.00012  Score=57.40  Aligned_cols=34  Identities=15%  Similarity=0.121  Sum_probs=27.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEE
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVV   52 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~   52 (233)
                      ++..+.|.|+|||||||++..++.... ..+..+.
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~l~-~~~~~~~   42 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEYLK-NNNVEVK   42 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEE
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHHHH-HcCCcEE
Confidence            578899999999999999999987665 3344553

>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=97.49  E-value=5.4e-05  Score=57.08  Aligned_cols=20  Identities=25%  Similarity=0.492  Sum_probs=18.1

Q ss_pred             CEEEEEcCCCCcHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQF   39 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~   39 (233)
                      ..+.|.|||||||||+++.+
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            36889999999999999977

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.49  E-value=4.7e-05  Score=61.97  Aligned_cols=38  Identities=21%  Similarity=0.226  Sum_probs=28.8

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..++..++|.|||||||||+++.++...    +..+++++..
T Consensus        29 ~~~~~~i~l~G~~GsGKSTla~~L~~~l----~~~~~~~~~D   66 (253)
T 2p5t_B           29 SKQPIAILLGGQSGAGKTTIHRIKQKEF----QGNIVIIDGD   66 (253)
T ss_dssp             CSSCEEEEEESCGGGTTHHHHHHHHHHT----TTCCEEECGG
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHhc----CCCcEEEecH
Confidence            3467789999999999999999887643    3346666644

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.48  E-value=7.5e-05  Score=58.35  Aligned_cols=26  Identities=23%  Similarity=0.253  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ....++|.|+|||||||+++.++...
T Consensus        17 ~~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           17 FPGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             CSSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999887644

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=97.48  E-value=7.6e-05  Score=61.29  Aligned_cols=26  Identities=27%  Similarity=0.287  Sum_probs=22.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +...++|+||||||||+|+..++...
T Consensus       103 ~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A          103 KRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            35679999999999999999887643

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=97.48  E-value=7.8e-05  Score=59.09  Aligned_cols=26  Identities=23%  Similarity=0.261  Sum_probs=22.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++..++|.|+|||||||+++.++...
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            56789999999999999999887644

>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=97.48  E-value=9e-05  Score=57.83  Aligned_cols=27  Identities=30%  Similarity=0.364  Sum_probs=22.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+..++|.|+|||||||+++.++...
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            456689999999999999999887644

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=97.48  E-value=0.00044  Score=57.72  Aligned_cols=39  Identities=31%  Similarity=0.402  Sum_probs=34.5

Q ss_pred             CCCEEEEEcC-CCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGP-PCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~Gp-pGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++.++.|+|+ +|+||||++..+|..++ +.|.+|+.|+..
T Consensus       103 ~~kvI~vts~kgG~GKTtva~nLA~~lA-~~G~rVLLID~D  142 (299)
T 3cio_A          103 ENNILMITGATPDSGKTFVSSTLAAVIA-QSDQKVLFIDAD  142 (299)
T ss_dssp             SCCEEEEEESSSSSCHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHHH-hCCCcEEEEECC
Confidence            5678888887 89999999999999999 779999999865

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=97.47  E-value=0.00011  Score=64.38  Aligned_cols=38  Identities=24%  Similarity=0.351  Sum_probs=31.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .++..++|.||+||||||++..++.... ...+.++++.
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~-~~~g~I~~~e  202 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELN-SSERNILTVE  202 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHC-CTTSCEEEEE
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcC-CCCCEEEEec
Confidence            5788999999999999999999887665 4456677764

>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=97.47  E-value=7e-05  Score=58.73  Aligned_cols=39  Identities=21%  Similarity=0.181  Sum_probs=29.1

Q ss_pred             cCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           15 ETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        15 ~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      ...++..+.|.|||||||||++..++....     .+.+++...
T Consensus        17 ~~~~~~~i~i~G~~GsGKSTl~~~L~~~~~-----~~~~i~~D~   55 (207)
T 2qt1_A           17 RGSKTFIIGISGVTNSGKTTLAKNLQKHLP-----NCSVISQDD   55 (207)
T ss_dssp             CSCCCEEEEEEESTTSSHHHHHHHHHTTST-----TEEEEEGGG
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHhcC-----CcEEEeCCc
Confidence            346788999999999999999997654221     367776553

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=97.47  E-value=0.00017  Score=57.97  Aligned_cols=40  Identities=10%  Similarity=-0.066  Sum_probs=27.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh-------cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS-------QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~-------~~g~~v~yi~~e   57 (233)
                      .|..+++.+|+|+|||......+.....       ..+..++|+...
T Consensus        65 ~g~~~l~~apTGsGKT~~~~l~~l~~l~~~~~~~~~~~~~~lil~Pt  111 (242)
T 3fe2_A           65 SGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPT  111 (242)
T ss_dssp             HTCCEEEEECTTSCHHHHHHHHHHHHHHTSCCCCTTCCCSEEEECSS
T ss_pred             CCCCEEEECCCcCHHHHHHHHHHHHHHHhccccccCCCCEEEEEeCc
Confidence            6778999999999999875544333321       235678888754

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.46  E-value=8.5e-05  Score=57.95  Aligned_cols=26  Identities=15%  Similarity=0.240  Sum_probs=22.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+...+.|.|+|||||||+++.++..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~   38 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKD   38 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            45568999999999999999987753

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.44  E-value=7.8e-05  Score=56.87  Aligned_cols=23  Identities=22%  Similarity=0.180  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+.|.|||||||||+++.++...
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            58899999999999999887644

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=97.43  E-value=7.9e-05  Score=57.19  Aligned_cols=24  Identities=29%  Similarity=0.430  Sum_probs=20.6

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+.|.|+|||||||+++.++...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            458999999999999999887643

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.43  E-value=5.5e-05  Score=57.88  Aligned_cols=25  Identities=28%  Similarity=0.391  Sum_probs=17.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ++..++|.|+|||||||+++.++..
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~~   28 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHER   28 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            4678999999999999999988763

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.43  E-value=8.2e-05  Score=60.62  Aligned_cols=23  Identities=39%  Similarity=0.775  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|.||||||||||+..++...
T Consensus         3 li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHhcC
Confidence            68899999999999999887643

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=97.43  E-value=0.00014  Score=67.15  Aligned_cols=39  Identities=18%  Similarity=0.418  Sum_probs=32.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .....+|.||||||||+.+..++..+. ..+.+++.++..
T Consensus       204 ~~~~~lI~GPPGTGKT~ti~~~I~~l~-~~~~~ILv~a~T  242 (646)
T 4b3f_X          204 QKELAIIHGPPGTGKTTTVVEIILQAV-KQGLKVLCCAPS  242 (646)
T ss_dssp             CSSEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEcCc
Confidence            456899999999999999888887777 667888887653

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=97.43  E-value=0.00054  Score=66.34  Aligned_cols=39  Identities=15%  Similarity=0.135  Sum_probs=30.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+..+++.+|.|+|||..+...+.... ..+.+++|++..
T Consensus       100 ~g~~vLV~apTGSGKTlva~lai~~~l-~~g~rvL~l~Pt  138 (1010)
T 2xgj_A          100 RGESVLVSAHTSAGKTVVAEYAIAQSL-KNKQRVIYTSPI  138 (1010)
T ss_dssp             HTCEEEEECCTTSCHHHHHHHHHHHHH-HTTCEEEEEESS
T ss_pred             cCCCEEEECCCCCChHHHHHHHHHHHh-ccCCeEEEECCh
Confidence            578899999999999998754444333 567899999864

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.42  E-value=9.4e-05  Score=57.29  Aligned_cols=26  Identities=19%  Similarity=0.207  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++..+.|.|+|||||||+++.++...
T Consensus        11 ~~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           11 KCKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             HSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999887643

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=97.42  E-value=0.00032  Score=59.76  Aligned_cols=39  Identities=8%  Similarity=0.075  Sum_probs=28.5

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~~e   57 (233)
                      +..+++.+|+|+|||..+...+......  .+.+++|+...
T Consensus        44 ~~~~lv~a~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~P~   84 (395)
T 3pey_A           44 PRNMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQAICLAPS   84 (395)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHHCCTTCCSCCEEEECSS
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhccCCCCccEEEECCC
Confidence            3789999999999998776555444322  46678888754

>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=97.41  E-value=0.0001  Score=61.77  Aligned_cols=28  Identities=21%  Similarity=0.195  Sum_probs=25.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|..+.|.||+|||||||++.++...
T Consensus       123 i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          123 IPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             CTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             ecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            3799999999999999999999888765

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=97.41  E-value=5.8e-05  Score=60.37  Aligned_cols=27  Identities=33%  Similarity=0.489  Sum_probs=18.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHH-HHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFA-YNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a-~~~   43 (233)
                      ++|..+.|.||+|||||||++.++ ...
T Consensus        25 ~~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           25 SVGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             ECCCEEEEECSCC----CHHHHHHC---
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            589999999999999999999887 543

>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=97.41  E-value=0.00012  Score=57.51  Aligned_cols=27  Identities=11%  Similarity=0.128  Sum_probs=23.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+|..+.|.||+|+|||||+..++...
T Consensus        17 ~~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           17 QGRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            488999999999999999999887643

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=97.40  E-value=0.00023  Score=56.15  Aligned_cols=40  Identities=10%  Similarity=0.006  Sum_probs=27.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||......+......  .+.+++|+...
T Consensus        40 ~~~~~lv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt   81 (219)
T 1q0u_A           40 RGESMVGQSQTGTGKTHAYLLPIMEKIKPERAEVQAVITAPT   81 (219)
T ss_dssp             HTCCEEEECCSSHHHHHHHHHHHHHHCCTTSCSCCEEEECSS
T ss_pred             CCCCEEEECCCCChHHHHHHHHHHHHHHhCcCCceEEEEcCc
Confidence            56779999999999998655444433312  35678888754

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=97.39  E-value=0.00018  Score=57.67  Aligned_cols=36  Identities=17%  Similarity=0.349  Sum_probs=29.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      .+|..+.|.|||||||||++..++.... . +..++..
T Consensus        24 ~~g~~i~i~G~~GsGKsT~~~~l~~~l~-~-~~~~~~~   59 (229)
T 4eaq_A           24 AMSAFITFEGPEGSGKTTVINEVYHRLV-K-DYDVIMT   59 (229)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHT-T-TSCEEEE
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHh-c-CCCceee
Confidence            4788999999999999999999988776 4 6666543

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=97.38  E-value=7.3e-05  Score=59.22  Aligned_cols=31  Identities=35%  Similarity=0.368  Sum_probs=26.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSN   48 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g   48 (233)
                      ++|..+.|.||+|||||||++.++.. ....|
T Consensus        20 ~~Ge~~~liG~nGsGKSTLl~~l~Gl-~p~~G   50 (208)
T 3b85_A           20 DTNTIVFGLGPAGSGKTYLAMAKAVQ-ALQSK   50 (208)
T ss_dssp             HHCSEEEEECCTTSSTTHHHHHHHHH-HHHTT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC-CCcCC
Confidence            58999999999999999999999876 53333

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.38  E-value=0.0002  Score=60.86  Aligned_cols=40  Identities=15%  Similarity=0.139  Sum_probs=32.9

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ..+|..+.|.||||+|||||+..++.... ..++++.++..
T Consensus        52 ~~~g~~v~i~G~~GaGKSTLl~~l~g~~~-~~~g~v~i~~~   91 (337)
T 2qm8_A           52 TGRAIRVGITGVPGVGKSTTIDALGSLLT-AAGHKVAVLAV   91 (337)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEEE
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHhhh-hCCCEEEEEEE
Confidence            36889999999999999999999987666 45667777653

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.37  E-value=0.0001  Score=58.72  Aligned_cols=25  Identities=16%  Similarity=0.205  Sum_probs=21.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ++..++|.|+|||||||+++.++..
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~   30 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTH   30 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999988763

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=97.37  E-value=0.00021  Score=54.75  Aligned_cols=37  Identities=16%  Similarity=0.122  Sum_probs=30.2

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      -..+.|.|++|||||||+..++..+. ..|.++..+..
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~-~~g~~v~~ik~   40 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAV-REGWRVGTVKH   40 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhH-hcCCeeeEEEe
Confidence            35789999999999999999998777 55777776653

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19

Probab=97.37  E-value=0.00034  Score=56.43  Aligned_cols=40  Identities=10%  Similarity=0.053  Sum_probs=26.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----------CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ-----------SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----------~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||......+......           .+.+++|+...
T Consensus        59 ~~~~~l~~a~TGsGKT~~~~~~~l~~l~~~~~~~~~~~~~~~~~~lil~Pt  109 (253)
T 1wrb_A           59 EHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPT  109 (253)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHHHHHHHTTCC------CCBCCSEEEECSS
T ss_pred             CCCCEEEECCCCChHHHHHHHHHHHHHHhhccccccccccCCceEEEEECC
Confidence            67789999999999998654443332211           23578888754

>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=97.37  E-value=0.00014  Score=58.33  Aligned_cols=27  Identities=30%  Similarity=0.348  Sum_probs=23.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++..++|.|+|||||||+++.++...
T Consensus        14 ~~~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           14 PKGVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            466789999999999999999887754

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=97.36  E-value=0.00011  Score=57.09  Aligned_cols=35  Identities=11%  Similarity=0.228  Sum_probs=26.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +|..+.|.|+|||||||++..++...   .|.+++.++
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~L~~~l---~g~~~~~~~   37 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMNIMESI---PANTIKYLN   37 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTS---CGGGEEEEE
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH---CCCceEEEe
Confidence            46789999999999999999887643   134566554

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=97.36  E-value=0.00012  Score=59.06  Aligned_cols=41  Identities=15%  Similarity=0.138  Sum_probs=30.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc----CCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ----SNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~----~g~~v~yi~~e   57 (233)
                      .+|.++.|.||+|||||||++.++......    ....+.|+++.
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~lG~~~~~~~~~~i~~v~~d   67 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMELLGQNEVEQRQRKVVILSQD   67 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHHHTGGGSCGGGCSEEEEEGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhchhcccccCCceEEEeCC
Confidence            588899999999999999999887643210    12357788755

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.36  E-value=0.00012  Score=58.17  Aligned_cols=26  Identities=19%  Similarity=0.201  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+..++|.|||||||||+++.++...
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999999887644

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=97.36  E-value=0.00021  Score=59.84  Aligned_cols=41  Identities=12%  Similarity=0.156  Sum_probs=30.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhh-cCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCAS-QSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~-~~g~~v~yi~~e   57 (233)
                      .+|.++.|.||+|||||||++.++..... ..++.+.+++..
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~~~~~~G~i~vi~~d  119 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTD  119 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhhCCCCCeEEEEecC
Confidence            57889999999999999999988765431 234556666544

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.35  E-value=0.00012  Score=57.62  Aligned_cols=23  Identities=26%  Similarity=0.225  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|.|||||||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999887643

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=97.34  E-value=0.00013  Score=59.07  Aligned_cols=27  Identities=19%  Similarity=0.263  Sum_probs=22.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++..++|.|||||||||+++.++...
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            366789999999999999999887643

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=97.34  E-value=0.00049  Score=58.98  Aligned_cols=40  Identities=13%  Similarity=0.077  Sum_probs=28.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||..+...+......  .+.+++|+...
T Consensus        57 ~~~~~li~a~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~P~   98 (400)
T 1s2m_A           57 TGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQALIMVPT   98 (400)
T ss_dssp             HTCCEEEECCTTSCHHHHHHHHHHHHCCTTSCSCCEEEECSS
T ss_pred             cCCCEEEECCCCcHHHHHHHHHHHHHHhhccCCccEEEEcCC
Confidence            45679999999999998766555444322  35578888754

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=97.34  E-value=0.0036  Score=48.44  Aligned_cols=84  Identities=14%  Similarity=0.069  Sum_probs=51.1

Q ss_pred             EEEEE-cCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHHHh
Q 041690           21 ITLLS-GPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAF   99 (233)
Q Consensus        21 ~~ll~-GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~~   99 (233)
                      ++.|+ +-.|+||||++..+|..++ +.|.+|++++....    .. ...+.+...   ..+.+.... ...+.+.+..+
T Consensus         3 vi~v~s~kgG~GKTt~a~~la~~la-~~g~~vlliD~D~~----~~-~~~~~~~~~---~~~~~~~~~-~~~l~~~l~~l   72 (206)
T 4dzz_A            3 VISFLNPKGGSGKTTAVINIATALS-RSGYNIAVVDTDPQ----MS-LTNWSKAGK---AAFDVFTAA-SEKDVYGIRKD   72 (206)
T ss_dssp             EEEECCSSTTSSHHHHHHHHHHHHH-HTTCCEEEEECCTT----CH-HHHHHTTSC---CSSEEEECC-SHHHHHTHHHH
T ss_pred             EEEEEeCCCCccHHHHHHHHHHHHH-HCCCeEEEEECCCC----CC-HHHHHhcCC---CCCcEEecC-cHHHHHHHHHh
Confidence            34555 6788999999999999999 68999999986521    10 011111000   022222222 24555666554


Q ss_pred             cccCCCCcEEEEeCCCcc
Q 041690          100 HQHDKIPTAVVVDDFGDL  117 (233)
Q Consensus       100 ~~~~~~p~iIvIDei~~~  117 (233)
                      .  + .+++||||....+
T Consensus        73 ~--~-~yD~viiD~~~~~   87 (206)
T 4dzz_A           73 L--A-DYDFAIVDGAGSL   87 (206)
T ss_dssp             T--T-TSSEEEEECCSSS
T ss_pred             c--C-CCCEEEEECCCCC
Confidence            3  2 3899999997655

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=97.33  E-value=4.8e-05  Score=64.29  Aligned_cols=27  Identities=19%  Similarity=0.006  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ....++|+||||||||++++.++....
T Consensus        44 ~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           44 GIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             GGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCceEEEECCCCccHHHHHHHHHHhCc
Confidence            345699999999999999998887543

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.33  E-value=0.00015  Score=54.86  Aligned_cols=26  Identities=23%  Similarity=0.129  Sum_probs=21.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .-.++.|.|+|||||||+++.++...
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999887643

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=97.32  E-value=0.00013  Score=63.03  Aligned_cols=27  Identities=26%  Similarity=0.197  Sum_probs=24.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .++|..++|+||||||||||++.++..
T Consensus       166 i~~~~~i~l~G~~GsGKSTl~~~l~~~  192 (377)
T 1svm_A          166 IPKKRYWLFKGPIDSGKTTLAAALLEL  192 (377)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            368899999999999999999988753

>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=97.32  E-value=0.00015  Score=57.37  Aligned_cols=24  Identities=29%  Similarity=0.488  Sum_probs=20.8

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +..+.|.|||||||||+++.++..
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~   28 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEA   28 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999988764

>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=97.31  E-value=0.00013  Score=57.52  Aligned_cols=21  Identities=24%  Similarity=0.175  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .++|.|||||||||++..++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998765

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=97.31  E-value=0.00013  Score=55.96  Aligned_cols=24  Identities=17%  Similarity=0.292  Sum_probs=20.7

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +..+.|.|+|||||||+++.++..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~   29 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999988764

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.31  E-value=0.00016  Score=58.71  Aligned_cols=26  Identities=27%  Similarity=0.488  Sum_probs=23.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .++..+.|.||+||||||+++.++..
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~k~La~~   50 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLCKALAES   50 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            46789999999999999999988753

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=97.30  E-value=0.00049  Score=57.92  Aligned_cols=39  Identities=8%  Similarity=0.063  Sum_probs=29.2

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi~~e   57 (233)
                      +..+++.+|+|+|||..+...+...... .+.+++++...
T Consensus        44 ~~~~l~~~~TGsGKT~~~~~~~~~~~~~~~~~~~lil~P~   83 (367)
T 1hv8_A           44 EYNIVAQARTGSGKTASFAIPLIELVNENNGIEAIILTPT   83 (367)
T ss_dssp             CSEEEEECCSSSSHHHHHHHHHHHHSCSSSSCCEEEECSC
T ss_pred             CCCEEEECCCCChHHHHHHHHHHHHhcccCCCcEEEEcCC
Confidence            3689999999999999877666555422 36678888754

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=97.30  E-value=0.00015  Score=54.93  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=20.5

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+.|.|+|||||||+++.++...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999887643

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.29  E-value=0.00016  Score=56.16  Aligned_cols=24  Identities=13%  Similarity=0.171  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+.|.|+|||||||+++.++....
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            578999999999999998877543

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.28  E-value=0.00015  Score=57.34  Aligned_cols=26  Identities=19%  Similarity=0.139  Sum_probs=22.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++..++|.|+|||||||+++.++...
T Consensus         4 ~~~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            4 KKHNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             GCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999999887644

>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=97.28  E-value=9.7e-05  Score=64.95  Aligned_cols=39  Identities=18%  Similarity=0.208  Sum_probs=34.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++.+++|.|+||+||||++..++...+ ..|.+|++++..
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l~-~~G~kVllv~~D  136 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYIQ-KRGLKPALIAAD  136 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHHH-HHHCCEEEECCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEecc
Confidence            346899999999999999999999888 568899999855

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=97.26  E-value=0.00053  Score=55.44  Aligned_cols=40  Identities=10%  Similarity=-0.040  Sum_probs=27.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~~e   57 (233)
                      .|..+++.+|+|+|||......+......  .+..++|+...
T Consensus        79 ~~~~~lv~a~TGsGKT~~~~~~il~~l~~~~~~~~~lil~Pt  120 (249)
T 3ber_A           79 QGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPT  120 (249)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHHHHHHSCCSSCEEEECSS
T ss_pred             CCCCEEEEcCCCCCchhHhHHHHHHHHhcCCCCceEEEEeCC
Confidence            67789999999999998755444333212  24568888754

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=97.25  E-value=9.6e-05  Score=57.98  Aligned_cols=34  Identities=15%  Similarity=0.244  Sum_probs=26.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+.|.|++||||||++..++.... ..|..+.++.
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~-~~g~~v~~~~   35 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR-AAGRSVATLA   35 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH-EEEEEEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH-hcCCeEEEEe
Confidence            578999999999999999987765 3355555543

>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=97.25  E-value=0.00034  Score=53.79  Aligned_cols=36  Identities=17%  Similarity=0.127  Sum_probs=28.4

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      -..+.|.||+|||||||+..++.... ..+.++..+.
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~-~~g~~v~~i~   41 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALC-ARGIRPGLIK   41 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcc-ccCCceeEEe
Confidence            35789999999999999999987766 4565665554

>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding, viral nucleoprotein, endoplasmic reticulum, helicase, hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A 2bhr_A

Probab=97.23  E-value=0.002  Score=56.78  Aligned_cols=40  Identities=15%  Similarity=0.237  Sum_probs=29.5

Q ss_pred             CCCCEEEEEcCCCCcHHH-HHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTS-LLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTt-La~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+..+++.+|+|||||+ ++..++.... ..+..++|+...
T Consensus        17 ~~~~~~lv~a~TGsGKT~~~~~~~l~~~~-~~~~~~lvl~Pt   57 (451)
T 2jlq_A           17 RKKRLTIMDLHPGAGKTKRILPSIVREAL-LRRLRTLILAPT   57 (451)
T ss_dssp             STTCEEEECCCTTSSCCTTHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             hcCCeEEEECCCCCCHhhHHHHHHHHHHH-hcCCcEEEECCC
Confidence            456777999999999999 4555554444 557788988754

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.22  E-value=0.00022  Score=53.74  Aligned_cols=23  Identities=22%  Similarity=0.258  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+.|.|+|||||||+++.++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999887643

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=97.21  E-value=0.00042  Score=59.22  Aligned_cols=40  Identities=13%  Similarity=0.170  Sum_probs=33.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .....+.|.|+||+|||||+..++...+ ..|.++..++..
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~~l~-~~g~kV~vi~~D  116 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGMHLI-ERGHRVAVLAVD  116 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEEEEC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHH-hCCCceEEEecC
Confidence            3556889999999999999999998887 668888888754

>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=97.21  E-value=0.00018  Score=56.20  Aligned_cols=21  Identities=33%  Similarity=0.336  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .+.|.|||||||||+++.++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999997754

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=97.21  E-value=0.00027  Score=57.67  Aligned_cols=40  Identities=15%  Similarity=0.104  Sum_probs=27.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh------cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS------QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~------~~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||..+...+.....      ..+..++|+...
T Consensus        90 ~~~~~lv~a~TGsGKT~~~~l~~l~~l~~~~~~~~~~~~~lil~Pt  135 (262)
T 3ly5_A           90 EGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGVLILSPT  135 (262)
T ss_dssp             HTCCCEECCCTTSCHHHHHHHHHHHHHHHTTCCGGGCCCEEEECSS
T ss_pred             CCCcEEEEccCCCCchHHHHHHHHHHHHhccccccCCceEEEEeCC
Confidence            5677999999999999875543333221      246778988754

>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=97.21  E-value=0.00039  Score=55.21  Aligned_cols=36  Identities=19%  Similarity=0.192  Sum_probs=30.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      +|..+.|.|++||||||++..++..+. ..|.+++..
T Consensus         5 ~g~~i~~eG~~gsGKsT~~~~l~~~l~-~~~~~v~~~   40 (213)
T 4edh_A            5 TGLFVTLEGPEGAGKSTNRDYLAERLR-ERGIEVQLT   40 (213)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH-TTTCCEEEE
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHHH-HcCCCcccc
Confidence            578899999999999999999988776 567777554

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=97.21  E-value=0.00024  Score=58.74  Aligned_cols=23  Identities=22%  Similarity=0.141  Sum_probs=20.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a   40 (233)
                      +...+.|.|+|||||||++..++
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            45578999999999999999887

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.21  E-value=0.0011  Score=60.74  Aligned_cols=23  Identities=22%  Similarity=0.232  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+.|.||+|||||||+..++...
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            38899999999999999887543

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=97.21  E-value=0.001  Score=64.35  Aligned_cols=41  Identities=7%  Similarity=0.052  Sum_probs=30.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      ..|..+++.+|+|+|||+.+...+.... ..+..++|+....
T Consensus        52 l~g~~vlv~apTGsGKTlv~~~~i~~~~-~~g~~vlvl~Ptr   92 (997)
T 4a4z_A           52 EQGDSVFVAAHTSAGKTVVAEYAIAMAH-RNMTKTIYTSPIK   92 (997)
T ss_dssp             HTTCEEEEECCTTSCSHHHHHHHHHHHH-HTTCEEEEEESCG
T ss_pred             HcCCCEEEEECCCCcHHHHHHHHHHHHH-hcCCeEEEEeCCH
Confidence            3788999999999999986544433333 5678899998653

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=97.20  E-value=0.00062  Score=54.24  Aligned_cols=40  Identities=13%  Similarity=0.060  Sum_probs=27.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh------cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS------QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~------~~g~~v~yi~~e   57 (233)
                      .|..+++.+|+|+|||......+.....      ..+.+++|+...
T Consensus        61 ~~~~~li~a~TGsGKT~~~~~~~l~~l~~~~~~~~~~~~~lil~Pt  106 (236)
T 2pl3_A           61 QGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPT  106 (236)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHHHHHHTTCCGGGCCCEEEECSS
T ss_pred             CCCCEEEEeCCCCcHHHHHHHHHHHHHHhhcccccCCceEEEEeCC
Confidence            6778999999999999865543333211      236678888754

>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=97.18  E-value=0.00021  Score=55.77  Aligned_cols=30  Identities=27%  Similarity=0.234  Sum_probs=23.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+.|.|++||||||+++.++. .    |..+++.+
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~----g~~~i~~d   32 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-L----GAYVLDAD   32 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-T----TCEEEEHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH-C----CCEEEEcc
Confidence            588999999999999997765 2    44555544

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=97.18  E-value=0.00045  Score=58.32  Aligned_cols=41  Identities=17%  Similarity=0.132  Sum_probs=30.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEEecCC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFMCNRS   58 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi~~e~   58 (233)
                      ..-++.|.||+|||||||++.++...... .+..+.+++..+
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~  132 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDG  132 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhcccCCCCeEEEEeecc
Confidence            34489999999999999999887665421 345677777553

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=97.18  E-value=0.00024  Score=64.36  Aligned_cols=41  Identities=15%  Similarity=0.154  Sum_probs=32.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|..+.|.|++|||||||++.++.......|..+.+++..
T Consensus       367 ~~G~iI~LiG~sGSGKSTLar~La~~L~~~~G~~i~~lDgD  407 (552)
T 3cr8_A          367 RQGFTVFFTGLSGAGKSTLARALAARLMEMGGRCVTLLDGD  407 (552)
T ss_dssp             GSCEEEEEEESSCHHHHHHHHHHHHHHHTTCSSCEEEESSH
T ss_pred             ccceEEEEECCCCChHHHHHHHHHHhhcccCCceEEEECCc
Confidence            47889999999999999999999887763334467777644

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}

Probab=97.17  E-value=0.00045  Score=59.37  Aligned_cols=40  Identities=8%  Similarity=-0.004  Sum_probs=29.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~~e   57 (233)
                      .|..+++.+|+|+|||..+...+......  .+.+++++...
T Consensus        76 ~~~~~lv~a~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~P~  117 (414)
T 3eiq_A           76 KGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPT  117 (414)
T ss_dssp             TTCCEEECCCSCSSSHHHHHHHHHHHCCTTSCSCCEEEECSS
T ss_pred             CCCCEEEECCCCCcccHHHHHHHHHHHhhcCCceeEEEEeCh
Confidence            56779999999999998866555544322  46678888754

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=97.17  E-value=0.00025  Score=57.78  Aligned_cols=26  Identities=23%  Similarity=0.102  Sum_probs=23.0

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      |..+.|.|+|||||||+++.++....
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            88999999999999999998876443

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=97.16  E-value=0.0004  Score=58.36  Aligned_cols=34  Identities=26%  Similarity=0.299  Sum_probs=27.7

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..++|+||+|+|||+|+.+++....    ..++|++..
T Consensus        31 ~~v~i~G~~G~GKT~L~~~~~~~~~----~~~~~~~~~   64 (357)
T 2fna_A           31 PITLVLGLRRTGKSSIIKIGINELN----LPYIYLDLR   64 (357)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHT----CCEEEEEGG
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhcC----CCEEEEEch
Confidence            6899999999999999999887543    347888743

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=97.16  E-value=0.00025  Score=64.96  Aligned_cols=28  Identities=29%  Similarity=0.220  Sum_probs=24.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..|..++|+||||||||||++.++....
T Consensus        58 ~~g~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           58 NQKRHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             HTTCCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHhccCC
Confidence            4778999999999999999999987665

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=97.16  E-value=0.00023  Score=63.02  Aligned_cols=39  Identities=18%  Similarity=0.203  Sum_probs=29.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ++|..+.|.||+|||||||++.++.......|...++++
T Consensus       136 ~~Ge~v~IvGpnGsGKSTLlr~L~Gl~~p~~G~~pI~vd  174 (460)
T 2npi_A          136 FEGPRVVIVGGSQTGKTSLSRTLCSYALKFNAYQPLYIN  174 (460)
T ss_dssp             SSCCCEEEEESTTSSHHHHHHHHHHTTHHHHCCCCEEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCcccccCCceeEEEc
Confidence            589999999999999999999988765533230334444

>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=97.15  E-value=0.00026  Score=55.81  Aligned_cols=23  Identities=22%  Similarity=0.245  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|.|+|||||||+++.++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999887643

>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=97.14  E-value=0.00025  Score=55.15  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=20.1

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +.++|+||+|+|||||+..+....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            348899999999999999877643

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=97.14  E-value=0.00051  Score=55.43  Aligned_cols=36  Identities=11%  Similarity=0.147  Sum_probs=29.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCe-EEEE
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNAN-VVFM   54 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~-v~yi   54 (233)
                      +|..+.|.|++||||||++..++..+. ..+.+ +.+.
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l~~~l~-~~~~~~~~~~   62 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVVVETLQ-QNGIDHITRT   62 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHHHHHHH-HTTCCCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-hcCCCeeeee
Confidence            678999999999999999999988777 55666 5444

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=97.13  E-value=0.00029  Score=56.09  Aligned_cols=23  Identities=22%  Similarity=0.128  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|.|||||||||+++.++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999887644

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*

Probab=97.13  E-value=0.00076  Score=53.66  Aligned_cols=40  Identities=10%  Similarity=0.199  Sum_probs=27.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh-h-hcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC-A-SQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~-~-~~~g~~v~yi~~e   57 (233)
                      .|..+++.+|+|+|||......+... . ...+.+++|+...
T Consensus        60 ~~~~~l~~a~TGsGKT~~~~l~~l~~l~~~~~~~~~lil~Pt  101 (230)
T 2oxc_A           60 CGLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQILILAPT  101 (230)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHHHHHCCTTSCSCCEEEECSS
T ss_pred             CCCCEEEECCCCCcHHHHHHHHHHHHHHhcCCCceEEEEeCC
Confidence            57789999999999997644333222 2 1235678888754

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=97.13  E-value=0.00029  Score=56.77  Aligned_cols=26  Identities=23%  Similarity=0.270  Sum_probs=21.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+..+.|.|||||||||+++.++..+
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34589999999999999999887644

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=97.13  E-value=0.0062  Score=54.52  Aligned_cols=41  Identities=10%  Similarity=0.165  Sum_probs=30.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC---CCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS---NANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~---g~~v~yi~~e   57 (233)
                      .++.+++|.|++|||||++++.++..++...   .-.++.++..
T Consensus       165 ~~~pHlLIaG~TGSGKSt~L~~li~sLl~~~~p~~v~l~liDpK  208 (512)
T 2ius_A          165 AKMPHLLVAGTTGSGASVGVNAMILSMLYKAQPEDVRFIMIDPK  208 (512)
T ss_dssp             GGSCSEEEECCTTSSHHHHHHHHHHHHHTTCCTTTEEEEEECCS
T ss_pred             ccCceEEEECCCCCCHHHHHHHHHHHHHHhCCCceEEEEEECCc
Confidence            4688999999999999999999887554222   2345556644

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=97.13  E-value=0.00038  Score=53.19  Aligned_cols=26  Identities=15%  Similarity=0.184  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +| .++|+||+|||||||+..+...+.
T Consensus        26 ~g-~~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           26 KG-FTAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             SS-EEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             CC-cEEEECCCCCCHHHHHHHHHHHHc
Confidence            44 899999999999999998876544

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=97.12  E-value=0.003  Score=54.78  Aligned_cols=37  Identities=19%  Similarity=0.204  Sum_probs=30.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++|..|+|+|||..+..++.......+.+++++...
T Consensus        25 ~~ll~~~tG~GKT~~~~~~~~~~~~~~~~~~liv~P~   61 (494)
T 1wp9_A           25 NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPT   61 (494)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECSS
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence            7899999999999999888776653457789998754

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=97.10  E-value=0.0028  Score=55.70  Aligned_cols=35  Identities=20%  Similarity=0.367  Sum_probs=25.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ....+++|.|+||||||++...++.    .  .++++++..
T Consensus       159 ~~~~v~~I~G~aGsGKTt~I~~~~~----~--~~~lVlTpT  193 (446)
T 3vkw_A          159 SSAKVVLVDGVPGCGKTKEILSRVN----F--EEDLILVPG  193 (446)
T ss_dssp             CCSEEEEEEECTTSCHHHHHHHHCC----T--TTCEEEESC
T ss_pred             ccccEEEEEcCCCCCHHHHHHHHhc----c--CCeEEEeCC
Confidence            4667889999999999999986542    1  345666543

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=97.10  E-value=0.00069  Score=57.13  Aligned_cols=37  Identities=19%  Similarity=0.254  Sum_probs=33.3

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++.+.|..|+||||++..+|..++ +.|.+|+.|+..
T Consensus        15 ~i~v~sgKGGvGKTTvA~~LA~~lA-~~G~rVLlvD~D   51 (324)
T 3zq6_A           15 TFVFIGGKGGVGKTTISAATALWMA-RSGKKTLVISTD   51 (324)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             EEEEEeCCCCchHHHHHHHHHHHHH-HCCCcEEEEeCC
Confidence            5667779999999999999999999 679999999976

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=97.09  E-value=0.00023  Score=59.19  Aligned_cols=40  Identities=15%  Similarity=0.262  Sum_probs=27.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      ++.++.|.||+||||||+++.++.... ..+.++.+++...
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg-~~~~~~~vI~~D~   43 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR-REGVKAVSIEGDA   43 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH-HHTCCEEEEEGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh-hcCCCeeEeecch
Confidence            456899999999999999999887554 3345577777553

>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=97.09  E-value=0.00031  Score=54.47  Aligned_cols=24  Identities=17%  Similarity=0.116  Sum_probs=20.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      +...+.|.|++||||||+++.++.
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            446789999999999999997765

>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane, nucleotide-binding, RNA replication, transmembrane, viral protein; 1.80A {Japanese encephalitis virus} PDB: 2v8o_A 2qeq_A

Probab=97.09  E-value=0.0012  Score=58.27  Aligned_cols=42  Identities=21%  Similarity=0.194  Sum_probs=31.2

Q ss_pred             cCCCCCEEEEEcCCCCcHHHH-HHHHHHHhhhcCCCeEEEEecC
Q 041690           15 ETHVDPITLLSGPPCCGKTSL-LFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        15 ~~~~g~~~ll~GppGsGKTtL-a~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ....+..+++.+|+|||||+. +..+..... ..+.+++|+...
T Consensus        17 ~l~~~~~vlv~a~TGsGKT~~~~l~il~~~~-~~~~~~lvl~Pt   59 (459)
T 2z83_A           17 MLRKRQMTVLDLHPGSGKTRKILPQIIKDAI-QQRLRTAVLAPT   59 (459)
T ss_dssp             GGSTTCEEEECCCTTSCTTTTHHHHHHHHHH-HTTCCEEEEECS
T ss_pred             HHhcCCcEEEECCCCCCHHHHHHHHHHHHHH-hCCCcEEEECch
Confidence            346789999999999999997 444443333 567789998754

>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=97.09  E-value=0.00026  Score=55.55  Aligned_cols=25  Identities=16%  Similarity=0.244  Sum_probs=21.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .|..++|.||+|+|||+|+..++..
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            6788999999999999999977653

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=97.08  E-value=0.00069  Score=58.47  Aligned_cols=40  Identities=10%  Similarity=0.056  Sum_probs=34.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      .+..++|.||+|+|||++++.++.... ..|..+++++..+
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~~~~-~~~~~~~~~D~~~   73 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLLREY-MQGSRVIIIDPER   73 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEEESSC
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHHHHH-HCCCEEEEEeCCc
Confidence            577899999999999999999988776 6677888888763

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.08  E-value=0.00051  Score=57.58  Aligned_cols=32  Identities=34%  Similarity=0.381  Sum_probs=26.5

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      +..++|+||+|+|||+|+++++...    +  ++|++.
T Consensus        31 ~~~v~i~G~~G~GKT~Ll~~~~~~~----~--~~~~~~   62 (350)
T 2qen_A           31 YPLTLLLGIRRVGKSSLLRAFLNER----P--GILIDC   62 (350)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHS----S--EEEEEH
T ss_pred             CCeEEEECCCcCCHHHHHHHHHHHc----C--cEEEEe
Confidence            5899999999999999999887642    2  788863

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*

Probab=97.07  E-value=0.0036  Score=55.81  Aligned_cols=40  Identities=23%  Similarity=0.311  Sum_probs=29.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC----CCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS----NANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~----g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||..+...+.......    +.+++++...
T Consensus        21 ~~~~~l~~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~lil~P~   64 (556)
T 4a2p_A           21 NGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATK   64 (556)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSS
T ss_pred             cCCCEEEEcCCCChHHHHHHHHHHHHHHhCcccCCCeEEEEeCC
Confidence            467799999999999988776665554222    6778888754

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=97.07  E-value=0.00039  Score=57.83  Aligned_cols=42  Identities=14%  Similarity=0.195  Sum_probs=30.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC--CCeEEEEecCC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS--NANVVFMCNRS   58 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~--g~~v~yi~~e~   58 (233)
                      .++.++.|.||+|||||||++.++.......  -..+.+|+...
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~   72 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDD   72 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGG
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEecccc
Confidence            4677899999999999999998887765221  12344446553

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A

Probab=97.07  E-value=0.00095  Score=57.42  Aligned_cols=40  Identities=10%  Similarity=0.147  Sum_probs=29.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh--cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS--QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~--~~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||......+.....  ..+.+++++...
T Consensus        73 ~~~~~lv~a~TGsGKT~~~~~~~~~~l~~~~~~~~~lil~Pt  114 (410)
T 2j0s_A           73 KGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPT  114 (410)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHHHHTCCTTSCSCCEEEECSS
T ss_pred             CCCCEEEECCCCCCchHHHHHHHHHHHhhccCCceEEEEcCc
Confidence            5677999999999999876655544431  246788888754

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=97.07  E-value=0.00072  Score=54.66  Aligned_cols=39  Identities=23%  Similarity=0.280  Sum_probs=33.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+..++.+.|.+|+||||++..++...+  .|.++..++.+
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~l~--~g~~v~vvd~D   50 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRYLE--DNYKVAYVNLD   50 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHT--TTSCEEEEECC
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHHH--CCCeEEEEeCC
Confidence            4667888999999999999999998877  58889998855

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A

Probab=97.07  E-value=0.0027  Score=54.01  Aligned_cols=41  Identities=17%  Similarity=0.237  Sum_probs=29.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~~e   57 (233)
                      ..+..+++.+|+|+|||..+...+......  .+.+++++...
T Consensus        43 ~~~~~~lv~a~TGsGKT~~~~~~~~~~l~~~~~~~~~lil~P~   85 (391)
T 1xti_A           43 ILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHT   85 (391)
T ss_dssp             TTTCCEEEECSSCSSHHHHHHHHHHHHCCCCTTCCCEEEECSC
T ss_pred             hcCCcEEEECCCCCcHHHHHHHHHHHhhcccCCCeeEEEECCC
Confidence            357789999999999998776555444312  25578888754

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=97.06  E-value=0.00058  Score=57.99  Aligned_cols=41  Identities=17%  Similarity=0.198  Sum_probs=33.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..++..+.|.|+||+|||||+..++.... ..+.++..++..
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~~-~~~~~v~v~~~d   93 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLLI-REGLKVAVIAVD   93 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHHH-HTTCCEEEEEEC
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHHH-hcCCeEEEEeec
Confidence            35788999999999999999999988777 557777777643

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=97.05  E-value=0.00062  Score=62.54  Aligned_cols=40  Identities=33%  Similarity=0.527  Sum_probs=31.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ....++|.||||||||+++..++..+....+.+++.++..
T Consensus       194 ~~~~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~a~t  233 (624)
T 2gk6_A          194 QRPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPS  233 (624)
T ss_dssp             TCSEEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEEESS
T ss_pred             cCCCeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEeCc
Confidence            4568999999999999999988877763357778877653

>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase, ATP-binding, reticulum, nucleotidyltransferase, multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4} PDB: 2vbc_A 2wzq_A

Probab=97.03  E-value=0.0019  Score=59.27  Aligned_cols=41  Identities=15%  Similarity=0.198  Sum_probs=31.8

Q ss_pred             CCCCCEEEEEcCCCCcHHHH-HHHHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSL-LFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtL-a~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ...+..+++.+|+|||||+. +..++..+. ..+.+++|+...
T Consensus       183 l~~g~dvlv~a~TGSGKT~~~~lpil~~l~-~~~~~vLvl~Pt  224 (618)
T 2whx_A          183 FRKKRLTIMDLHPGAGKTKRILPSIVREAL-KRRLRTLILAPT  224 (618)
T ss_dssp             GSTTCEEEECCCTTSSTTTTHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             HhcCCeEEEEcCCCCCHHHHHHHHHHHHHH-hCCCeEEEEcCh
Confidence            46889999999999999996 455555554 456788988754

>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic subunit]; helicase, flavivirus, DEAD-BOX, ATPase, rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP: c.37.1.14 c.37.1.14 PDB: 1ymf_A*

Probab=97.01  E-value=0.00093  Score=58.71  Aligned_cols=41  Identities=22%  Similarity=0.303  Sum_probs=29.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHH-HHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLF-QFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~-~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ...|..+++.||+|||||..+. .+...+. ..+..++|+...
T Consensus         5 l~~g~~vlv~a~TGSGKT~~~l~~~l~~~~-~~~~~~lil~Pt   46 (440)
T 1yks_A            5 LKKGMTTVLDFHPGAGKTRRFLPQILAECA-RRRLRTLVLAPT   46 (440)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             hhCCCCEEEEcCCCCCHHHHHHHHHHHHHH-hcCCeEEEEcch
Confidence            3578899999999999999753 3333333 556778888754

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.01  E-value=0.00053  Score=57.84  Aligned_cols=23  Identities=39%  Similarity=0.644  Sum_probs=20.2

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ..++|.||+|||||||+..++..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999987763

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=97.00  E-value=0.00049  Score=55.20  Aligned_cols=37  Identities=22%  Similarity=0.205  Sum_probs=27.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC----CCeEEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS----NANVVFM   54 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~----g~~v~yi   54 (233)
                      .+|..+.|.||+||||||++..++..+. ..    |.++++.
T Consensus        23 ~~g~~I~~eG~~GsGKsT~~~~l~~~l~-~~~~~~g~~v~~~   63 (227)
T 3v9p_A           23 ARGKFITFEGIDGAGKTTHLQWFCDRLQ-ERLGPAGRHVVVT   63 (227)
T ss_dssp             CCCCEEEEECCC---CHHHHHHHHHHHH-HHHGGGTCCEEEE
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHH-hhccccceeeeee
Confidence            4788999999999999999999988776 33    6677644

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=96.98  E-value=0.00085  Score=57.96  Aligned_cols=38  Identities=26%  Similarity=0.344  Sum_probs=31.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFM   54 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi   54 (233)
                      .+|..++|.||||||||+|+.+++...... .+..++|+
T Consensus       172 ~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~I~~  210 (422)
T 3ice_A          172 GRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVL  210 (422)
T ss_dssp             BTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEEEEE
T ss_pred             cCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeEEEE
Confidence            589999999999999999999998876632 24457775

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=96.98  E-value=0.00079  Score=57.42  Aligned_cols=37  Identities=22%  Similarity=0.342  Sum_probs=29.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ++..+.|.|+||+|||||+..++.... ..+.++..+.
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~~-~~~~~v~V~~  109 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKMLT-ERGHKLSVLA  109 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhh-hcCCeEEEEe
Confidence            467899999999999999999987666 4456666654

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.98  E-value=0.00045  Score=58.62  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=20.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++..++|.||+|||||+|+..+|.
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~   62 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAA   62 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999997765

>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=96.97  E-value=0.00047  Score=55.84  Aligned_cols=41  Identities=20%  Similarity=0.201  Sum_probs=29.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc----CCCeEEEEecCC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ----SNANVVFMCNRS   58 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~----~g~~v~yi~~e~   58 (233)
                      +..++.|.|+|||||||++..++......    .+..++++++..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~   65 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDS   65 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCc
Confidence            34578999999999999999888744311    134577777653

>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=96.97  E-value=0.00041  Score=57.48  Aligned_cols=22  Identities=32%  Similarity=0.400  Sum_probs=19.8

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ..++|.|+|||||||+++.++.
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            4689999999999999998876

>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=96.97  E-value=0.00046  Score=54.41  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=20.0

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      +..+.|.|++||||||+++.++.
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999997764

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}

Probab=96.96  E-value=0.00073  Score=56.21  Aligned_cols=36  Identities=8%  Similarity=0.013  Sum_probs=27.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||..+...+.    ..+.+++++...
T Consensus        30 ~~~~~lv~~~TGsGKT~~~~~~~~----~~~~~~liv~P~   65 (337)
T 2z0m_A           30 QGKNVVVRAKTGSGKTAAYAIPIL----ELGMKSLVVTPT   65 (337)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHHH----HHTCCEEEECSS
T ss_pred             cCCCEEEEcCCCCcHHHHHHHHHH----hhcCCEEEEeCC
Confidence            567899999999999987765443    236778888754

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=96.95  E-value=0.00047  Score=55.09  Aligned_cols=36  Identities=22%  Similarity=0.307  Sum_probs=27.3

Q ss_pred             cCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           15 ETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        15 ~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ...+|..+.|.||+||||||+++.++.    . ++.+.+..
T Consensus        16 ~~~~g~~i~i~G~~GsGKSTl~~~L~~----~-~g~v~~~~   51 (230)
T 2vp4_A           16 EGTQPFTVLIEGNIGSGKTTYLNHFEK----Y-KNDICLLT   51 (230)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGG----G-TTTEEEEC
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHh----c-cCCeEEEe
Confidence            346889999999999999999996544    2 44566553

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A*

Probab=96.95  E-value=0.00069  Score=57.72  Aligned_cols=40  Identities=13%  Similarity=0.069  Sum_probs=27.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||..+...+......  .+.+++|+...
T Consensus        57 ~~~~~lv~~~TGsGKT~~~~~~~~~~l~~~~~~~~~lil~P~   98 (394)
T 1fuu_A           57 EGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPT   98 (394)
T ss_dssp             HTCCEEECCCSSHHHHHHHHHHHHHHCCTTCCSCCEEEECSS
T ss_pred             CCCCEEEECCCCChHHHHHHHHHHHHhhccCCCCCEEEEcCC
Confidence            46678999999999998754444333212  35688888754

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.95  E-value=0.00064  Score=54.42  Aligned_cols=27  Identities=19%  Similarity=0.255  Sum_probs=22.9

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ..++..+.|.|++||||||+++.++..
T Consensus        13 ~~~~~~i~i~G~~gsGKst~~~~l~~~   39 (236)
T 1q3t_A           13 KMKTIQIAIDGPASSGKSTVAKIIAKD   39 (236)
T ss_dssp             -CCCCEEEEECSSCSSHHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            357889999999999999999987753

>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=96.95  E-value=0.00054  Score=53.27  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+.|.|++||||||+++.++...
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            78999999999999999887643

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=96.93  E-value=0.001  Score=52.69  Aligned_cols=36  Identities=19%  Similarity=0.185  Sum_probs=29.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCC-eEEEE
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNA-NVVFM   54 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~-~v~yi   54 (233)
                      +|..+.|.|++||||||++..++..+. ..|. .+++.
T Consensus         2 ~g~~i~~eG~~gsGKsT~~~~l~~~l~-~~~~~~v~~~   38 (213)
T 4tmk_A            2 RSKYIVIEGLEGAGKTTARNVVVETLE-QLGIRDMVFT   38 (213)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHH-HTTCCCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCCcceee
Confidence            477899999999999999999988777 5555 55444

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=96.93  E-value=0.00059  Score=60.03  Aligned_cols=41  Identities=20%  Similarity=0.024  Sum_probs=30.3

Q ss_pred             cCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           15 ETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        15 ~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ...+|..+.|.||+|||||||++.++.... . ...++.+..+
T Consensus       153 ~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~-~-~~G~i~~~G~  193 (438)
T 2dpy_A          153 TVGRGQRMGLFAGSGVGKSVLLGMMARYTR-A-DVIVVGLIGE  193 (438)
T ss_dssp             CCBTTCEEEEEECTTSSHHHHHHHHHHHSC-C-SEEEEEEESC
T ss_pred             EecCCCEEEEECCCCCCHHHHHHHHhcccC-C-CeEEEEEece
Confidence            346999999999999999999998887654 2 2234445443

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.92  E-value=0.00066  Score=57.92  Aligned_cols=29  Identities=14%  Similarity=0.091  Sum_probs=25.5

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+|..+.|.||+|||||||++.++....
T Consensus        68 i~~Gq~~gIiG~nGaGKTTLl~~I~g~~~   96 (347)
T 2obl_A           68 CGIGQRIGIFAGSGVGKSTLLGMICNGAS   96 (347)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            36999999999999999999998887654

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.92  E-value=0.00051  Score=61.65  Aligned_cols=37  Identities=22%  Similarity=0.209  Sum_probs=28.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ++|..++|.||+||||||+++.++....  ...+++.+.
T Consensus       258 ~~g~~i~I~GptGSGKTTlL~aL~~~i~--~~~giitie  294 (511)
T 2oap_1          258 EHKFSAIVVGETASGKTTTLNAIMMFIP--PDAKVVSIE  294 (511)
T ss_dssp             HTTCCEEEEESTTSSHHHHHHHHGGGSC--TTCCEEEEE
T ss_pred             hCCCEEEEECCCCCCHHHHHHHHHhhCC--CCCCEEEEc
Confidence            4788899999999999999998765443  344566664

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=96.92  E-value=0.0023  Score=56.92  Aligned_cols=40  Identities=25%  Similarity=0.419  Sum_probs=30.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC----CCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS----NANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~----g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||..+...+.......    +.+++++...
T Consensus        18 ~~~~~l~~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~lil~P~   61 (555)
T 3tbk_A           18 KGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQ   61 (555)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSS
T ss_pred             CCCCEEEEeCCCChHHHHHHHHHHHHHHhcccCCCCEEEEEeCC
Confidence            567799999999999988776665554232    6778888754

>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=96.90  E-value=0.00058  Score=59.63  Aligned_cols=25  Identities=16%  Similarity=0.287  Sum_probs=21.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ..+..++|.|+|||||||+++.++.
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3567899999999999999997654

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}

Probab=96.90  E-value=0.0017  Score=54.05  Aligned_cols=40  Identities=8%  Similarity=0.086  Sum_probs=25.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHH-HHHHHhhh-cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLF-QFAYNCAS-QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~-~~a~~~~~-~~g~~v~yi~~e   57 (233)
                      ++..+++.+|+|||||.... .+...+.. ..+..++|+...
T Consensus       130 ~~~~~l~~a~TGsGKT~a~~lp~l~~l~~~~~~~~~lil~Pt  171 (300)
T 3fmo_B          130 PPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPT  171 (300)
T ss_dssp             SCCCEEEECCTTSSHHHHHHHHHHHHCCTTSCSCCEEEECSS
T ss_pred             CCCeEEEECCCCCCccHHHHHHHHHhhhccCCCceEEEEcCc
Confidence            34889999999999997543 23322221 123468888754

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=96.89  E-value=0.00055  Score=52.50  Aligned_cols=25  Identities=20%  Similarity=0.220  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .|..++|.|+||+||||++..+...
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            6789999999999999999987764

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*

Probab=96.87  E-value=0.0038  Score=57.63  Aligned_cols=40  Identities=25%  Similarity=0.419  Sum_probs=29.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC----CCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS----NANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~----g~~v~yi~~e   57 (233)
                      .|..+++.+|.|+|||..+...+.......    +.+++++...
T Consensus        27 ~g~~~iv~~~TGsGKTl~~~~~i~~~l~~~~~~~~~~~lvl~Pt   70 (696)
T 2ykg_A           27 KGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQ   70 (696)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHHHHHHHHSCTTCCCCEEEECSS
T ss_pred             cCCCEEEEcCCCchHHHHHHHHHHHHHHhCccCCCCeEEEEECC
Confidence            577899999999999998877766544222    2678888643

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.87  E-value=0.00065  Score=52.02  Aligned_cols=25  Identities=24%  Similarity=0.227  Sum_probs=22.3

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+.|.||+|||||||+..++....
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~   27 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILR   27 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4688999999999999999988776

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=96.87  E-value=0.00064  Score=54.35  Aligned_cols=40  Identities=18%  Similarity=0.111  Sum_probs=32.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi~~e   57 (233)
                      .+|..+.|.|++||||||++..++..+. . .|.++++++.|
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~-~~~g~~v~~~tre   59 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLS-EIYGVNNVVLTRE   59 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHH-HHHCGGGEEEEES
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHh-hccCceeeEeeeC
Confidence            4788999999999999999999998777 4 56677774433

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=96.84  E-value=0.0098  Score=51.27  Aligned_cols=37  Identities=16%  Similarity=0.138  Sum_probs=28.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ....++|+|++|||||++++.+..... ....+++-++
T Consensus       159 ~~~~vli~Ge~GtGK~~lAr~ih~~s~-r~~~~fv~v~  195 (387)
T 1ny5_A          159 AECPVLITGESGVGKEVVARLIHKLSD-RSKEPFVALN  195 (387)
T ss_dssp             CCSCEEEECSTTSSHHHHHHHHHHHST-TTTSCEEEEE
T ss_pred             CCCCeEEecCCCcCHHHHHHHHHHhcC-CCCCCeEEEe
Confidence            456689999999999999987765443 4456677665

>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=96.83  E-value=0.00084  Score=50.08  Aligned_cols=26  Identities=31%  Similarity=0.340  Sum_probs=22.1

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ...++|+||+|+|||+++.++...+.
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~~l~   48 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILVGLY   48 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHc
Confidence            46899999999999999998876553

>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=96.82  E-value=0.00077  Score=52.55  Aligned_cols=26  Identities=15%  Similarity=0.163  Sum_probs=22.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .....+.|+|++||||||+++.++..
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            45567889999999999999987763

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=96.82  E-value=0.0075  Score=48.41  Aligned_cols=36  Identities=28%  Similarity=0.226  Sum_probs=30.4

Q ss_pred             EEEE-EcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           21 ITLL-SGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        21 ~~ll-~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++.| .+-.|+||||++..+|..++ +.|.+|+.|+..
T Consensus         4 vi~v~s~kgGvGKTt~a~~LA~~la-~~g~~VlliD~D   40 (260)
T 3q9l_A            4 IIVVTSGKGGVGKTTSSAAIATGLA-QKGKKTVVIDFA   40 (260)
T ss_dssp             EEEEECSSTTSSHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             EEEEECCCCCCcHHHHHHHHHHHHH-hCCCcEEEEECC
Confidence            4445 56788999999999999999 679999999865

>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=96.81  E-value=0.00055  Score=58.61  Aligned_cols=28  Identities=18%  Similarity=0.179  Sum_probs=24.6

Q ss_pred             CC--CCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HV--DPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~--g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+  +..+.|.||+|||||||++.++....
T Consensus       166 ~~~lg~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          166 RPFFAKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             GGGTCEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             HHhhhCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            46  88999999999999999998887654

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B

Probab=96.80  E-value=0.0014  Score=56.05  Aligned_cols=39  Identities=8%  Similarity=0.051  Sum_probs=27.1

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~~e   57 (233)
                      +..+++.+|+|+|||..+...+......  .+.+++|+...
T Consensus        64 ~~~~lv~apTGsGKT~~~~~~~~~~~~~~~~~~~~lil~P~  104 (412)
T 3fht_A           64 PQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPT  104 (412)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHHCCTTSCSCCEEEECSS
T ss_pred             CCeEEEECCCCchHHHHHHHHHHHHhhhcCCCCCEEEECCC
Confidence            4889999999999998765444433312  24478888754

>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster}

Probab=96.80  E-value=0.0029  Score=55.31  Aligned_cols=40  Identities=13%  Similarity=0.086  Sum_probs=26.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH-Hhhh------cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY-NCAS------QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~-~~~~------~~g~~v~yi~~e   57 (233)
                      .|..+++.+|+|+|||.....-+. .+..      ..+..++++...
T Consensus        92 ~g~d~i~~a~TGsGKT~a~~lpil~~l~~~~~~~~~~~~~~lil~Pt  138 (434)
T 2db3_A           92 SGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPT  138 (434)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHHHHHHHHSCCCCCTTCCSEEEECSS
T ss_pred             cCCCEEEECCCCCCchHHHHHHHHHHHHhcccccccCCccEEEEecC
Confidence            678899999999999984433222 2221      124578888754

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=96.80  E-value=0.021  Score=50.52  Aligned_cols=38  Identities=26%  Similarity=0.253  Sum_probs=30.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      .+|..++|.|++|+|||+|+.+++.+.+...+.-++|+
T Consensus       151 gkGQr~~Ifgg~G~GKT~L~~~i~~~~~~~~~~v~V~~  188 (482)
T 2ck3_D          151 AKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFA  188 (482)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHTTTTCSSEEEEE
T ss_pred             ccCCeeeeecCCCCChHHHHHHHHHhhHhhCCCEEEEE
Confidence            38999999999999999999999988763334445664

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=96.78  E-value=0.0014  Score=61.80  Aligned_cols=40  Identities=33%  Similarity=0.527  Sum_probs=31.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+..++|.||||||||+++..++..+....+.+++.++..
T Consensus       370 ~~~~~lI~GppGTGKT~ti~~~i~~l~~~~~~~ilv~a~t  409 (800)
T 2wjy_A          370 QRPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPS  409 (800)
T ss_dssp             TSSEEEEECCTTSCHHHHHHHHHHHHHTTCSSCEEEEESS
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHHHHHHHcCCCcEEEEcCc
Confidence            4578999999999999999988877763356778777643

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=96.78  E-value=0.00078  Score=55.39  Aligned_cols=24  Identities=17%  Similarity=0.213  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+.|.||+|+|||||++.++....
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            478999999999999999887654

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.77  E-value=0.00077  Score=56.61  Aligned_cols=24  Identities=25%  Similarity=0.432  Sum_probs=20.7

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +..++|.||+|||||+|+..++..
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHh
Confidence            457889999999999999987763

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=96.77  E-value=0.00085  Score=56.24  Aligned_cols=24  Identities=29%  Similarity=0.448  Sum_probs=20.9

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +..++|.||+|||||+|+..++..
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCccCHHHHHHHHHHh
Confidence            457889999999999999988764

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=96.77  E-value=0.0012  Score=60.56  Aligned_cols=38  Identities=13%  Similarity=0.060  Sum_probs=31.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ++..+.|.|+|||||||+++.++..+. ..|.++++++.
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~-~~G~~~v~lDg   88 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLV-CHGIPCYTLDG   88 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEESH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHH-hcCCeEEEech
Confidence            567899999999999999999988765 44667777764

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=96.75  E-value=0.0016  Score=57.65  Aligned_cols=37  Identities=27%  Similarity=0.218  Sum_probs=31.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      +|..++|+||||+|||+|+..++.+.....+.-++|+
T Consensus       150 kGq~~~i~G~sGvGKTtL~~~l~~~~~~~~~~i~V~~  186 (473)
T 1sky_E          150 KGGKIGLFGGAGVGKTVLIQELIHNIAQEHGGISVFA  186 (473)
T ss_dssp             TTCEEEEECCSSSCHHHHHHHHHHHHHHHTCCCEEEE
T ss_pred             cCCEEEEECCCCCCccHHHHHHHhhhhhccCcEEEEe
Confidence            7899999999999999999999887765555556665

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=96.75  E-value=0.003  Score=54.50  Aligned_cols=40  Identities=15%  Similarity=0.097  Sum_probs=30.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..|..+++.+|+|+|||......+.... ..+..++|+...
T Consensus        34 ~~~~~~lv~apTGsGKT~~~l~~~~~~~-~~~~~~lil~Pt   73 (414)
T 3oiy_A           34 VQGKSFTMVAPTGVGKTTFGMMTALWLA-RKGKKSALVFPT   73 (414)
T ss_dssp             TTTCCEECCSCSSSSHHHHHHHHHHHHH-TTTCCEEEEESS
T ss_pred             hcCCCEEEEeCCCCCHHHHHHHHHHHHh-cCCCEEEEEECC
Confidence            4677899999999999995554444444 567889998764

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=96.75  E-value=0.002  Score=58.64  Aligned_cols=39  Identities=23%  Similarity=0.361  Sum_probs=35.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +..++++.|.+|+||||++..+|..++ +.|.++++|+..
T Consensus         7 ~~~i~~~sgkGGvGKTT~a~~lA~~lA-~~G~rVLlvd~D   45 (589)
T 1ihu_A            7 IPPYLFFTGKGGVGKTSISCATAIRLA-EQGKRVLLVSTD   45 (589)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             CCEEEEEeCCCcCHHHHHHHHHHHHHH-HCCCcEEEEECC
Confidence            567889999999999999999999999 779999999976

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.74  E-value=0.00097  Score=56.92  Aligned_cols=24  Identities=21%  Similarity=0.365  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|.|||||||||+++.++....
T Consensus        26 ~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A           26 CVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHhC
Confidence            489999999999999998887554

>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA helicase, DEAD-BOX, ATP-binding, HE hydrolase, mitochondrion; HET: ANP; 1.90A {Saccharomyces cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A* 4db2_A 4db4_A

Probab=96.73  E-value=0.0026  Score=57.24  Aligned_cols=40  Identities=13%  Similarity=0.090  Sum_probs=26.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC------CCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS------NANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~------g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||......+.......      +.+++|+...
T Consensus       110 ~~~~~lv~apTGsGKTl~~~lpil~~l~~~~~~~~~~~~~lil~Pt  155 (563)
T 3i5x_A          110 EDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPT  155 (563)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHHHTTTSSTTSCCEEEECSS
T ss_pred             CCCeEEEECCCCCCccHHHHHHHHHHHHhccccccCCeeEEEEcCc
Confidence            578899999999999985443333322121      3478888754

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=96.73  E-value=0.004  Score=56.51  Aligned_cols=39  Identities=23%  Similarity=0.433  Sum_probs=30.3

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhc--------CCCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQ--------SNANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~--------~g~~v~yi~~e   57 (233)
                      ...+++.+|+|+|||..+..++..+...        .+.+++|+...
T Consensus       198 ~~~~ll~~~TGsGKT~~~~~~~~~l~~~~~~~~~~~~~~~vlil~P~  244 (590)
T 3h1t_A          198 KKRSLITMATGTGKTVVAFQISWKLWSARWNRTGDYRKPRILFLADR  244 (590)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHHHHTTCCSSCSSSCCCEEEEEC-
T ss_pred             CCceEEEecCCCChHHHHHHHHHHHHhcccccccccCCCeEEEEeCC
Confidence            4668999999999999998888766532        45789998764

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.72  E-value=0.00094  Score=56.70  Aligned_cols=24  Identities=29%  Similarity=0.479  Sum_probs=20.8

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+.|.||+|||||||+..++...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            478999999999999999887643

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens}

Probab=96.71  E-value=0.0026  Score=56.05  Aligned_cols=39  Identities=8%  Similarity=0.051  Sum_probs=27.2

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhc--CCCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQ--SNANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~--~g~~v~yi~~e   57 (233)
                      +..+++.||+|||||......+......  .+..++|+...
T Consensus       131 ~~~~l~~a~TGsGKT~~~~l~il~~l~~~~~~~~~lil~Pt  171 (479)
T 3fmp_B          131 PQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPT  171 (479)
T ss_dssp             CCEEEEECCSSSSHHHHHHHHHHTTCCTTSCSCCEEEECSS
T ss_pred             CCcEEEEcCCCCchhHHHHHHHHHHHhhcCCCCcEEEEeCh
Confidence            4899999999999998765444433312  23378888765

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=96.67  E-value=0.0015  Score=52.18  Aligned_cols=35  Identities=14%  Similarity=0.095  Sum_probs=31.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           22 TLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +.|.|-.|+||||++..+|..++ +.|.+|+.|+..
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la-~~g~~VlliD~D   37 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMA-SDYDKIYAVDGD   37 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHT-TTCSCEEEEEEC
T ss_pred             EEEecCCCCCHHHHHHHHHHHHH-HCCCeEEEEeCC
Confidence            55699999999999999999999 778999999865

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=96.67  E-value=0.0043  Score=54.51  Aligned_cols=36  Identities=17%  Similarity=0.174  Sum_probs=28.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+..++|.+|+|+|||..+..++...    +.+++++...
T Consensus       107 ~~~~~ll~~~TGsGKT~~~l~~i~~~----~~~~Lvl~P~  142 (472)
T 2fwr_A          107 VDKRGCIVLPTGSGKTHVAMAAINEL----STPTLIVVPT  142 (472)
T ss_dssp             TTTEEEEECCTTSCHHHHHHHHHHHH----CSCEEEEESS
T ss_pred             hcCCEEEEeCCCCCHHHHHHHHHHHc----CCCEEEEECC
Confidence            45669999999999999988766543    5778888755

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=96.65  E-value=0.0012  Score=59.78  Aligned_cols=38  Identities=16%  Similarity=0.183  Sum_probs=28.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh---hhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC---ASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~---~~~~g~~v~yi~   55 (233)
                      ..+.+.|+||+|+|||||+.+++...   .......+.|++
T Consensus       146 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~  186 (591)
T 1z6t_A          146 EPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVS  186 (591)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEE
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEE
Confidence            45789999999999999999887543   212234577776

>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=96.64  E-value=0.0011  Score=51.14  Aligned_cols=23  Identities=35%  Similarity=0.449  Sum_probs=20.0

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -.+.|.||+|+|||||+..++..
T Consensus        30 ~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           30 FKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            36789999999999999988764

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=96.62  E-value=0.019  Score=52.03  Aligned_cols=40  Identities=18%  Similarity=0.224  Sum_probs=31.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC---CCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS---NANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~---g~~v~yi~~e   57 (233)
                      ...++||.|.+|+|||++++.++..++...   ..+++.||..
T Consensus       213 k~pHlLIaG~TGSGKS~~L~tlI~sLl~~~sP~ev~lilIDpK  255 (574)
T 2iut_A          213 KMPHLLVAGTTGSGKSVGVNAMLLSILFKSTPSEARLIMIDPK  255 (574)
T ss_dssp             GSCCEEEECCTTSSHHHHHHHHHHHHHTTCCTTTEEEEEECSS
T ss_pred             hCCeeEEECCCCCCHHHHHHHHHHHHHHhCCCcceEEEEeCCC
Confidence            568999999999999999999888776332   3456667755

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=96.62  E-value=0.0018  Score=58.88  Aligned_cols=39  Identities=15%  Similarity=0.159  Sum_probs=31.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC-CeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSN-ANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g-~~v~yi~~e   57 (233)
                      .+..+.|.|+|||||||+++.++..+. ..| .++++++.+
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~-~~G~~~~~~lD~D  434 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLN-QQGGRSVSLLLGD  434 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH-HHCSSCEEEEEHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhc-ccCCceEEEECcH
Confidence            567899999999999999999988766 334 678888754

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=96.62  E-value=0.0015  Score=57.20  Aligned_cols=42  Identities=21%  Similarity=0.257  Sum_probs=35.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCc
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSR   59 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~   59 (233)
                      ....+++|.|++|+|||+++..++.... ..|.+++.+|..+.
T Consensus        51 ~~~~h~~i~G~tGsGKs~~~~~li~~~~-~~g~~viv~Dpkge   92 (437)
T 1e9r_A           51 AEPRHLLVNGATGTGKSVLLRELAYTGL-LRGDRMVIVDPNGD   92 (437)
T ss_dssp             GGGGCEEEEECTTSSHHHHHHHHHHHHH-HTTCEEEEEEETTH
T ss_pred             cCcceEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEeCCCc
Confidence            4678999999999999999988877776 56788888887753

>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=96.61  E-value=0.0012  Score=51.08  Aligned_cols=22  Identities=36%  Similarity=0.526  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+.|.||+|+|||||+..++..
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            5789999999999999988764

>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3 catalytic subunit; nucleotide-binding, capsid protein; 2.75A {Murray valley encephalitis virus}

Probab=96.61  E-value=0.0034  Score=58.16  Aligned_cols=39  Identities=21%  Similarity=0.226  Sum_probs=29.7

Q ss_pred             CCCEEEEEcCCCCcHHHHH-HHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLL-FQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa-~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+..+++.||+|||||+.+ ..+...+. ..+..++|+...
T Consensus       240 ~g~dvlv~apTGSGKTl~~ll~il~~l~-~~~~~~lilaPT  279 (673)
T 2wv9_A          240 KRQLTVLDLHPGAGKTRRILPQIIKDAI-QKRLRTAVLAPT  279 (673)
T ss_dssp             TTCEEEECCCTTTTTTTTHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHH-hCCCcEEEEccH
Confidence            7899999999999999974 44443334 567788888754

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=96.61  E-value=0.0016  Score=61.46  Aligned_cols=40  Identities=23%  Similarity=0.451  Sum_probs=31.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+..++|.||||||||+++..++..+....+.+++.++..
T Consensus       374 ~~~~~lI~GppGTGKT~~i~~~i~~l~~~~~~~ILv~a~t  413 (802)
T 2xzl_A          374 QRPLSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPS  413 (802)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEESS
T ss_pred             cCCCEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEEcCc
Confidence            4668999999999999998888776653356778777653

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=96.61  E-value=0.0028  Score=52.51  Aligned_cols=39  Identities=21%  Similarity=0.309  Sum_probs=33.4

Q ss_pred             CCCEEEEEcC-CCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGP-PCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~Gp-pGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++.+++|+|+ +|+||||++..+|..++ +.|.+|+.|+..
T Consensus        91 ~~kvI~vts~kgG~GKTtva~nLA~~lA-~~G~rVLLID~D  130 (286)
T 3la6_A           91 QNNVLMMTGVSPSIGMTFVCANLAAVIS-QTNKRVLLIDCD  130 (286)
T ss_dssp             TCCEEEEEESSSSSSHHHHHHHHHHHHH-TTTCCEEEEECC
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHH-hCCCCEEEEecc
Confidence            5567777765 89999999999999999 779999999865

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=96.61  E-value=0.0012  Score=53.01  Aligned_cols=25  Identities=12%  Similarity=0.154  Sum_probs=21.9

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +..+.|.|++||||||++..++...
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            5678999999999999999887754

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=96.59  E-value=0.0022  Score=52.00  Aligned_cols=36  Identities=8%  Similarity=0.071  Sum_probs=32.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++.|.|..|+||||++..+|..++ +.|.+|+.||..
T Consensus         3 vI~vs~KGGvGKTT~a~nLA~~la-~~G~~VlliD~D   38 (269)
T 1cp2_A            3 QVAIYGKGGIGKSTTTQNLTSGLH-AMGKTIMVVGCD   38 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHH-TTTCCEEEEEEC
T ss_pred             EEEEecCCCCcHHHHHHHHHHHHH-HCCCcEEEEcCC
Confidence            466689999999999999999999 779999999865

>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos}

Probab=96.59  E-value=0.0083  Score=56.54  Aligned_cols=40  Identities=23%  Similarity=0.311  Sum_probs=30.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC----CCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS----NANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~----g~~v~yi~~e   57 (233)
                      .|..+++.+|.|+|||..+...+.......    +.+++++...
T Consensus       262 ~~~~~ll~~~TGsGKTl~~~~~i~~~l~~~~~~~~~~~Lvl~Pt  305 (797)
T 4a2q_A          262 NGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATK  305 (797)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSS
T ss_pred             hCCCEEEEeCCCChHHHHHHHHHHHHHHhccccCCCeEEEEeCC
Confidence            577899999999999988776665554232    6788888754

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=96.59  E-value=0.00055  Score=62.59  Aligned_cols=22  Identities=23%  Similarity=0.273  Sum_probs=19.0

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ..++|+||||||||+||+.++.
T Consensus       328 ~~vLL~GppGtGKT~LAr~la~  349 (595)
T 3f9v_A          328 IHILIIGDPGTAKSQMLQFISR  349 (595)
T ss_dssp             CCEEEEESSCCTHHHHHHSSST
T ss_pred             cceEEECCCchHHHHHHHHHHH
Confidence            3799999999999999995554

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.58  E-value=0.0014  Score=56.15  Aligned_cols=26  Identities=27%  Similarity=0.328  Sum_probs=22.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..+.|.||||+|||||+..++..
T Consensus       213 ~~G~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          213 LTGRISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             HTTSEEEEECCTTSSHHHHHHHHHCC
T ss_pred             cCCCEEEEECCCCccHHHHHHHHhcc
Confidence            47889999999999999999977643

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=96.58  E-value=0.0014  Score=51.57  Aligned_cols=23  Identities=26%  Similarity=0.374  Sum_probs=20.0

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      +..+.|.|++||||||+++.++.
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999997765

>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}

Probab=96.57  E-value=0.0051  Score=59.33  Aligned_cols=39  Identities=21%  Similarity=0.094  Sum_probs=31.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC--CeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSN--ANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g--~~v~yi~~e   57 (233)
                      .+..++|.++.|+|||..+..++.... ..|  .+++++...
T Consensus       169 ~~~~~LLad~tGlGKTi~Ai~~i~~l~-~~g~~~rvLIVvP~  209 (968)
T 3dmq_A          169 HAPRVLLADEVGLGKTIEAGMILHQQL-LSGAAERVLIIVPE  209 (968)
T ss_dssp             SSCEEEECCCTTSCHHHHHHHHHHHHH-HTSSCCCEEEECCT
T ss_pred             cCCCEEEECCCCCcHHHHHHHHHHHHH-HhCCCCeEEEEeCH
Confidence            467899999999999999988887766 333  479998765

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=96.57  E-value=0.0017  Score=58.12  Aligned_cols=41  Identities=5%  Similarity=-0.023  Sum_probs=31.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhh-cCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCAS-QSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~-~~g~~v~yi~~e   57 (233)
                      ..+..+.|.|.+||||||+++.++..+.. ..+..+.|++..
T Consensus       393 ~~~~~I~l~GlsGsGKSTIa~~La~~L~~~~g~r~~~~lDgD  434 (511)
T 1g8f_A          393 KQGFSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHN  434 (511)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCT
T ss_pred             ccceEEEecccCCCCHHHHHHHHHHHHHHhhcCcceEEecCC
Confidence            35678899999999999999999988773 234566677643

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=96.56  E-value=0.0021  Score=58.14  Aligned_cols=39  Identities=21%  Similarity=0.300  Sum_probs=32.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+..+.|.|+|||||||+++.++..+. ..|.++.+++.+
T Consensus       371 ~~~~I~l~G~~GsGKSTia~~La~~L~-~~G~~~~~ld~D  409 (546)
T 2gks_A          371 QGFCVWLTGLPCAGKSTIAEILATMLQ-ARGRKVTLLDGD  409 (546)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEECHH
T ss_pred             cceEEEccCCCCCCHHHHHHHHHHHhh-hcCCeEEEECch
Confidence            467889999999999999999988766 557788888744

>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=96.56  E-value=0.0012  Score=57.83  Aligned_cols=26  Identities=19%  Similarity=0.143  Sum_probs=22.4

Q ss_pred             CCCCE--EEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPI--TLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~--~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+|..  +.|.||+|+|||||+..++..
T Consensus        38 ~~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           38 SQGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             C-CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             cCCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            68898  999999999999999988653

>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=96.55  E-value=0.0014  Score=54.66  Aligned_cols=27  Identities=30%  Similarity=0.439  Sum_probs=23.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..|..+.|.||||+|||||+..++ ...
T Consensus       163 l~G~i~~l~G~sG~GKSTLln~l~-~~~  189 (302)
T 2yv5_A          163 LEGFICILAGPSGVGKSSILSRLT-GEE  189 (302)
T ss_dssp             TTTCEEEEECSTTSSHHHHHHHHH-SCC
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHH-Hhh
Confidence            578999999999999999999988 444

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=96.54  E-value=0.0025  Score=57.26  Aligned_cols=37  Identities=14%  Similarity=0.136  Sum_probs=28.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ....+++.|.|||||||+++.++..+. ..+..+..++
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~-~~~~d~~v~s   70 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLN-WIGVPTKVFN   70 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh-hcCCCeEEec
Confidence            456789999999999999999987665 4455555554

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}

Probab=96.54  E-value=0.0043  Score=56.25  Aligned_cols=40  Identities=13%  Similarity=0.062  Sum_probs=26.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc------CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ------SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~------~g~~v~yi~~e   57 (233)
                      .+..+++.+|+|+|||......+......      .+..++++...
T Consensus        59 ~~~dvlv~apTGsGKTl~~~lpil~~l~~~~~~~~~~~~~lvl~Pt  104 (579)
T 3sqw_A           59 EDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPT  104 (579)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHHHTTTSSTTSCCEEEECSS
T ss_pred             CCCeEEEEcCCCcHHHHHHHHHHHHHHHhccccccCCCeEEEEcch
Confidence            57889999999999998544333322212      13478888754

>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=96.54  E-value=0.00072  Score=52.59  Aligned_cols=26  Identities=19%  Similarity=0.242  Sum_probs=22.4

Q ss_pred             cCCCCCEEEEEcCCCCcHHHHHHHHH
Q 041690           15 ETHVDPITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        15 ~~~~g~~~ll~GppGsGKTtLa~~~a   40 (233)
                      ...++..+.|.|++|+|||||+..++
T Consensus        22 ~~~~~~~v~lvG~~g~GKSTLl~~l~   47 (210)
T 1pui_A           22 PSDTGIEVAFAGRSNAGKSSALNTLT   47 (210)
T ss_dssp             SCSCSEEEEEEECTTSSHHHHHTTTC
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHh
Confidence            34688899999999999999999654

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=96.53  E-value=0.003  Score=53.75  Aligned_cols=39  Identities=18%  Similarity=0.195  Sum_probs=33.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ...++++.|.+|+||||++..+|..++ +.|.+|+.|+..
T Consensus        25 ~~~i~v~sgKGGvGKTTvA~~LA~~lA-~~G~rVLlvD~D   63 (349)
T 3ug7_A           25 GTKYIMFGGKGGVGKTTMSAATGVYLA-EKGLKVVIVSTD   63 (349)
T ss_dssp             SCEEEEEECSSSTTHHHHHHHHHHHHH-HSSCCEEEEECC
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHHH-HCCCeEEEEeCC
Confidence            344566779999999999999999999 679999999976

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.51  E-value=0.0033  Score=49.22  Aligned_cols=37  Identities=16%  Similarity=0.056  Sum_probs=28.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ....++|.|++|+|||||+..++.... .. .++..++.
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~-~~-~~~~~i~~   65 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIG-NE-VKIGAMLG   65 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHT-TT-SCEEEEEC
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhc-cC-CeEEEEec
Confidence            445788999999999999999987654 32 45666653

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=96.51  E-value=0.0015  Score=56.68  Aligned_cols=26  Identities=23%  Similarity=0.416  Sum_probs=21.8

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ...+.|.||+|||||+|+..++....
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHCC
Confidence            34788999999999999998887544

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=96.50  E-value=0.002  Score=51.25  Aligned_cols=27  Identities=19%  Similarity=0.127  Sum_probs=24.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +|..+.|.|++||||||++..++..+.
T Consensus         4 ~g~~i~~eG~~g~GKst~~~~l~~~l~   30 (216)
T 3tmk_A            4 RGKLILIEGLDRTGKTTQCNILYKKLQ   30 (216)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            578999999999999999998887665

>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=96.49  E-value=0.0015  Score=49.45  Aligned_cols=24  Identities=33%  Similarity=0.416  Sum_probs=20.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++..+.|.|+||+|||||+..++.
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~   26 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAG   26 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            456789999999999999998764

>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=96.49  E-value=0.0019  Score=50.64  Aligned_cols=27  Identities=30%  Similarity=0.306  Sum_probs=22.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ....++|+||+|+||||++.++...+.
T Consensus        22 ~~~~~~I~G~NgsGKStil~ai~~~l~   48 (203)
T 3qks_A           22 KEGINLIIGQNGSGKSSLLDAILVGLY   48 (203)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHhc
Confidence            346899999999999999998876555

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=96.48  E-value=0.032  Score=49.62  Aligned_cols=38  Identities=21%  Similarity=0.203  Sum_probs=28.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+|...+|.|++|+|||+|+.....+.+ ..+..++|+-
T Consensus       161 grGQR~~Ifg~~g~GKT~Lal~~I~~~~-~~dv~~V~~~  198 (507)
T 1fx0_A          161 GRGQRELIIGDRQTGKTAVATDTILNQQ-GQNVICVYVA  198 (507)
T ss_dssp             BTTCBCBEEESSSSSHHHHHHHHHHTCC-TTTCEEEEEE
T ss_pred             ccCCEEEEecCCCCCccHHHHHHHHHhh-cCCcEEEEEE
Confidence            4999999999999999999764444444 3444567763

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=96.48  E-value=0.0027  Score=52.27  Aligned_cols=36  Identities=14%  Similarity=0.113  Sum_probs=32.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++.|+|-.|+||||++..+|..++ +.|.+|+.||..
T Consensus         4 vIavs~KGGvGKTT~a~nLA~~La-~~G~rVlliD~D   39 (289)
T 2afh_E            4 QCAIYGKGGIGKSTTTQNLVAALA-EMGKKVMIVGCD   39 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHH-HTTCCEEEEEEC
T ss_pred             EEEEeCCCcCcHHHHHHHHHHHHH-HCCCeEEEEecC
Confidence            566789999999999999999999 679999999866

>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=96.47  E-value=0.0022  Score=57.03  Aligned_cols=27  Identities=26%  Similarity=0.284  Sum_probs=23.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++ ..+.|.||+|||||||++.++....
T Consensus        28 ~~-e~~~liG~nGsGKSTLl~~l~Gl~~   54 (483)
T 3euj_A           28 DE-LVTTLSGGNGAGKSTTMAGFVTALI   54 (483)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cc-ceEEEECCCCCcHHHHHHHHhcCCC
Confidence            46 8999999999999999998886554

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=96.47  E-value=0.011  Score=62.22  Aligned_cols=68  Identities=21%  Similarity=0.184  Sum_probs=44.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      -+...++.||||||||++++.+|...    |..++.+...    +..       +                ...+..+|.
T Consensus       644 ~~~~~~l~GpaGtGKTe~vk~LA~~l----g~~~v~~nc~----e~l-------d----------------~~~lg~~~~  692 (2695)
T 4akg_A          644 QKYGGCFFGPAGTGKTETVKAFGQNL----GRVVVVFNCD----DSF-------D----------------YQVLSRLLV  692 (2695)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHTT----TCCCEEEETT----SSC-------C----------------HHHHHHHHH
T ss_pred             hCCCCcccCCCCCCcHHHHHHHHHHh----CCcEEEEECC----CCC-------C----------------hhHhhHHHH
Confidence            55678899999999999999887744    4556555311    100       0                334455555


Q ss_pred             HhcccCCCCcEEEEeCCCcccc
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~  119 (233)
                      .+...   ..++++||++.+-.
T Consensus       693 g~~~~---Gaw~~~DE~nr~~~  711 (2695)
T 4akg_A          693 GITQI---GAWGCFDEFNRLDE  711 (2695)
T ss_dssp             HHHHH---TCEEEEETTTSSCH
T ss_pred             HHHhc---CCEeeehhhhhcCh
Confidence            44322   57999999987654

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=96.46  E-value=0.0037  Score=53.97  Aligned_cols=39  Identities=21%  Similarity=0.332  Sum_probs=31.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi~   55 (233)
                      .+|...+|.||||+|||+|+.+++...... .+..++|+-
T Consensus       173 grGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~V~~l  212 (427)
T 3l0o_A          173 GKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTIRIILL  212 (427)
T ss_dssp             BTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEEEEEE
T ss_pred             cCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeEEEEEE
Confidence            589999999999999999999998876632 355667753

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=96.46  E-value=0.0018  Score=48.48  Aligned_cols=22  Identities=23%  Similarity=0.289  Sum_probs=19.2

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ..+.|.|+||+|||||+.+++.
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            3588999999999999998764

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=96.45  E-value=0.0016  Score=55.82  Aligned_cols=57  Identities=7%  Similarity=0.077  Sum_probs=38.9

Q ss_pred             CCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          105 IPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       105 ~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      .|+++++||+++-++.             ....     .+++.+..+++.|.+++++++...        . ..+.+.++
T Consensus       303 ~p~~lllDEpt~~LD~-------------~~~~-----~~~~~l~~l~~~g~tvi~itH~~~--------~-~~~~d~~~  355 (365)
T 3qf7_A          303 RLDAFFIDEGFSSLDT-------------ENKE-----KIASVLKELERLNKVIVFITHDRE--------F-SEAFDRKL  355 (365)
T ss_dssp             TCCEEEEESCCTTSCH-------------HHHH-----HHHHHHHGGGGSSSEEEEEESCHH--------H-HTTCSCEE
T ss_pred             CCCEEEEeCCCccCCH-------------HHHH-----HHHHHHHHHHhCCCEEEEEecchH--------H-HHhCCEEE
Confidence            4999999999999983             1111     266777777777888888866421        2 34567777


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       356 ~l~~  359 (365)
T 3qf7_A          356 RITG  359 (365)
T ss_dssp             EEET
T ss_pred             EEEC
Confidence            7763

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}

Probab=96.44  E-value=0.0034  Score=53.89  Aligned_cols=21  Identities=14%  Similarity=0.154  Sum_probs=17.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLF   37 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~   37 (233)
                      ..+..+++.+|+|+|||....
T Consensus        50 ~~~~~~lv~a~TGsGKT~~~~   70 (417)
T 2i4i_A           50 KEKRDLMACAQTGSGKTAAFL   70 (417)
T ss_dssp             HTTCCEEEECCTTSCHHHHHH
T ss_pred             ccCCCEEEEcCCCCHHHHHHH
Confidence            367889999999999997443

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=96.44  E-value=0.004  Score=52.77  Aligned_cols=39  Identities=18%  Similarity=0.214  Sum_probs=35.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ...++++.|-.|+||||++..+|..++ +.|.+|+.|+..
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~~la-~~g~~vllid~D   53 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAIQLA-KVRRSVLLLSTD   53 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHT-TSSSCEEEEECC
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHH-hCCCcEEEEECC
Confidence            356788889999999999999999999 779999999976

>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos}

Probab=96.44  E-value=0.011  Score=56.80  Aligned_cols=40  Identities=23%  Similarity=0.311  Sum_probs=30.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC----CCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS----NANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~----g~~v~yi~~e   57 (233)
                      .|..+++.+|.|+|||..+...+.......    +.+++++...
T Consensus       262 ~g~~~ll~a~TGsGKTl~~~~~i~~~l~~~~~~~~~~vLvl~Pt  305 (936)
T 4a2w_A          262 NGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATK  305 (936)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHTTTTTCCSSCCCCEEEECSS
T ss_pred             cCCCEEEEeCCCchHHHHHHHHHHHHHHhccccCCCeEEEEeCC
Confidence            577899999999999988776665554222    6778888754

>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=96.44  E-value=0.0013  Score=50.09  Aligned_cols=21  Identities=33%  Similarity=0.417  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .++|.|+||+|||||+..++.
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999997754

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.41  E-value=0.0016  Score=54.35  Aligned_cols=27  Identities=26%  Similarity=0.266  Sum_probs=23.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++..+.|.||||||||||++.++...
T Consensus       167 l~geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          167 LKGKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HSSSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             hcCCeEEEECCCCCcHHHHHHHhcccc
Confidence            478899999999999999999776433

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=96.40  E-value=0.0063  Score=59.39  Aligned_cols=39  Identities=15%  Similarity=0.164  Sum_probs=28.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh---hcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA---SQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~---~~~g~~v~yi~~   56 (233)
                      ..+.+.|+|++|+||||||.+++....   ......++|++-
T Consensus       146 ~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~  187 (1249)
T 3sfz_A          146 EPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSI  187 (1249)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEEC
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEE
Confidence            456789999999999999998876532   123456778873

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=96.40  E-value=0.0019  Score=49.09  Aligned_cols=24  Identities=29%  Similarity=0.324  Sum_probs=20.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      +.-.++|.|++|+|||+|+.++..
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~   40 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNG   40 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTT
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhc
Confidence            556789999999999999997653

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=96.37  E-value=0.0051  Score=51.87  Aligned_cols=39  Identities=15%  Similarity=0.222  Sum_probs=34.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ...++.+.|.+|+||||++..+|..++ +.|.+|+.++..
T Consensus        18 ~~~i~v~sgkGGvGKTTva~~LA~~lA-~~G~rVllvD~D   56 (329)
T 2woo_A           18 SLKWIFVGGKGGVGKTTTSCSLAIQMS-KVRSSVLLISTD   56 (329)
T ss_dssp             TCCEEEEECSSSSSHHHHHHHHHHHHH-TSSSCEEEEECC
T ss_pred             CCEEEEEeCCCCCcHHHHHHHHHHHHH-HCCCeEEEEECC
Confidence            346677889999999999999999999 779999999876

>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=96.35  E-value=0.00086  Score=54.59  Aligned_cols=26  Identities=12%  Similarity=0.055  Sum_probs=21.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .++..+.|.|++||||||++..++..
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            46778999999999999999966543

>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=96.32  E-value=0.0011  Score=55.45  Aligned_cols=25  Identities=32%  Similarity=0.418  Sum_probs=22.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .+|..+.|.||||+|||||+..++.
T Consensus       171 ~~G~~~~lvG~sG~GKSTLln~L~g  195 (307)
T 1t9h_A          171 FQDKTTVFAGQSGVGKSSLLNAISP  195 (307)
T ss_dssp             GTTSEEEEEESHHHHHHHHHHHHCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHhcc
Confidence            5799999999999999999997654

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.32  E-value=0.0022  Score=53.92  Aligned_cols=25  Identities=20%  Similarity=0.398  Sum_probs=21.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+| .++|+||+|+|||+|+..+...
T Consensus        23 ~~g-~~~i~G~NGsGKS~ll~ai~~l   47 (322)
T 1e69_A           23 SDR-VTAIVGPNGSGKSNIIDAIKWV   47 (322)
T ss_dssp             CSS-EEEEECCTTTCSTHHHHHHHHT
T ss_pred             CCC-cEEEECCCCCcHHHHHHHHHHH
Confidence            455 9999999999999999988754

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=96.32  E-value=0.0031  Score=55.08  Aligned_cols=28  Identities=18%  Similarity=0.325  Sum_probs=24.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++..+.|.||+|+|||||+..++....
T Consensus        24 ~~~~~~~i~G~nG~GKstll~ai~~~~~   51 (430)
T 1w1w_A           24 GESNFTSIIGPNGSGKSNMMDAISFVLG   51 (430)
T ss_dssp             TTCSEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhhc
Confidence            4678999999999999999998876543

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=96.32  E-value=0.0033  Score=55.82  Aligned_cols=38  Identities=26%  Similarity=0.222  Sum_probs=31.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      .+|..++|+|++|+|||+|+.+++.+.+...+.-++|+
T Consensus       163 gkGqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~  200 (498)
T 1fx0_B          163 RRGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFG  200 (498)
T ss_dssp             CTTCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEE
T ss_pred             ccCCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEE
Confidence            58999999999999999999999998764444556665

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.32  E-value=0.0024  Score=46.99  Aligned_cols=21  Identities=29%  Similarity=0.471  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .++|.|++|+|||||+.+++.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~   23 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLK   23 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998875

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=96.32  E-value=0.0045  Score=48.28  Aligned_cols=34  Identities=15%  Similarity=0.191  Sum_probs=28.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+.|.|+-||||||.+..++..+. ..|.++++..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~-~~g~~v~~tr   35 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLE-KRGKKVILKR   35 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEE
Confidence            367889999999999999988777 6688887764

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=96.31  E-value=0.0022  Score=47.46  Aligned_cols=23  Identities=17%  Similarity=0.346  Sum_probs=19.7

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -.++|.|++|+|||||+.++...
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            35889999999999999988753

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=96.31  E-value=0.003  Score=47.34  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=21.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .+...++|.|++|+|||+|+.++..
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3567899999999999999998764

>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA compl protease/ntpase/helicase, hydrolase; 1.95A {Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4b71_A* 4b73_A* 4b74_A* 4b76_A* 4b75_A* 4a92_A* 1cu1_A 4b6e_A* 4b6f_A* 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A* 3kqh_A 3kqk_A ...

Probab=96.30  E-value=0.023  Score=52.40  Aligned_cols=37  Identities=14%  Similarity=0.123  Sum_probs=28.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+..+++.+|.|||||+.....+.    +.+.+++++...
T Consensus       230 ~~~~~vlv~ApTGSGKT~a~~l~ll----~~g~~vLVl~PT  266 (666)
T 3o8b_A          230 QSFQVAHLHAPTGSGKSTKVPAAYA----AQGYKVLVLNPS  266 (666)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHH----HTTCCEEEEESC
T ss_pred             HcCCeEEEEeCCchhHHHHHHHHHH----HCCCeEEEEcch
Confidence            5778899999999999976654333    346688888754

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=96.30  E-value=0.0025  Score=51.08  Aligned_cols=24  Identities=21%  Similarity=0.158  Sum_probs=20.2

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      -...|.|||||||||++..++...
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHh
Confidence            457799999999999999887644

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=96.29  E-value=0.0046  Score=48.59  Aligned_cols=34  Identities=18%  Similarity=0.335  Sum_probs=27.3

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..+.|.|+.||||||++..++..+. + |.++++..
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~-~-~~~v~~~~   36 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLV-K-DYDVIMTR   36 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHT-T-TSCEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHH-C-CCCEEEee
Confidence            4688999999999999998887775 3 66776653

>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=96.28  E-value=0.0032  Score=49.14  Aligned_cols=26  Identities=35%  Similarity=0.583  Sum_probs=21.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+...++|.|++|+|||+|+.+++..
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34567999999999999999988753

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=96.28  E-value=0.0033  Score=47.94  Aligned_cols=25  Identities=36%  Similarity=0.608  Sum_probs=21.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +...++|.|++|+|||||+.+++..
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999987653

>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=96.27  E-value=0.0026  Score=46.89  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=19.6

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -.++|.|++|+|||||+.++...
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35889999999999999987653

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=96.26  E-value=0.0014  Score=49.46  Aligned_cols=23  Identities=26%  Similarity=0.457  Sum_probs=19.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a   40 (233)
                      +.-.++|.|++|+|||||+.++.
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~   39 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQ   39 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CccEEEEECCCCCCHHHHHHHHh
Confidence            45679999999999999998553

>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=96.26  E-value=0.0025  Score=47.64  Aligned_cols=22  Identities=45%  Similarity=0.425  Sum_probs=18.9

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      -.++|.|+||+|||+|+.++..
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCccHHHHHHHHhc
Confidence            3588999999999999997753

>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=96.24  E-value=0.0017  Score=54.49  Aligned_cols=23  Identities=39%  Similarity=0.486  Sum_probs=20.5

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+++|.|++|||||||++.++..
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            57899999999999999988754

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=96.24  E-value=0.0028  Score=48.15  Aligned_cols=23  Identities=22%  Similarity=0.284  Sum_probs=19.9

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ...+.|.|++|+|||||+.+++.
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~   29 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTG   29 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35688999999999999998764

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=96.24  E-value=0.0043  Score=48.77  Aligned_cols=35  Identities=11%  Similarity=0.005  Sum_probs=29.1

Q ss_pred             EEEEEc-CCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           21 ITLLSG-PPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        21 ~~ll~G-ppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+.|+| -+|+||||++..+|..++ +.|.+|++++.
T Consensus         3 ~I~v~s~kgGvGKTt~a~nLa~~la-~~G~rVll~dp   38 (224)
T 1byi_A            3 RYFVTGTDTEVGKTVASCALLQAAK-AAGYRTAGYKP   38 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHH-HTTCCEEEECS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH-HCCCCEEEEcc
Confidence            455665 589999999999999998 77999999863

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=96.23  E-value=0.057  Score=47.94  Aligned_cols=37  Identities=16%  Similarity=0.220  Sum_probs=27.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      .+|...+|.|++|+|||+|+.....+.+ ..+..++|+
T Consensus       160 grGQR~~Ifg~~g~GKT~Lal~~I~~~~-~~dv~~V~~  196 (502)
T 2qe7_A          160 GRGQRELIIGDRQTGKTTIAIDTIINQK-GQDVICIYV  196 (502)
T ss_dssp             BTTCBCEEEECSSSCHHHHHHHHHHGGG-SCSEEEEEE
T ss_pred             ccCCEEEEECCCCCCchHHHHHHHHHhh-cCCcEEEEE
Confidence            4999999999999999999765444455 334445665

---

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	233
d1n0wa_	242	c.37.1.11 (A:) DNA repair protein Rad51, catalytic	2e-05
d1tf7a2	242	c.37.1.11 (A:256-497) Circadian clock protein KaiC	6e-05
d1tf7a1	242	c.37.1.11 (A:14-255) Circadian clock protein KaiC	6e-05
d1szpa2	251	c.37.1.11 (A:145-395) DNA repair protein Rad51, ca	2e-04
d1cr2a_	277	c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase),	0.002
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	0.002
d1pzna2	254	c.37.1.11 (A:96-349) DNA repair protein Rad51, cat	0.003
d2i1qa2	258	c.37.1.11 (A:65-322) DNA repair protein Rad51, cat	0.004

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]} Length = 242

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]

 Score = 41.7 bits (96), Expect = 2e-05
 Identities = 26/220 (11%), Positives = 59/220 (26%), Gaps = 16/220 (7%)

Query: 21  ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM----------CNRSRLQSKRPYLSQS 70
           IT + G    GKT +    A  C    +                    RL +       S
Sbjct: 25  ITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLS 84

Query: 71  IDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNP 130
                      +    +   ++    +A     +    +V         D + +   +  
Sbjct: 85  GSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSAR 144

Query: 131 RGRDLAMVRTL-ALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKGD 189
           +      +R L  L           +     +    +  +     I    I+   T +  
Sbjct: 145 QMHLARFLRMLLRLADEFGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTR-- 202

Query: 190 GPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLVFEGITD 229
               +L + +  +R C +  +     + A+  +  +G+ D
Sbjct: 203 ---LYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVGD 239

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Length = 242

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]

 Score = 40.7 bits (94), Expect = 6e-05
 Identities = 22/102 (21%), Positives = 34/102 (33%), Gaps = 4/102 (3%)

Query: 21  ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHV--- 77
           I L +G    GKT L+ +F  N  +     ++F    SR Q  R   S  +D        
Sbjct: 28  IILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQN 87

Query: 78  -FKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLF 118
             K++         E          +D  P  + +D    L 
Sbjct: 88  LLKIVCAYPESAGLEDHLQIIKSEINDFKPARIAIDSLSALA 129

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Length = 242

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]

 Score = 40.8 bits (94), Expect = 6e-05
 Identities = 16/86 (18%), Positives = 27/86 (31%), Gaps = 1/86 (1%)

Query: 21  ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC-NRSRLQSKRPYLSQSIDPSSHVFK 79
            TL+SG    GKT    QF YN   + +   VF+    +     +   S   D +  V +
Sbjct: 28  STLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDE 87

Query: 80  LIQMKYVEDDEEIKKYFAAFHQHDKI 105
                     +   +          +
Sbjct: 88  GKLFILDASPDPEGQEVVGGFDLSAL 113

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 251

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]

 Score = 38.9 bits (89), Expect = 2e-04
 Identities = 19/136 (13%), Positives = 35/136 (25%), Gaps = 10/136 (7%)

Query: 21  ITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMC-----NRSRLQSKRPYLSQS 70
           IT L G    GK+ L    A  C             +++         RL S        
Sbjct: 36  ITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRFGLD 95

Query: 71  IDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNP 130
            D + +     +    +    +    A      +    VV         D + +   +  
Sbjct: 96  PDDALNNVAYARAYNADHQLRLLDAAAQMMSESRFSLIVVDSVMALYRTDFSGRGELSAR 155

Query: 131 RGRDLAMVRTLALCYN 146
           +      +R L    +
Sbjct: 156 QMHLAKFMRALQRLAD 171

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]} Length = 277

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]

 Score = 36.2 bits (82), Expect = 0.002
 Identities = 8/85 (9%), Positives = 27/85 (31%)

Query: 21  ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKL 80
           + +++     GK++ + Q A    +     V        ++     L    +        
Sbjct: 37  VIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNRVRLRQSD 96

Query: 81  IQMKYVEDDEEIKKYFAAFHQHDKI 105
              + + ++ +  ++F     +D  
Sbjct: 97  SLKREIIENGKFDQWFDELFGNDTF 121

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]} Length = 283

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]

 Score = 35.9 bits (81), Expect = 0.002
 Identities = 32/222 (14%), Positives = 63/222 (28%), Gaps = 2/222 (0%)

Query: 3   ESFFD-GNQVEILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQ 61
           + FFD   ++E L+    PITL+ G    GK+S++     N  +     +       R  
Sbjct: 12  KDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGI-NELNLPYIYLDLRKFEERNY 70

Query: 62  SKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDR 121
                    +    +         ++  + I+      ++            F +L +  
Sbjct: 71  ISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESF 130

Query: 122 TCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWIS 181
               +       D A         N +            +     G+   LLY Y R   
Sbjct: 131 EQASKDNVIIVLDEAQELVKLRGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVED 190

Query: 182 SIFTVKGDGPGSFLLRNKNYSRSCGLGKTRIAKYSIALKDLV 223
               + G    +  L+  +   +    +    +  I  KD  
Sbjct: 191 PESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKDYE 232

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 254

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]

 Score = 35.4 bits (80), Expect = 0.003
 Identities = 19/131 (14%), Positives = 35/131 (26%), Gaps = 14/131 (10%)

Query: 21  ITLLSGPPCCGKTSLLFQFAYNC-----ASQSNANVVFMC-----NRSRLQSKRPYLSQS 70
           IT + G    GKT L    A            N +V+++         R++         
Sbjct: 38  ITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQNRGLD 97

Query: 71  IDPSSHVFKLIQMKYVEDD----EEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQER 126
            D       + +           ++ +         D+    ++VD     F        
Sbjct: 98  PDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIGRG 157

Query: 127 YTNPRGRDLAM 137
               R + LA 
Sbjct: 158 ALAERQQKLAK 168

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]} Length = 258

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]

 Score = 35.1 bits (79), Expect = 0.004
 Identities = 11/85 (12%), Positives = 23/85 (27%), Gaps = 2/85 (2%)

Query: 21  ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVF--MCNRSRLQSKRPYLSQSIDPSSHVF 78
           +T  +G    GKT ++ Q   N  +          +      Q K  Y+           
Sbjct: 36  VTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERI 95

Query: 79  KLIQMKYVEDDEEIKKYFAAFHQHD 103
             +      D + +         ++
Sbjct: 96  MQMAEHAGIDGQTVLDNTFVARAYN 120

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	233
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.66
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	99.64
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.64
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	99.62
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.61
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	99.61
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.57
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.55
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.52
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	99.48
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	99.36
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	99.33
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	99.25
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	99.2
d2awna2	232	Maltose transport protein MalK, N-terminal domain	99.19
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.16
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	99.16
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	99.15
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	99.14
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	99.11
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	99.11
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	99.1
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	99.1
d1g2912	240	Maltose transport protein MalK, N-terminal domain	99.08
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	99.08
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.07
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	99.03
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	99.03
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	98.99
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	98.97
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	98.96
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	98.93
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	98.93
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	98.92
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	98.91
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	98.85
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.81
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	98.81
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	98.79
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	98.76
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	98.74
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.7
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.65
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.61
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.6
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.53
d1okkd2	207	GTPase domain of the signal recognition particle r	98.52
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.51
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.5
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.5
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.46
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.41
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.37
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.33
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	98.33
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.31
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.3
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	98.29
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.29
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.28
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	98.27
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.26
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.26
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	98.26
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.25
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	98.23
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	98.23
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	98.12
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	98.09
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	98.09
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.06
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	98.05
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.03
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	98.02
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	98.02
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.02
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	98.0
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	98.0
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.98
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.98
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.98
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	97.96
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.96
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.96
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.95
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.95
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.95
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.93
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.92
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.91
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	97.9
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.9
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	97.89
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.88
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.87
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.85
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.81
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.79
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.79
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.76
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.75
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.75
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.71
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.71
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.71
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.7
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.69
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.68
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.65
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.65
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	97.64
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	97.63
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.62
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	97.62
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	97.62
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.62
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	97.59
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.59
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.58
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	97.55
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	97.51
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	97.51
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.51
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	97.48
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	97.36
d1xpua3	289	Transcription termination factor Rho, ATPase domai	97.34
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.31
d1nrjb_	209	Signal recognition particle receptor beta-subunit	97.29
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.28
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	97.24
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	97.23
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.23
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.22
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.22
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.15
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.13
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	97.1
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	97.05
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	97.05
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.02
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	97.01
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.0
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	96.99
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.99
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.97
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	96.93
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.93
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.88
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	96.87
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.85
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.84
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	96.83
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	96.81
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	96.79
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	96.77
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.72
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	96.72
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.71
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.63
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.62
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	96.6
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.59
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.59
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	96.56
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.54
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.54
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.54
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.54
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.53
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	96.5
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	96.5
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	96.49
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.48
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	96.46
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.45
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	96.43
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	96.42
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.42
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	96.4
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.4
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	96.38
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	96.38
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.37
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	96.34
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	96.34
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	96.33
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.33
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.32
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	96.3
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	96.3
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.29
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.29
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	96.29
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	96.28
d1tuea_	205	Replication protein E1 helicase domain {Human papi	96.28
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	96.28
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	96.28
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	96.27
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	96.27
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	96.26
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	96.25
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	96.25
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	96.23
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	96.21
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.2
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	96.19
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	96.18
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	96.18
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.17
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	96.17
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	96.17
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	96.16
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	96.13
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	96.12
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	96.12
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	96.11
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	96.1
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.1
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.1
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.09
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	96.06
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	96.05
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	96.05
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	96.04
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	96.03
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.01
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.99
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.99
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.97
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	95.96
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	95.94
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	95.91
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.91
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.86
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	95.78
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	95.77
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.75
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.71
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	95.69
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	95.67
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	95.67
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	95.64
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.64
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.58
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	95.57
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	95.48
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	95.45
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	95.32
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.3
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	95.28
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	95.24
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	95.17
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	95.16
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	95.1
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	95.1
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	95.07
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.06
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	95.03
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.76
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	94.68
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	94.67
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	94.58
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	94.56
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.52
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	94.36
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	94.36
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.2
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	94.03
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	93.9
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	93.83
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.59
d1z63a1	230	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	91.89
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	91.87
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	91.08
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	90.98
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.38
d1z3ix2	298	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	89.01
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	88.52
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	88.28
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	87.93
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	87.3
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	87.19
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	87.09
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	86.28
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	85.9
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	85.81
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	84.82
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	84.46
d1khba1	363	Cytosolic phosphoenolpyruvate carboxykinase (GTP-h	84.3
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	82.65
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	82.62
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	81.02
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	80.68
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	80.2
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	80.11

>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=99.66  E-value=1.3e-16  Score=129.58  Aligned_cols=140  Identities=11%  Similarity=0.152  Sum_probs=88.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ..++.+||+||||||||++++.+|...    +.++++++...       +...+.+..              ...++++|
T Consensus        43 ~~~~~iLL~GppGtGKT~la~~iA~~~----~~~~~~i~~~~-------l~~~~~g~~--------------~~~l~~~f   97 (256)
T d1lv7a_          43 KIPKGVLMVGPPGTGKTLLAKAIAGEA----KVPFFTISGSD-------FVEMFVGVG--------------ASRVRDMF   97 (256)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHHH----TCCEEEECSCS-------STTSCCCCC--------------HHHHHHHH
T ss_pred             CCCCeEEeeCCCCCCccHHHHHHHHHc----CCCEEEEEhHH-------hhhcchhHH--------------HHHHHHHH
Confidence            356889999999999999999888644    57788886332       222222222              66788889


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      +.+.  ...|++|+|||+++++..+....  ........+...+++.   .+..+. ....+++|+++|.++........
T Consensus        98 ~~A~--~~~P~il~iDeiD~l~~~r~~~~--~~~~~~~~~~~~~ll~---~~d~~~-~~~~v~vIatTn~~~~ld~al~R  169 (256)
T d1lv7a_          98 EQAK--KAAPCIIFIDEIDAVGRQRGAGL--GGGHDEREQTLNQMLV---EMDGFE-GNEGIIVIAATNRPDVLDPALLR  169 (256)
T ss_dssp             HHHH--TTCSEEEEETTHHHHTCCCSTTS--CCTTCHHHHHHHHHHH---HHHTCC-SSSCEEEEEEESCTTTSCGGGGS
T ss_pred             HHHH--HcCCEEEEEEChhhhCccCCCCC--CCCcHHHHHHHHHHHH---HhhCCC-CCCCEEEEEeCCCcccCCHhHcC
Confidence            8876  45599999999999987421111  0111122233333333   333332 34458888888877654333222


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      .++|+..++++..
T Consensus       170 ~gRfd~~i~i~~P  182 (256)
T d1lv7a_         170 PGRFDRQVVVGLP  182 (256)
T ss_dssp             TTSSCEEEECCCC
T ss_pred             CCCCCEEEECCCc
Confidence            3578988888864

>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=99.64  E-value=1.8e-14  Score=117.39  Aligned_cols=162  Identities=15%  Similarity=0.171  Sum_probs=96.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      +.|+++.|+||||||||+||++++..+. ..|..|+|+|+|+.+...  ++.. ++..   .+++.+......+...+++
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~aq-k~g~~v~yiDtE~~~~~~--~a~~-~Gvd---~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQAQ-KAGGTCAFIDAEHALDPV--YARA-LGVN---TDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEEESSCCCCHH--HHHH-TTCC---GGGCEEECCSSHHHHHHHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHHH-hCCCEEEEEECCccCCHH--HHHH-hCCC---chhEEEEcCCCHHHHHHHH
Confidence            5889999999999999999999999887 778999999999755432  2222 2211   1255554445555555555


Q ss_pred             HHhcccCCCCcEEEEeCCCcccccc-ccccccCCcchhhHHHHHHHHHHHHHHHHh-hhcCCcEEEEeecC--------C
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDR-TCQERYTNPRGRDLAMVRTLALCYNAITHA-NKKSPCKLLLSDTH--------L  166 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-~~~~~~vlvi~~~~--------~  166 (233)
                      +.+.. ...+++|||||+.++++.. ..+........   ...+.+...+..+..+ ...+..++++.+..        .
T Consensus       128 ~~l~~-~~~~~liIiDSi~al~~r~e~~~~~~~~~~~---~~a~~l~~~lr~l~~~~~~~~~~vi~tNQv~~~~g~~~g~  203 (268)
T d1xp8a1         128 ELLVR-SGAIDVVVVDSVAALTPRAEIEGDMGDSLPG---LQARLMSQALRKLTAILSKTGTAAIFINQVREKIGVMYGN  203 (268)
T ss_dssp             HHHHT-TTCCSEEEEECTTTCCCSTTC--------CC---HHHHHHHHHHHHHHHHHTTTCCEEEEEEEC----------
T ss_pred             HHHHh-cCCCcEEEEecccccccHHHHcccccchhHH---HHHHHHHHHHHHHHhhhhhcCCeEEEEeEEeeccccccCc
Confidence            54422 3348999999999999532 11111111111   2233344444444433 34455555544432        1


Q ss_pred             CCCchhHHHHHHhhccceEEEec
Q 041690          167 GNSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      +..+.+..++.|+.+.++.+...
T Consensus       204 ~~~~~GG~al~~~ss~rl~l~k~  226 (268)
T d1xp8a1         204 PETTTGGRALKFYASVRLDVRKI  226 (268)
T ss_dssp             -----CHHHHHHHCSEEEEEEEE
T ss_pred             ceeecccchhhhceeEEEEEEec
Confidence            22345778999999999999764

>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=99.64  E-value=2.1e-16  Score=127.87  Aligned_cols=140  Identities=13%  Similarity=0.187  Sum_probs=84.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ....++|++||||||||++++.++.    +.+.++++++.       ..+...+.+..              ...++++|
T Consensus        40 ~~~~giLl~GppGtGKT~la~aia~----~~~~~~~~i~~-------~~l~~~~~g~~--------------~~~l~~~f   94 (247)
T d1ixza_          40 RIPKGVLLVGPPGVGKTHLARAVAG----EARVPFITASG-------SDFVEMFVGVG--------------AARVRDLF   94 (247)
T ss_dssp             CCCSEEEEECCTTSSHHHHHHHHHH----HTTCCEEEEEH-------HHHHHSCTTHH--------------HHHHHHHH
T ss_pred             CCCceEEEecCCCCChhHHHHHHHH----HcCCCEEEEEh-------HHhhhccccHH--------------HHHHHHHH
Confidence            3557899999999999999998876    45678999862       22222222221              55778888


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|+|||+++++..+.....  .......+....|   +..+..+. ....+++|+++|.++........
T Consensus        95 ~~a~--~~~p~Ii~iDeid~l~~~r~~~~~--~~~~~~~~~~~~l---l~~~d~~~-~~~~vivi~tTn~~~~ld~al~R  166 (247)
T d1ixza_          95 ETAK--RHAPCIVFIDEIDAVGRKRGSGVG--GGNDEREQTLNQL---LVEMDGFE-KDTAIVVMAATNRPDILDPALLR  166 (247)
T ss_dssp             HHHT--TSSSEEEEEETHHHHHC-----------CHHHHHHHHHH---HHHHHTCC-TTCCEEEEEEESCGGGSCGGGGS
T ss_pred             HHHH--HcCCEEEEEEChhhhCccCCCCCC--CCcHHHHHHHHHH---HHHhhCCC-CCCCEEEEEeCCCccccCHhHcC
Confidence            8776  445999999999999874211110  1111222233333   33333332 34457788888766543333222


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+|+..++++..
T Consensus       167 ~~Rf~~~i~~~~P  179 (247)
T d1ixza_         167 PGRFDRQIAIDAP  179 (247)
T ss_dssp             TTSSCEEEECCSC
T ss_pred             CCCCcEEEEECCc
Confidence            3478888888764

>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=99.62  E-value=3.4e-15  Score=121.44  Aligned_cols=162  Identities=12%  Similarity=0.155  Sum_probs=96.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      ++|.+++|+||||||||+||++++.++. ..|..++|+++|+.+....  +. .++..   .+++.+......+...+..
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~~q-~~g~~~vyidtE~~~~~~~--a~-~~Gvd---~d~v~~~~~~~~E~~~~~i  124 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAAAQ-REGKTCAFIDAEHALDPIY--AR-KLGVD---IDNLLCSQPDTGEQALEIC  124 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEESSCCCCHHH--HH-HTTCC---GGGCEEECCSSHHHHHHHH
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHH-cCCCEEEEEccccccCHHH--HH-HhCCC---HHHEEEecCCCHHHHHHHH
Confidence            4889999999999999999999999988 7789999999997654322  21 11211   1355554445555444444


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHH-HhhhcCCcEEEEeecC--------CC
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAIT-HANKKSPCKLLLSDTH--------LG  167 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~-~l~~~~~~vlvi~~~~--------~~  167 (233)
                      ..+.. +..+++|||||++++++........+.....  ...+.+...+..+. .+.+.+..++++.+..        .+
T Consensus       125 ~~l~~-~~~~~liViDSi~al~~~~e~~~~~~~~~~~--~~a~~l~~~~~~l~~~~~~~~~~vi~~NQv~~~~~~~~g~~  201 (263)
T d1u94a1         125 DALAR-SGAVDVIVVDSVAALTPKAEIEGEIGDSHMG--LAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNP  201 (263)
T ss_dssp             HHHHH-HTCCSEEEEECGGGCCCHHHHTTC------C--HHHHHHHHHHHHHHHHHHHHTCEEEEEEC------------
T ss_pred             HHHHh-cCCCCEEEEECccccccchhcccccccchHH--HHHHHHHHHHHHHHHhhhccCceEEEEEEEEeccccccCCC
Confidence            44322 2348999999999998632111111111111  11222222333333 3344566666655532        12


Q ss_pred             CCchhHHHHHHhhccceEEEe
Q 041690          168 NSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      ..|.+..++.|+.+.++.+..
T Consensus       202 ~~~~GG~al~~~~~~rl~l~k  222 (263)
T d1u94a1         202 ETTTGGNALKFYASVRLDIRR  222 (263)
T ss_dssp             --CTTCSHHHHHCSEEEEEEE
T ss_pred             ccccccchhheeeEEEEEEEe
Confidence            245567799999999999965

>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=99.61  E-value=4.2e-16  Score=126.87  Aligned_cols=137  Identities=16%  Similarity=0.181  Sum_probs=86.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+.+.+||+||||||||+++++++.    ..+.++++++.       ......+.+..              ...++.+|
T Consensus        36 ~~~~giLL~GppGtGKT~l~~ala~----~~~~~~~~i~~-------~~l~~~~~g~~--------------~~~l~~~f   90 (258)
T d1e32a2          36 KPPRGILLYGPPGTGKTLIARAVAN----ETGAFFFLING-------PEIMSKLAGES--------------ESNLRKAF   90 (258)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHH----HTTCEEEEECH-------HHHTTSCTTHH--------------HHHHHHHH
T ss_pred             CCCceeEEecCCCCCchHHHHHHHH----HhCCeEEEEEc-------hhhcccccccH--------------HHHHHHHH
Confidence            3567899999999999999997776    45677888752       21222222111              55777888


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|+|||++.++..+     .....+........   ++..+... .....+++|+++|.++........
T Consensus        91 ~~A~--~~~p~il~iDeid~l~~~r-----~~~~~~~~~~~~~~---~~~~~~~~-~~~~~vlvi~tTn~~~~ld~al~r  159 (258)
T d1e32a2          91 EEAE--KNAPAIIFIDELDAIAPKR-----EKTHGEVERRIVSQ---LLTLMDGL-KQRAHVIVMAATNRPNSIDPALRR  159 (258)
T ss_dssp             HHHH--HTCSEEEEESSGGGTCCHH-----HHCCCTTHHHHHHH---HHHHHHTC-CCSSCEEEEEEESCGGGSCGGGTS
T ss_pred             HHHH--hcCCeEEEehhhhhhccCC-----CCCCCchHHHHHHH---hccccccc-cccCCccEEEeCCCccccchhhhh
Confidence            8776  3349999999999999842     22222222233322   23333322 345568888888877554433333


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      .++|+..++++..
T Consensus       160 ~gRfd~~i~~~~P  172 (258)
T d1e32a2         160 FGRFDREVDIGIP  172 (258)
T ss_dssp             TTSSCEEEECCCC
T ss_pred             cccccceeECCCC
Confidence            4478999998864

>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=99.61  E-value=2.2e-14  Score=116.82  Aligned_cols=161  Identities=14%  Similarity=0.162  Sum_probs=97.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccccc-ccCCchhhhcceEEEEecCHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQ-SIDPSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      +.|+++.|+||||||||+||++++.... ..|..++||++|+.+..  +++.+ +.+.     +++.+......+.+.++
T Consensus        58 ~~g~i~e~~G~~~~GKT~l~l~~~~~~q-~~g~~~vyIDtE~~~~~--e~a~~~GvD~-----d~il~~~~~~~E~~~~~  129 (269)
T d1mo6a1          58 PRGRVIEIYGPESSGKTTVALHAVANAQ-AAGGVAAFIDAEHALDP--DYAKKLGVDT-----DSLLVSQPDTGEQALEI  129 (269)
T ss_dssp             CSSSEEEEECSSSSSHHHHHHHHHHHHH-HTTCEEEEEESSCCCCH--HHHHHHTCCG-----GGCEEECCSSHHHHHHH
T ss_pred             ccceeEEEecCCCcHHHHHHHHHHHHHh-cCCCEEEEEECCccCCH--HHHHHhCCCH-----HHeEEecCCCHHHHHHH
Confidence            6899999999999999999999998877 77889999999976632  22322 2221     25555444555655555


Q ss_pred             HHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhh-hcCCcEEEEeecC--------C
Q 041690           96 FAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHAN-KKSPCKLLLSDTH--------L  166 (233)
Q Consensus        96 ~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~-~~~~~vlvi~~~~--------~  166 (233)
                      .+.+.. +..+++|||||+.++++...-....+....  ....+.+...+..+..+. ..+..++++.+.-        .
T Consensus       130 ~~~l~~-~~~~~liIiDSi~al~~~~E~e~~~~~~~~--~~~a~~l~~~l~~l~~~~~~~~~~vi~~NQv~~~~~~~~g~  206 (269)
T d1mo6a1         130 ADMLIR-SGALDIVVIDSVAALVPRAELEGEMGDSHV--GLQARLMSQALRKMTGALNNSGTTAIFINQLRDKIGVMFGS  206 (269)
T ss_dssp             HHHHHH-TTCEEEEEEECSTTCCCHHHHC-------C--CHHHHHHHHHHHHHHHHHHHHTCEEEEEECC----------
T ss_pred             HHHHHh-cCCCCEEEEecccccccHHHhccccccchH--HHHHHHHHHHHHHHHHHHhhcCchhhhhheeeccCccccCC
Confidence            554422 334899999999999963111111111111  112233333333333333 3445455543321        1


Q ss_pred             CCCchhHHHHHHhhccceEEEe
Q 041690          167 GNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      +..+.+..++.|+.+.++.+..
T Consensus       207 ~~~~~GG~al~~~ss~rl~l~k  228 (269)
T d1mo6a1         207 PETTTGGKALKFYASVRMDVRR  228 (269)
T ss_dssp             ---CTTHHHHHHHCSEEEEEEE
T ss_pred             ceecccccceeeeeeEEEEEEe
Confidence            2345677899999999999965

>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=99.57  E-value=1.5e-14  Score=120.35  Aligned_cols=147  Identities=13%  Similarity=0.080  Sum_probs=85.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      +..++|++||||||||.+++.+|....  .+.+.+.++       ..++++.+.++.              ...++++|.
T Consensus       122 ~~g~~l~~G~pG~GKT~la~ala~~~~--~~~~~~~~~-------~~~~~~~~~G~~--------------e~~~~~~f~  178 (321)
T d1w44a_         122 ASGMVIVTGKGNSGKTPLVHALGEALG--GKDKYATVR-------FGEPLSGYNTDF--------------NVFVDDIAR  178 (321)
T ss_dssp             ESEEEEEECSSSSCHHHHHHHHHHHHH--TTSCCEEEE-------BSCSSTTCBCCH--------------HHHHHHHHH
T ss_pred             CCceEEEECCCCccHHHHHHHHHHHhc--CCCCeEEEE-------hhHhhhcccchH--------------HHHHHHHHH
Confidence            444566699999999999998887654  122344453       334444454444              678899998


Q ss_pred             HhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCch-h--HH
Q 041690           98 AFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTR-L--LY  174 (233)
Q Consensus        98 ~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~-~--~~  174 (233)
                      .+.  .  |++||||||+++...+..    +.......+.+++++..++.+...    ..++++++||..+.+. .  ..
T Consensus       179 ~a~--~--~~ilf~DEid~~~~~r~~----~~~~~~~~r~v~~lL~e~dg~~~~----~~v~viaatN~~~~~~~i~~~~  246 (321)
T d1w44a_         179 AML--Q--HRVIVIDSLKNVIGAAGG----NTTSGGISRGAFDLLSDIGAMAAS----RGCVVIASLNPTSNDDKIVELV  246 (321)
T ss_dssp             HHH--H--CSEEEEECCTTTC---------------CCHHHHHHHHHHHHHHHH----HTCEEEEECCCCCCCHHHHHHH
T ss_pred             HHh--h--ccEEEeehhhhhcccccc----CCCCCcchhhhhhhhhhccccccC----CCeEEEEeCCCcccccchhhhh
Confidence            875  3  889999999999984311    112222335677887778877432    2377888888543221 1  11


Q ss_pred             HHHHhhccceEEEe-cCCcc-EEEeec
Q 041690          175 IYKRWISSIFTVKG-DGPGS-FLLRNK  199 (233)
Q Consensus       175 ~~~~~~~~~~~i~~-~~~~~-~~l~~~  199 (233)
                      ....+++..+.+.. +-+++ -+|..+
T Consensus       247 ~r~~Rf~~~v~v~~pd~~~r~~il~~~  273 (321)
T d1w44a_         247 KEASRSNSTSLVISTDVDGEWQVLTRT  273 (321)
T ss_dssp             HHHHHHSCSEEEEECSSTTEEEEEEEC
T ss_pred             hccCcccceeecCCCChHHHHHHHHHh
Confidence            22244555555554 43444 444444

>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=99.55  E-value=3.9e-15  Score=121.50  Aligned_cols=140  Identities=15%  Similarity=0.223  Sum_probs=82.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .++.++||+||||||||+|++++|.    ..+.++++++       .........+..              ...++.+|
T Consensus        39 ~~~~giLL~Gp~GtGKT~l~~ala~----~~~~~~~~~~-------~~~l~~~~~~~~--------------~~~l~~~f   93 (265)
T d1r7ra3          39 TPSKGVLFYGPPGCGKTLLAKAIAN----ECQANFISIK-------GPELLTMWFGES--------------EANVREIF   93 (265)
T ss_dssp             CCCCEEEEBCCTTSSHHHHHHHHHH----HTTCEEEEEC-------HHHHHTSCTTTH--------------HHHHHHHH
T ss_pred             CCCCeEEEECCCCCcchhHHHHHHH----HhCCcEEEEE-------HHHhhhccccch--------------HHHHHHHH
Confidence            3677899999999999999998776    4467788874       222222222221              56777888


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|+||+++.++.......  +.......+....++.   .+..+..+ ..+++|+++|.++.......-
T Consensus        94 ~~A~--~~~p~il~ideid~l~~~~~~~~--~~~~~~~~~~~~~ll~---~l~~~~~~-~~v~vi~ttn~~~~ld~al~r  165 (265)
T d1r7ra3          94 DKAR--QAAPCVLFFDELDSIAKARGGNI--GDGGGAADRVINQILT---EMDGMSTK-KNVFIIGATNRPDIIDPAILR  165 (265)
T ss_dssp             HHHH--HTCSEEEEESSGGGTCCHHHHCC--CTTHHHHHHHHHHHHH---TCC-------CCEEEECCBSCTTTSCGGGS
T ss_pred             HHHH--hcCCcceeHHhhhhccccCCCcC--CCCcHHHHHHHHHHHH---HhhCcCCC-CCEEEEEeCCCchhCCHHHhC
Confidence            8776  33499999999999998421100  0111111222233332   22222222 336788888877543222222


Q ss_pred             HHhhccceEEEec
Q 041690          177 KRWISSIFTVKGD  189 (233)
Q Consensus       177 ~~~~~~~~~i~~~  189 (233)
                      ..+|+..++++..
T Consensus       166 ~gRf~~~i~~~~p  178 (265)
T d1r7ra3         166 PGRLDQLIYIPLP  178 (265)
T ss_dssp             STTSEEEEECCCC
T ss_pred             CCCccEEEEecch
Confidence            3478888888864

>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=99.52  E-value=2.3e-15  Score=121.62  Aligned_cols=136  Identities=23%  Similarity=0.232  Sum_probs=81.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .|...+||+||||||||++|+.+|..    .+.+++.++.-       +.+.   +....          .....++++|
T Consensus        38 ~p~~~vLL~GppGtGKT~la~alA~~----~~~~~~~i~~~-------~~~~---g~~~~----------~~~~~i~~if   93 (246)
T d1d2na_          38 TPLVSVLLEGPPHSGKTALAAKIAEE----SNFPFIKICSP-------DKMI---GFSET----------AKCQAMKKIF   93 (246)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHH----HTCSEEEEECG-------GGCT---TCCHH----------HHHHHHHHHH
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHhhc----ccccccccccc-------cccc---ccccc----------chhhhhhhhh
Confidence            35678999999999999999988763    35677777521       1111   00000          0034677888


Q ss_pred             HHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHH
Q 041690           97 AAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIY  176 (233)
Q Consensus        97 ~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~  176 (233)
                      ..+.  ...|++|||||++.+.....     ..+.. ..+...+   +...+......+..++|++++|.++.... ..+
T Consensus        94 ~~A~--~~~p~il~iDEid~l~~~~~-----~~~~~-~~~~~~~---ll~~l~~~~~~~~~v~vi~tTn~~~~ld~-~~~  161 (246)
T d1d2na_          94 DDAY--KSQLSCVVVDDIERLLDYVP-----IGPRF-SNLVLQA---LLVLLKKAPPQGRKLLIIGTTSRKDVLQE-MEM  161 (246)
T ss_dssp             HHHH--TSSEEEEEECCHHHHTTCBT-----TTTBC-CHHHHHH---HHHHTTCCCSTTCEEEEEEEESCHHHHHH-TTC
T ss_pred             hhhh--hcccceeehhhhhhHhhhcc-----cccch-hHHHHHH---HHHHhcCCCccccceeeeeccCChhhccc-hhh
Confidence            8776  44499999999999887421     11111 1222223   33333333344556888888887543221 134


Q ss_pred             HHhhccceEEEe
Q 041690          177 KRWISSIFTVKG  188 (233)
Q Consensus       177 ~~~~~~~~~i~~  188 (233)
                      .++|+..++++.
T Consensus       162 ~~rF~~~i~~P~  173 (246)
T d1d2na_         162 LNAFSTTIHVPN  173 (246)
T ss_dssp             TTTSSEEEECCC
T ss_pred             cCccceEEecCC
Confidence            566777777754

>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=99.48  E-value=6.9e-14  Score=111.70  Aligned_cols=169  Identities=12%  Similarity=0.098  Sum_probs=95.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCccccccccccc-ccCCchhhhc-ceEEEEe-----cCH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQ-SIDPSSHVFK-LIQMKYV-----EDD   89 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~-~~~~~~~~~~-~i~~~~~-----~~~   89 (233)
                      ++|+.++|+||||||||+||.|++.+++ ..+.+++|++.|............ ..+..+.... .+.+...     ...
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~~~-~~~~~~~~is~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVENAC-ANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLE  102 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHHHH-TTTCCEEEEESSSCHHHHHHHHHTTSCCHHHHHHTTSEEECCCCGGGSCHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHH-HhccccceeeccCCHHHHHHHHHHcCCChHHHhhcCceEEEEeecchhhHH
Confidence            5899999999999999999999999988 789999999987422111111111 1111111111 1222111     112


Q ss_pred             HHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCC--
Q 041690           90 EEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLG--  167 (233)
Q Consensus        90 ~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~--  167 (233)
                      +.+..+...+.  ...|++++||+++.++...        .. ..  ...   .+..+.+.+++.+.+++++.+.+..  
T Consensus       103 ~~~~~i~~~i~--~~~~~~vviDs~~~~~~~~--------~~-~~--~~~---~~~~l~~~~~~~~~~~i~~~~~~~~~~  166 (242)
T d1tf7a2         103 DHLQIIKSEIN--DFKPARIAIDSLSALARGV--------SN-NA--FRQ---FVIGVTGYAKQEEITGLFTNTSDQFMG  166 (242)
T ss_dssp             HHHHHHHHHHH--TTCCSEEEEECHHHHTSSS--------CH-HH--HHH---HHHHHHHHHHHTTCEEEEEEECSSSSC
T ss_pred             HHHHHHHHHHH--hcCCceeeeecchhhhcCC--------CH-HH--HHH---HHHHHHHHHHHcCCeEEEEEeeEeecc
Confidence            22333333333  4459999999999988631        11 11  111   1334444555667777777766532  


Q ss_pred             CCchhHHHHHHhhccceEEEec--CC---ccEEEeeccCc
Q 041690          168 NSTRLLYIYKRWISSIFTVKGD--GP---GSFLLRNKNYS  202 (233)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~i~~~--~~---~~~~l~~~~~~  202 (233)
                      ........+.++.+.++.+...  +.   +...+.+++.+
T Consensus       167 ~~~~~~~~~~~~ad~vi~l~~~~~~~~~~R~i~v~K~R~~  206 (242)
T d1tf7a2         167 AHSITDSHISTITDTIILLQYVEIRGEMSRAINVFKMRGS  206 (242)
T ss_dssp             CCSSCSSCCTTTCSEEEEEEEEEETTEEEEEEEEEEESSS
T ss_pred             ccccCCcceeeecceEEEEEEeecCCceEEEEEEEecCCC
Confidence            1112222467888888888763  21   23556665554

>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=99.36  E-value=4.2e-12  Score=100.10  Aligned_cols=157  Identities=13%  Similarity=0.105  Sum_probs=87.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhc--ceEE-EE--------
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFK--LIQM-KY--------   85 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~--~i~~-~~--------   85 (233)
                      ++|+.++|+|+||+|||+|+.+++.+.+...+.+++|++.|......................  .... ..        
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQE  103 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHHGGGTCCHHHHHHTTSEEEEECCCCSSCCS
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccccCCHHHHHHHHHHcCCChHHHHHhcchhhhhhccchhhhh
Confidence            599999999999999999999999887766678999999874221111111110001110110  1111 00        


Q ss_pred             -e---cCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEE
Q 041690           86 -V---EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLL  161 (233)
Q Consensus        86 -~---~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi  161 (233)
                       .   .....+..+...+.  +..|++++||+++.++...        .....  ..+   .+...+..+++.+.+++++
T Consensus       104 ~~~~~~~~~l~~~l~~~i~--~~~~~~viiD~~~~l~~~~--------~~~~~--~~~---~~~~~~~~~~~~~~~~~~~  168 (242)
T d1tf7a1         104 VVGGFDLSALIERINYAIQ--KYRARRVSIDSVTSVFQQY--------DASSV--VRR---ELFRLVARLKQIGATTVMT  168 (242)
T ss_dssp             CCSSHHHHHHHHHHHHHHH--HHTCSEEEEECSTTTSTTT--------CCHHH--HHH---HHHHHHHHHHHHTCEEEEE
T ss_pred             hhccccHHHHHHHHHHHHH--hhccchhhhhHHHHHHHhc--------cChhH--HHH---HHHHHHHHHHhcCCceEEe
Confidence             0   01112222222223  2238999999999988741        11111  111   1334445556678888888


Q ss_pred             eecCCCC-CchhHHHHHHhhccceEEEe
Q 041690          162 SDTHLGN-STRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       162 ~~~~~~~-~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .+.+... .+..........+.++.+..
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~d~i~~~~~  196 (242)
T d1tf7a1         169 TERIEEYGPIARYGVEEFVSDNVVILRN  196 (242)
T ss_dssp             EECSSSSSCSSTTSCHHHHCSEEEEEEE
T ss_pred             ecccccccccccCcceeeeccEEEEEEE
Confidence            7765432 22222245667788888875

>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=99.33  E-value=1.9e-11  Score=96.78  Aligned_cols=166  Identities=13%  Similarity=0.116  Sum_probs=89.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhh-----cCCCeEEEEecCCcccccccc-cccccC-CchhhhcceEEEEecCH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCAS-----QSNANVVFMCNRSRLQSKRPY-LSQSID-PSSHVFKLIQMKYVEDD   89 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~-----~~g~~v~yi~~e~~l~~~~~~-~~~~~~-~~~~~~~~i~~~~~~~~   89 (233)
                      ++|++++|+||||||||+|+.|++.+++.     ..+.+++|++++......... ....++ +......++........
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNA  111 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGGHHHHHHTCCCHHHHGGGEEEEECCST
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHHHHHHHhcCCchhhhhcceEEEeccch
Confidence            59999999999999999999999877642     246789999988533221110 011111 23333445554333222


Q ss_pred             H----HHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHH-HHHHHhhhcCCcEEEEeec
Q 041690           90 E----EIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCY-NAITHANKKSPCKLLLSDT  164 (233)
Q Consensus        90 ~----~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~l~~~~~~vlvi~~~  164 (233)
                      .    ..........  ...+.++++|++.++........  .......    ..+..+. .+.......+..++++...
T Consensus       112 ~~~~~~~~~~~~~~~--~~~~~~~~~ds~~~~~~~~~~~~--~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~  183 (251)
T d1szpa2         112 DHQLRLLDAAAQMMS--ESRFSLIVVDSVMALYRTDFSGR--GELSARQ----MHLAKFMRALQRLADQFGVAVVVTNQV  183 (251)
T ss_dssp             TTHHHHHHHTHHHHH--HSCEEEEEEETGGGGGSCC-------CTHHHH----HHHHHHHHHHHHHHHHHCCCEEEEEEC
T ss_pred             hHHHHHHHHHHHHhh--ccccceeeehhhhhhhhhhhccc--cchhhHH----HHHHHHHHHHHhhhhhcceEEEEEEEE
Confidence            2    1112222222  23388999999988876421100  0111111    1111122 2222334446666665554


Q ss_pred             CC-----------CCCchhHHHHHHhhccceEEEecC
Q 041690          165 HL-----------GNSTRLLYIYKRWISSIFTVKGDG  190 (233)
Q Consensus       165 ~~-----------~~~~~~~~~~~~~~~~~~~i~~~~  190 (233)
                      ..           ...+.+...+.++++.++.+...+
T Consensus       184 ~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~l~~~~  220 (251)
T d1szpa2         184 VAQVDGGMAFNPDPKKPTGGNIMAHSSTTRLGFKKGK  220 (251)
T ss_dssp             C----------------CHHHHHHHHCSEEEEEEECS
T ss_pred             EeccCccccccCcceeccCccchhhheeEEEEEEecC
Confidence            21           123445667999999999998753

>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=99.25  E-value=5e-11  Score=94.83  Aligned_cols=168  Identities=13%  Similarity=0.142  Sum_probs=88.7

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCccccccc-ccccccC-CchhhhcceEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKRP-YLSQSID-PSSHVFKLIQMKYVED   88 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~~-~~~~~~~-~~~~~~~~i~~~~~~~   88 (233)
                      .++|++++|+||||||||+||.|++.++...     .+..++|++++..+..... ....... .......++.......
T Consensus        34 ip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  113 (258)
T d1v5wa_          34 IESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYT  113 (258)
T ss_dssp             BCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHHHHHHHhhhcccchhhhhcccccccCc
Confidence            3699999999999999999999999876532     2456899987753322110 0111111 2222233555544444


Q ss_pred             HHHHHHHHHH----hcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHh-hhcCCcEEEEee
Q 041690           89 DEEIKKYFAA----FHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHA-NKKSPCKLLLSD  163 (233)
Q Consensus        89 ~~~l~~~~~~----~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-~~~~~~vlvi~~  163 (233)
                      .+.+......    .......++++++|++.+++....      ............+..++..+..+ ...+.+++++..
T Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~vid~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~L~~~~~~~~~~~~~~~~  187 (258)
T d1v5wa_         114 SEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDF------SGRGELAERQQKLAQMLSRLQKISEEYNVAVFVTNQ  187 (258)
T ss_dssp             TTHHHHHHHHHHHHHHHSCSSEEEEEEETSGGGHHHHC------CGGGCHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEC
T ss_pred             HHHHHHHHHHHHHHhhhhccCceEEEeeehhhhhhccc------cCCcchhHHHHHHHHHHHHHHHHHHhcCCEEEEeee
Confidence            3332222222    222234478999999999876421      11111111222333344444433 344555655554


Q ss_pred             cCCC-----------CCchhHHHHHHhhccceEEEec
Q 041690          164 THLG-----------NSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       164 ~~~~-----------~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      ....           ..+.+...+.++++.++.+...
T Consensus       188 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~l~~~  224 (258)
T d1v5wa_         188 MTADPGATMTFQADPKKPIGGHILAHASTTRISLRKG  224 (258)
T ss_dssp             C-------------------CCTTTTSSSEEEEEEES
T ss_pred             EeecccccccccCCceeecccceehheeEEEEEEEEc
Confidence            3211           1123334567788888888764

>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=99.20  E-value=2.2e-10  Score=91.09  Aligned_cols=42  Identities=24%  Similarity=0.262  Sum_probs=36.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRS   58 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~   58 (233)
                      ++|++++|+||||||||+|+.|++.+++..     .+..++|++.+.
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~   80 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN   80 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSS
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccc
Confidence            589999999999999999999999888732     367899998774

>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=99.19  E-value=3.9e-11  Score=95.07  Aligned_cols=57  Identities=12%  Similarity=0.146  Sum_probs=40.3

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhh-cCCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANK-KSPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~-~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      |+++++||+++-++.             ..+..     +++.+..+.+ .|.+++++++..        ....++.|+++
T Consensus       149 P~illlDEPts~LD~-------------~~~~~-----i~~~l~~l~~~~g~tii~vTHd~--------~~a~~~~dri~  202 (232)
T d2awna2         149 PSVFLLDEPLSNLDA-------------ALRVQ-----MRIEISRLHKRLGRTMIYVTHDQ--------VEAMTLADKIV  202 (232)
T ss_dssp             CSEEEEESTTTTSCH-------------HHHHH-----HHHHHHHHHHHSCCEEEEEESCH--------HHHHHHCSEEE
T ss_pred             CCEEEEcCCCCCCCH-------------HHHHH-----HHHHHHHHHHhcCCEEEEEeCCH--------HHHHHhCCEEE
Confidence            999999999999984             11212     6677776644 578888876532        25677788888


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       203 vm~~  206 (232)
T d2awna2         203 VLDA  206 (232)
T ss_dssp             EEET
T ss_pred             EEEC
Confidence            8874

>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=99.16  E-value=5.2e-11  Score=98.65  Aligned_cols=80  Identities=16%  Similarity=0.150  Sum_probs=50.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFA   97 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~   97 (233)
                      ++.++|++||||||||.||+++|...    +.+.+.++.-+ +...    +.+.+..              ...+..++.
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~~----~~~~~~i~~s~-~~~~----~~~~~~~--------------~~~~~~~f~  104 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKLA----NAPFIKVEATK-FTEV----GYVGKEV--------------DSIIRDLTD  104 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH----TCCEEEEEGGG-GSSC----CSGGGST--------------THHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhcc----ccchhcccccc-cccc----eeEeeec--------------cccccccch
Confidence            66889999999999999999888754    35566665221 0000    1111111              445666666


Q ss_pred             Hhccc---CCCCcEEEEeCCCccccc
Q 041690           98 AFHQH---DKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        98 ~~~~~---~~~p~iIvIDei~~~~~~  120 (233)
                      .+...   ...|++|||||++.+.+.
T Consensus       105 ~a~~~~~~~~~~~IIf~DEIdki~~~  130 (309)
T d1ofha_         105 SAGGAIDAVEQNGIVFIDEIDKICKK  130 (309)
T ss_dssp             TTTTCHHHHHHHCEEEEECGGGGSCC
T ss_pred             hhhcccccccCCceEEehhhhhhhhh
Confidence            55321   112799999999999873

>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=99.16  E-value=1.3e-10  Score=93.89  Aligned_cols=156  Identities=15%  Similarity=0.114  Sum_probs=81.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc---------CCCeEEEEecCCcccccccccccc---cCC--chhhhcceE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ---------SNANVVFMCNRSRLQSKRPYLSQS---IDP--SSHVFKLIQ   82 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~---------~g~~v~yi~~e~~l~~~~~~~~~~---~~~--~~~~~~~i~   82 (233)
                      .+|..++|+|+||+|||+|+.++|.+++..         .+.+|+|++.|........++...   .+.  ......++.
T Consensus        27 ~pg~~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~~~~~~~Rl~~~~~~~~~~~~~~~~~~~~  106 (274)
T d1nlfa_          27 VAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPTAIHHRLHALGAHLSAEERQAVADGLL  106 (274)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCHHHHHHHHHHHHTTSCHHHHHHHHHHEE
T ss_pred             cCCcEEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccchHHHHHHHHHHHhhccChhhhhcccccce
Confidence            369999999999999999999999887631         245899999884222111111111   110  011111222


Q ss_pred             EEE-------ecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHH-hhhc
Q 041690           83 MKY-------VEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITH-ANKK  154 (233)
Q Consensus        83 ~~~-------~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~-l~~~  154 (233)
                      +..       ......+..+...+    ..+++||||++.++....   .   +.. ..  .. .   ++..+.. ....
T Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~lvviD~l~~~~~~~---~---~~~-~~--~~-~---~~~~l~~la~~~  169 (274)
T d1nlfa_         107 IQPLIGSLPNIMAPEWFDGLKRAA----EGRRLMVLDTLRRFHIEE---E---NAS-GP--MA-Q---VIGRMEAIAADT  169 (274)
T ss_dssp             ECCCTTSCCCTTSHHHHHHHHHHH----TTCSEEEEECGGGGCCSC---T---TCH-HH--HH-H---HHHHHHHHHHHH
T ss_pred             eccccCccchhHHHHHHHHHHHhc----cCccEEecCchhhhcccc---c---cch-hh--HH-H---HHHHHHHHhhcC
Confidence            211       11122333333222    238999999999887521   0   111 11  11 1   2333332 3345


Q ss_pred             CCcEEEEeecCCCC----------CchhHHHHHHhhccceEEEec
Q 041690          155 SPCKLLLSDTHLGN----------STRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       155 ~~~vlvi~~~~~~~----------~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      +.+++++.+++...          ..++...+....+.++.+...
T Consensus       170 ~~~vi~v~H~~K~~~~~~~~~~~~~~~Gssai~~~a~~v~~l~r~  214 (274)
T d1nlfa_         170 GCSIVFLHHASKGAAMMGAGDQQQASRGSSVLVDNIRWQSYLSSM  214 (274)
T ss_dssp             CCEEEEEEEC--------------------CTGGGCSCEEEEEEC
T ss_pred             CCceehhhhccccccccCCcccccccccHHHHHhhccEEEEEEec
Confidence            78888888776431          223444567788888888763

>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=99.15  E-value=3.7e-11  Score=95.60  Aligned_cols=57  Identities=12%  Similarity=0.139  Sum_probs=41.5

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      |+++++||+++-++.             ..+..     +++++..+.++ |.+++++++.-        ....++.++++
T Consensus       155 P~iLllDEPts~LD~-------------~~~~~-----i~~ll~~l~~~~g~tii~vTHd~--------~~a~~~~dri~  208 (239)
T d1v43a3         155 PDVLLMDEPLSNLDA-------------KLRVA-----MRAEIKKLQQKLKVTTIYVTHDQ--------VEAMTMGDRIA  208 (239)
T ss_dssp             CSEEEEESTTTTSCH-------------HHHHH-----HHHHHHHHHHHHTCEEEEEESCH--------HHHHHHCSEEE
T ss_pred             CCceeecCCcccCCH-------------HHHHH-----HHHHHHHHHHhcCCeEEEEeCCH--------HHHHHhCCEEE
Confidence            999999999999984             12222     67777777544 88888887642        25677889888


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       209 vm~~  212 (239)
T d1v43a3         209 VMNR  212 (239)
T ss_dssp             EEET
T ss_pred             EEEC
Confidence            8884

>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=99.14  E-value=6.5e-10  Score=87.65  Aligned_cols=168  Identities=12%  Similarity=0.102  Sum_probs=89.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhc---------------CCCeEEEEecCCccccccc-cccc-ccCCchhhh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQ---------------SNANVVFMCNRSRLQSKRP-YLSQ-SIDPSSHVF   78 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~---------------~g~~v~yi~~e~~l~~~~~-~~~~-~~~~~~~~~   78 (233)
                      .++|++++|+||||+|||+|+.++|.+++..               .+.+++|+++|........ .... .........
T Consensus        31 l~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~~~~~~~~~~~  110 (258)
T d2i1qa2          31 LESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVL  110 (258)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHHHHHHTCCHHHHH
T ss_pred             ccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHHHHHHHHhhcchhhhhhh
Confidence            3589999999999999999999999988732               2446889987743221110 0111 111223333


Q ss_pred             cceEEEEecCHHHHHHHHHHhc---ccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-
Q 041690           79 KLIQMKYVEDDEEIKKYFAAFH---QHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-  154 (233)
Q Consensus        79 ~~i~~~~~~~~~~l~~~~~~~~---~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-  154 (233)
                      .++..............+....   .....+..+++|.+..+....   ..  ...... ........++..+..+... 
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vid~i~~~~~~~---~~--~~~~~~-~~~~~~~~~~~~~~~~~~~~  184 (258)
T d2i1qa2         111 DNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNE---YT--GRGKLA-ERQQKLGRHMATLNKLADLF  184 (258)
T ss_dssp             HTEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSHHHHHH---CC--CTTSHH-HHHHHHHHHHHHHHHHHHHT
T ss_pred             hcceeeccCchhhHHHHHHHHHHHHHHhcccceeeeeEEEEeechh---cc--ccccch-hhHHHHHHHHHHHHHhhhhc
Confidence            4555555444433333322211   113347899999998887631   11  111111 1111222223333333333 


Q ss_pred             CCcEEEEeecC--------CCCCchhHHHHHHhhccceEEEec
Q 041690          155 SPCKLLLSDTH--------LGNSTRLLYIYKRWISSIFTVKGD  189 (233)
Q Consensus       155 ~~~vlvi~~~~--------~~~~~~~~~~~~~~~~~~~~i~~~  189 (233)
                      +..++++....        ....+.+...+.+..+.++.+...
T Consensus       185 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~~~  227 (258)
T d2i1qa2         185 NCVVLVTNQVSAKPDAFFGMAEQAIGGHIVGHAATFRFFVRKG  227 (258)
T ss_dssp             TCEEEEEECEECC-------CCEESSHHHHHHHCSEEEEEEEC
T ss_pred             ceEEEeecceEeccccccCCcccccCcchhhhhceEEEEEEEc
Confidence            34444332211        113344566789999999999874

>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=99.11  E-value=2.6e-10  Score=92.36  Aligned_cols=42  Identities=12%  Similarity=0.135  Sum_probs=38.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      .+|..++|.|+||+|||+|+.+++.+++...|.+|+|++.|.
T Consensus        33 ~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E~   74 (277)
T d1cr2a_          33 RGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEE   74 (277)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESSS
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeecc
Confidence            689999999999999999999999988767799999999873

>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=99.11  E-value=2.6e-11  Score=96.57  Aligned_cols=57  Identities=14%  Similarity=0.255  Sum_probs=42.3

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      |+++++||+++-++.             ..+..     +++.+..+.++ |.+++++++.-        ....++.++++
T Consensus       159 P~lLllDEPt~~LD~-------------~~~~~-----i~~~l~~l~~~~g~tvi~vTHdl--------~~~~~~~dri~  212 (240)
T d3dhwc1         159 PKVLLCDEATSALDP-------------ATTRS-----ILELLKDINRRLGLTILLITHEM--------DVVKRICDCVA  212 (240)
T ss_dssp             CSEEEEESGGGSSCH-------------HHHHH-----HHHHHHHHHHHHCCEEEEEBSCH--------HHHHHHCSEEE
T ss_pred             CCeEEeccccccCCH-------------HHhhH-----HHHHHHHHHhccCCEEEEEcCCH--------HHHHHhCCEEE
Confidence            999999999999984             22222     67777777655 88888886642        25677889988


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       213 vl~~  216 (240)
T d3dhwc1         213 VISN  216 (240)
T ss_dssp             EEET
T ss_pred             EEEC
Confidence            8885

>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=99.10  E-value=5.2e-11  Score=94.83  Aligned_cols=57  Identities=11%  Similarity=0.044  Sum_probs=41.1

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhh-cCCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANK-KSPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~-~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      |++|++||+++-++..             .+..     +++.+..+.+ .|.+++++++..        ....++.++++
T Consensus       159 P~llllDEPt~~LD~~-------------~~~~-----i~~~i~~l~~~~g~tvi~vTHd~--------~~~~~~~dri~  212 (242)
T d1oxxk2         159 PSLLLLDEPFSNLDAR-------------MRDS-----ARALVKEVQSRLGVTLLVVSHDP--------ADIFAIADRVG  212 (242)
T ss_dssp             CSEEEEESTTTTSCGG-------------GHHH-----HHHHHHHHHHHHCCEEEEEESCH--------HHHHHHCSEEE
T ss_pred             ccceeecCCccCCCHH-------------HHHH-----HHHHHHHHHhccCCEEEEEECCH--------HHHHHhCCEEE
Confidence            9999999999999842             1222     6777777644 488888887642        15667889888


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       213 vm~~  216 (242)
T d1oxxk2         213 VLVK  216 (242)
T ss_dssp             EEET
T ss_pred             EEEC
Confidence            8874

>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=99.10  E-value=5.9e-11  Score=93.79  Aligned_cols=143  Identities=15%  Similarity=0.141  Sum_probs=79.0

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCc--ccc---cccccccccC--CchhhhcceEE-----
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSR--LQS---KRPYLSQSID--PSSHVFKLIQM-----   83 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~--l~~---~~~~~~~~~~--~~~~~~~~i~~-----   83 (233)
                      .++|..+.|.||+|||||||++.++.... ...+.+ +++.+.-  +..   ...++.|...  +...+.+++.+     
T Consensus        23 i~~Ge~~~liGpsGaGKSTll~~l~Gl~~-p~sG~I-~~~G~~i~~~~~~~r~ig~v~Q~~~l~~~~tV~enl~~~~~~~  100 (229)
T d3d31a2          23 VESGEYFVILGPTGAGKTLFLELIAGFHV-PDSGRI-LLDGKDVTDLSPEKHDIAFVYQNYSLFPHMNVKKNLEFGMRMK  100 (229)
T ss_dssp             ECTTCEEEEECCCTHHHHHHHHHHHTSSC-CSEEEE-EETTEECTTSCHHHHTCEEECTTCCCCTTSCHHHHHHHHHHHH
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhcCcC-CCCCEE-EEccEeccccchhHhcceeeccccccCccccHHHHHHHHHhhc
Confidence            37999999999999999999998775443 222223 3333210  000   0111111111  11112222211     


Q ss_pred             -------------------------EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHH
Q 041690           84 -------------------------KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMV  138 (233)
Q Consensus        84 -------------------------~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~  138 (233)
                                               ..++.++..+-.++.+-  -..|+++++||+++-++.             .... 
T Consensus       101 ~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGG~~QRvaiAraL--~~~P~iLllDEPts~LD~-------------~~~~-  164 (229)
T d3d31a2         101 KIKDPKRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARAL--VTNPKILLLDEPLSALDP-------------RTQE-  164 (229)
T ss_dssp             CCCCHHHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHT--TSCCSEEEEESSSTTSCH-------------HHHH-
T ss_pred             cccHHHHHHHHHHHhcchhhHhCChhhCCHHHhcchhhhhhh--hccCCceeecCCCcCCCH-------------HHHH-
Confidence                                     11122334444444333  223999999999999984             1122 


Q ss_pred             HHHHHHHHHHHHhhh-cCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          139 RTLALCYNAITHANK-KSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       139 ~~l~~l~~~~~~l~~-~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                          .+++.+..+.+ .+.+++++++.-        ....++.++++.+..
T Consensus       165 ----~i~~~l~~l~~~~g~tii~vtHd~--------~~~~~~~drv~vm~~  203 (229)
T d3d31a2         165 ----NAREMLSVLHKKNKLTVLHITHDQ--------TEARIMADRIAVVMD  203 (229)
T ss_dssp             ----HHHHHHHHHHHHTTCEEEEEESCH--------HHHHHHCSEEEEESS
T ss_pred             ----HHHHHHHHHHhcCCcEEEEEcCCH--------HHHHHhCCEEEEEEC
Confidence                26777777755 477787776632        156677888888764

>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=99.08  E-value=9.4e-11  Score=93.29  Aligned_cols=57  Identities=9%  Similarity=0.109  Sum_probs=41.5

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      |+++++||+++-++.             ..+..     +++.+..+.++ |.+++++++.-        ....++.++++
T Consensus       158 P~iLllDEPt~~LD~-------------~~~~~-----i~~~l~~l~~~~g~tvi~vTHd~--------~~~~~~~drv~  211 (240)
T d1g2912         158 PQVFLMDEPLSNLDA-------------KLRVR-----MRAELKKLQRQLGVTTIYVTHDQ--------VEAMTMGDRIA  211 (240)
T ss_dssp             CSEEEEECTTTTSCH-------------HHHHH-----HHHHHHHHHHHHTCEEEEEESCH--------HHHHHHCSEEE
T ss_pred             CCEEEecCCCcccCH-------------HHHHH-----HHHHHHHHHhccCCEEEEEcCCH--------HHHHHhCCEEE
Confidence            999999999999984             12222     66777776554 88888887642        15677788888


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       212 vm~~  215 (240)
T d1g2912         212 VMNR  215 (240)
T ss_dssp             EEET
T ss_pred             EEEC
Confidence            8884

>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=99.08  E-value=8.7e-11  Score=93.32  Aligned_cols=57  Identities=9%  Similarity=0.056  Sum_probs=40.8

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      |+++++||+++-++.             ..+..     +++.+..+.++ +.+++++++...        ...++.++++
T Consensus       145 P~illlDEPts~LD~-------------~~~~~-----i~~~i~~l~~~~g~tvi~vtHd~~--------~~~~~adri~  198 (240)
T d2onka1         145 PRLLLLDEPLSAVDL-------------KTKGV-----LMEELRFVQREFDVPILHVTHDLI--------EAAMLADEVA  198 (240)
T ss_dssp             CSSBEEESTTSSCCH-------------HHHHH-----HHHHHHHHHHHHTCCEEEEESCHH--------HHHHHCSEEE
T ss_pred             CCceEecCccccCCH-------------HHHHH-----HHHHHHHHHHhcCCeEEEEeCCHH--------HHHHhCCEEE
Confidence            999999999999984             11222     66777776554 788888876421        5677788888


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       199 vm~~  202 (240)
T d2onka1         199 VMLN  202 (240)
T ss_dssp             EEET
T ss_pred             EEEC
Confidence            8874

>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=99.07  E-value=6.1e-10  Score=87.25  Aligned_cols=104  Identities=16%  Similarity=0.171  Sum_probs=63.4

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYFAAF   99 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~~   99 (233)
                      ..+.|+||||||||+|+.+++.... ..+..++|++...........+.                    ...........
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~   95 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAK-KRGYRVIYSSADDFAQAMVEHLK--------------------KGTINEFRNMY   95 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHH-HTTCCEEEEEHHHHHHHHHHHHH--------------------HTCHHHHHHHH
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhc-cCccceEEechHHHHHHHHHHHH--------------------ccchhhHHHHH
Confidence            3488999999999999999998887 67889999973311000000000                    00111222222


Q ss_pred             cccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecC
Q 041690          100 HQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTH  165 (233)
Q Consensus       100 ~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~  165 (233)
                      .  .  .++|+||+++.+...            ..  ++..   ++.++..+...+..+++++..+
T Consensus        96 ~--~--~dll~iDDi~~i~~~------------~~--~~~~---lf~lin~~~~~~~~iiits~~~  140 (213)
T d1l8qa2          96 K--S--VDLLLLDDVQFLSGK------------ER--TQIE---FFHIFNTLYLLEKQIILASDRH  140 (213)
T ss_dssp             H--T--CSEEEEECGGGGTTC------------HH--HHHH---HHHHHHHHHHTTCEEEEEESSC
T ss_pred             h--h--ccchhhhhhhhhcCc------------hH--HHHH---HHHHHHHHhhccceEEEecCCc
Confidence            1  2  789999999988763            11  1212   5556666667777777666654

>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=99.03  E-value=3.6e-10  Score=89.31  Aligned_cols=56  Identities=13%  Similarity=0.234  Sum_probs=39.6

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      |+++++||+++-++.             ..+..     +++.+..+.++ |.+++++++.       .. .. +++++++
T Consensus       164 P~lLllDEPTs~LD~-------------~~~~~-----i~~~l~~l~~~~g~tii~vTHd-------~~-~a-~~~drv~  216 (230)
T d1l2ta_         164 PPIILADQPTGALDS-------------KTGEK-----IMQLLKKLNEEDGKTVVVVTHD-------IN-VA-RFGERII  216 (230)
T ss_dssp             CSEEEEESTTTTSCH-------------HHHHH-----HHHHHHHHHHTTCCEEEEECSC-------HH-HH-TTSSEEE
T ss_pred             CCEEEecCCccccCH-------------HHHHH-----HHHHHHHHHHhhCCEEEEECCC-------HH-HH-HhCCEEE
Confidence            999999999999984             12222     67777777554 7778888652       11 33 5789888


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       217 ~m~~  220 (230)
T d1l2ta_         217 YLKD  220 (230)
T ss_dssp             EEET
T ss_pred             EEEC
Confidence            8874

>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=99.03  E-value=4e-10  Score=90.69  Aligned_cols=57  Identities=9%  Similarity=0.181  Sum_probs=42.7

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |++|++||+++-++.             ....     .++++++.++++|.+++++++.        +....++.++++.
T Consensus       168 P~llilDEPT~gLD~-------------~~~~-----~i~~ll~~l~~~g~til~vtHd--------l~~~~~~adri~v  221 (258)
T d1b0ua_         168 PDVLLFDEPTSALDP-------------ELVG-----EVLRIMQQLAEEGKTMVVVTHE--------MGFARHVSSHVIF  221 (258)
T ss_dssp             CSEEEEESTTTTSCH-------------HHHH-----HHHHHHHHHHHTTCCEEEECSC--------HHHHHHHCSEEEE
T ss_pred             CCEEEeccccccCCH-------------HHHH-----HHHHhhhhhcccCCceEEEeCC--------HHHHHHhCCEEEE
Confidence            999999999999984             1122     2677888888888888887652        1256788899988


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       222 m~~  224 (258)
T d1b0ua_         222 LHQ  224 (258)
T ss_dssp             EET
T ss_pred             EEC
Confidence            874

>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=98.99  E-value=2.3e-10  Score=91.28  Aligned_cols=57  Identities=12%  Similarity=0.124  Sum_probs=42.4

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++.             ..+..     +++.++.++++|.+++++++.-        ....++.|+++.
T Consensus       158 P~lLllDEPt~gLD~-------------~~~~~-----i~~~i~~l~~~g~til~~tH~l--------~~~~~~~drv~v  211 (240)
T d1ji0a_         158 PKLLMMDEPSLGLAP-------------ILVSE-----VFEVIQKINQEGTTILLVEQNA--------LGALKVAHYGYV  211 (240)
T ss_dssp             CSEEEEECTTTTCCH-------------HHHHH-----HHHHHHHHHHTTCCEEEEESCH--------HHHHHHCSEEEE
T ss_pred             CCEeeecCCCcCCCH-------------HHHHH-----HHHHHHHHHhCCCEEEEEeCCH--------HHHHHhCCEEEE
Confidence            999999999999984             11222     7788888888888888886631        145678888888


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       212 l~~  214 (240)
T d1ji0a_         212 LET  214 (240)
T ss_dssp             EET
T ss_pred             EEC
Confidence            874

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=98.97  E-value=5.4e-10  Score=89.17  Aligned_cols=28  Identities=18%  Similarity=0.329  Sum_probs=24.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            7999999999999999999997765443

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=98.96  E-value=3.3e-10  Score=90.21  Aligned_cols=57  Identities=14%  Similarity=0.072  Sum_probs=40.8

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++.             ..+..     +++.++.+++.|.+++++++.-        .....++++++.
T Consensus       152 p~illLDEPt~gLD~-------------~~~~~-----i~~~i~~~~~~g~tii~~tH~l--------~~~~~~~drv~v  205 (238)
T d1vpla_         152 PRLAILDEPTSGLDV-------------LNARE-----VRKILKQASQEGLTILVSSHNM--------LEVEFLCDRIAL  205 (238)
T ss_dssp             CSEEEEESTTTTCCH-------------HHHHH-----HHHHHHHHHHTTCEEEEEECCH--------HHHTTTCSEEEE
T ss_pred             CCEEEecCCCCCCCH-------------HHHHH-----HHHHHHHHHhcCCEEEEEeCCH--------HHHHHhCCEEEE
Confidence            999999999999983             11112     6677777777888888876642        155667788887


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       206 l~~  208 (238)
T d1vpla_         206 IHN  208 (238)
T ss_dssp             EET
T ss_pred             EEC
Confidence            774

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.93  E-value=3.8e-10  Score=90.56  Aligned_cols=73  Identities=14%  Similarity=0.210  Sum_probs=45.9

Q ss_pred             cCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhc-CCcEEEEeecC
Q 041690           87 EDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKK-SPCKLLLSDTH  165 (233)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~vlvi~~~~  165 (233)
                      +.++..+-.++.+-.  ..|+++++||+++-++.             .....     +++.+..+.++ +.++++|++.-
T Consensus       153 SGGqkQRvaiARal~--~~p~ililDEpTs~LD~-------------~~~~~-----i~~~l~~l~~~~~~Tvi~itH~l  212 (251)
T d1jj7a_         153 SGGQRQAVALARALI--RKPCVLILDDATSALDA-------------NSQLQ-----VEQLLYESPERYSRSVLLITQHL  212 (251)
T ss_dssp             CHHHHHHHHHHHHHT--TCCSEEEEESTTTTCCH-------------HHHHH-----HHHHHHTCGGGGGCEEEEECSCH
T ss_pred             ChhHceEEEEeeccc--cCCcEEEecCcCcccCh-------------hhHHH-----HHHHHHHHhhhcCCEEEEEeCCH
Confidence            334555555554432  23999999999999984             11112     66667665543 77888886531


Q ss_pred             CCCCchhHHHHHHhhccceEEEe
Q 041690          166 LGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                              ..+. ++|.++.++.
T Consensus       213 --------~~~~-~aDrI~vl~~  226 (251)
T d1jj7a_         213 --------SLVE-QADHILFLEG  226 (251)
T ss_dssp             --------HHHH-TCSEEEEEET
T ss_pred             --------HHHH-hCCEEEEEEC
Confidence                    1444 4899999884

>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=98.93  E-value=3e-10  Score=91.33  Aligned_cols=57  Identities=18%  Similarity=0.210  Sum_probs=40.0

Q ss_pred             CcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceE
Q 041690          106 PTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFT  185 (233)
Q Consensus       106 p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~  185 (233)
                      |+++++||+++-++.             ..+.     .+++.+..++++|.+++++++.-.        ...++.|+++.
T Consensus       169 P~llilDEPt~gLD~-------------~~~~-----~i~~~i~~l~~~g~til~vsHdl~--------~~~~~~Drv~v  222 (254)
T d1g6ha_         169 PKMIVMDEPIAGVAP-------------GLAH-----DIFNHVLELKAKGITFLIIEHRLD--------IVLNYIDHLYV  222 (254)
T ss_dssp             CSEEEEESTTTTCCH-------------HHHH-----HHHHHHHHHHHTTCEEEEECSCCS--------TTGGGCSEEEE
T ss_pred             cCchhhcCCcccCCH-------------HHHH-----HHHHHHHHHHHCCCEEEEEeCcHH--------HHHHhCCEEEE
Confidence            999999999999984             1111     267777777788888887755432        23456788877


Q ss_pred             EEe
Q 041690          186 VKG  188 (233)
Q Consensus       186 i~~  188 (233)
                      +..
T Consensus       223 m~~  225 (254)
T d1g6ha_         223 MFN  225 (254)
T ss_dssp             EET
T ss_pred             EeC
Confidence            774

>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=98.92  E-value=2e-08  Score=76.98  Aligned_cols=28  Identities=29%  Similarity=0.394  Sum_probs=26.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|.+++|+||||+|||+||.|++.+++
T Consensus        21 ~~G~v~~i~G~~GsGKT~l~l~la~~~~   48 (242)
T d1n0wa_          21 ETGSITEMFGEFRTGKTQICHTLAVTCQ   48 (242)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             cCCEEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            5899999999999999999999998877

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=98.91  E-value=4.5e-10  Score=89.54  Aligned_cols=28  Identities=14%  Similarity=0.097  Sum_probs=24.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        27 ~~Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          27 KQGEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            7999999999999999999997765443

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=98.85  E-value=1.1e-09  Score=87.95  Aligned_cols=28  Identities=14%  Similarity=0.119  Sum_probs=24.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        39 ~~Ge~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          39 PAGKTVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcccC
Confidence            7999999999999999999997765443

>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=98.81  E-value=1.7e-08  Score=79.58  Aligned_cols=34  Identities=35%  Similarity=0.435  Sum_probs=26.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +...+|++||||||||++|+.++.+..    ..+..++
T Consensus        34 ~~~~~L~~GPpGtGKT~lA~~la~~~~----~~~~~~~   67 (238)
T d1in4a2          34 VLDHVLLAGPPGLGKTTLAHIIASELQ----TNIHVTS   67 (238)
T ss_dssp             CCCCEEEESSTTSSHHHHHHHHHHHHT----CCEEEEE
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHhccC----CCccccc
Confidence            456799999999999999998877543    4555554

>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=98.81  E-value=2e-09  Score=85.21  Aligned_cols=58  Identities=12%  Similarity=0.083  Sum_probs=41.5

Q ss_pred             CCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccce
Q 041690          105 IPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIF  184 (233)
Q Consensus       105 ~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~  184 (233)
                      .|+++++||+++-++.             ....     .+++.++.+++.|.+++++++.        +....++.++++
T Consensus       150 ~p~llllDEPt~gLD~-------------~~~~-----~i~~~i~~l~~~g~tii~vtHd--------l~~~~~~~dri~  203 (231)
T d1l7vc_         150 AGQLLLLDEPMNSLDV-------------AQQS-----ALDKILSALCQQGLAIVMSSHD--------LNHTLRHAHRAW  203 (231)
T ss_dssp             TCCEEEESSCSTTCCH-------------HHHH-----HHHHHHHHHHHTTCEEEECCCC--------HHHHHHHCSBCC
T ss_pred             CCCEEEEcCCCCCCCH-------------HHHH-----HHHHHHHHHHhCCCEEEEEeCC--------HHHHHHHCCEEE
Confidence            3799999999999983             1112     2677777777888877777543        115677889888


Q ss_pred             EEEe
Q 041690          185 TVKG  188 (233)
Q Consensus       185 ~i~~  188 (233)
                      .+..
T Consensus       204 vl~~  207 (231)
T d1l7vc_         204 LLKG  207 (231)
T ss_dssp             BEET
T ss_pred             EEEC
Confidence            8874

>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=98.79  E-value=9.8e-10  Score=88.21  Aligned_cols=25  Identities=16%  Similarity=0.169  Sum_probs=22.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|..+.|.||+|||||||++.++.
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHh
Confidence            7999999999999999999996654

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.76  E-value=2.1e-09  Score=87.46  Aligned_cols=143  Identities=13%  Similarity=0.114  Sum_probs=77.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc-----CCCeEEEEecCCcccccc--cccccccCCch----hhhc------
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ-----SNANVVFMCNRSRLQSKR--PYLSQSIDPSS----HVFK------   79 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~-----~g~~v~yi~~e~~l~~~~--~~~~~~~~~~~----~~~~------   79 (233)
                      ++|..+.|.||+|||||||++.++......     .++++.|+.....+....  +.+..+.....    .+.+      
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~~p~~G~I~~~g~i~~v~Q~~~l~~~tv~eni~~~~~~~~~~~~~~~~~~~~~~  139 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGELEASEGIIKHSGRVSFCSQFSWIMPGTIKENIIFGVSYDEYRYKSVVKACQLQQ  139 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSSCCSEEEEECCSCEEEECSSCCCCSEEHHHHHTTTSCCCHHHHHHHHHHTTCHH
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCCcCCCcEEEECCEEEEEeccccccCceeeccccccccccchHHHHHHHHHHhHH
Confidence            799999999999999999999887544422     145677877653221110  00000000000    0000      


Q ss_pred             ---------ceEE----EEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHH
Q 041690           80 ---------LIQM----KYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYN  146 (233)
Q Consensus        80 ---------~i~~----~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  146 (233)
                               .-.+    ..++.++..+-.++.+-..+  |+++++||+++-++..             ....     +++
T Consensus       140 ~i~~l~~~~~~~~~~~~~~LSgGqkQRv~lARaL~~~--p~illLDEPts~LD~~-------------~~~~-----i~~  199 (281)
T d1r0wa_         140 DITKFAEQDNTVLGEGGVTLSGGQRARISLARAVYKD--ADLYLLDSPFGYLDVF-------------TEEQ-----VFE  199 (281)
T ss_dssp             HHTTSTTGGGCEECTTCTTSCHHHHHHHHHHHHHHSC--CSEEEEESCCCSSCHH-------------HHHH-----HHH
T ss_pred             HHHhchhhhhhhhhhhccCCCHHHHHHHHHHHHHHhC--ccchhhcCccccCCHH-------------HHHH-----HHH
Confidence                     0000    01334555555555443323  9999999999999841             1111     333


Q ss_pred             HHHHhhhcCCcEEEEeecCCCCCchhHHHHHHhhccceEEEe
Q 041690          147 AITHANKKSPCKLLLSDTHLGNSTRLLYIYKRWISSIFTVKG  188 (233)
Q Consensus       147 ~~~~l~~~~~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (233)
                      .+......+.+++++++..       . .+ +++|.++.+..
T Consensus       200 ~~~~~~~~~~tvi~itH~~-------~-~l-~~aDrI~vl~~  232 (281)
T d1r0wa_         200 SCVCKLMANKTRILVTSKM-------E-HL-RKADKILILHQ  232 (281)
T ss_dssp             HCCCCCTTTSEEEEECSCH-------H-HH-HTCSEEEEEET
T ss_pred             HHHHHhhCCCEEEEEechH-------H-HH-HhCCEEEEEEC
Confidence            3222224567777776521       1 34 45899988874

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=98.74  E-value=3.3e-09  Score=82.15  Aligned_cols=28  Identities=25%  Similarity=0.304  Sum_probs=24.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ++|..+.|.||+|||||||++.++....
T Consensus        25 ~~Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          25 EKGNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             ETTCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcccc
Confidence            6999999999999999999998765443

>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=98.70  E-value=5.6e-08  Score=72.71  Aligned_cols=25  Identities=24%  Similarity=0.424  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCAS   45 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~   45 (233)
                      .++|.||||||||||++.++.....
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            3789999999999999999887763

>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=98.65  E-value=1.1e-07  Score=76.44  Aligned_cols=83  Identities=13%  Similarity=0.191  Sum_probs=53.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc------CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ------SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDE   90 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~------~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   90 (233)
                      ...+.++|.||||+|||+++..++......      .+..++.++....+ ....    ..+..              .+
T Consensus        37 ~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~li-ag~~----~~g~~--------------e~   97 (268)
T d1r6bx2          37 RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL-AGTK----YRGDF--------------EK   97 (268)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC----CCCC----CSSCH--------------HH
T ss_pred             CccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHh-ccCc----cchhH--------------HH
Confidence            356789999999999999999999877632      13445555422111 1000    01111              55


Q ss_pred             HHHHHHHHhcccCCCCcEEEEeCCCccccc
Q 041690           91 EIKKYFAAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        91 ~l~~~~~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      .+..++..+.  .....++||||+..++..
T Consensus        98 r~~~i~~~~~--~~~~iIlfiDeih~l~~~  125 (268)
T d1r6bx2          98 RFKALLKQLE--QDTNSILFIDEIHTIIGA  125 (268)
T ss_dssp             HHHHHHHHHS--SSSCEEEEETTTTTTTTS
T ss_pred             HHHHHHHHhh--ccCCceEEecchHHHhcC
Confidence            6777787765  333579999999999974

>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=98.61  E-value=2.1e-08  Score=79.12  Aligned_cols=34  Identities=32%  Similarity=0.326  Sum_probs=25.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +...+|++|||||||||+|+.++....    .....++
T Consensus        34 ~~~~~Ll~GPpG~GKTtla~~la~~~~----~~~~~~~   67 (239)
T d1ixsb2          34 PLEHLLLFGPPGLGKTTLAHVIAHELG----VNLRVTS   67 (239)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHHT----CCEEEEE
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhC----CCeEecc
Confidence            456799999999999999998876443    4455443

>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=98.60  E-value=9.8e-08  Score=74.76  Aligned_cols=38  Identities=26%  Similarity=0.398  Sum_probs=27.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC-CCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS-NANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~-g~~v~yi~   55 (233)
                      +...++|+||||+|||++++.++....... +..+++++
T Consensus        44 ~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n   82 (231)
T d1iqpa2          44 SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELN   82 (231)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEE
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEe
Confidence            445799999999999999999988765221 23455554

>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=98.53  E-value=2e-07  Score=71.23  Aligned_cols=84  Identities=14%  Similarity=0.220  Sum_probs=51.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhc------CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQ------SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDE   90 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~------~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   90 (233)
                      ...+.++|.||||+|||+++..+|......      .+..++.++...       .+. +..-..           +-.+
T Consensus        41 ~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~-------LiA-g~~~rG-----------~~E~  101 (195)
T d1jbka_          41 RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA-------LVA-GAKYRG-----------EFEE  101 (195)
T ss_dssp             SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH-------HHT-TTCSHH-----------HHHH
T ss_pred             cCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHH-------Hhc-cCCccH-----------HHHH
Confidence            356789999999999999999999877632      145555554221       110 000000           0045


Q ss_pred             HHHHHHHHhcccCCCCcEEEEeCCCccccc
Q 041690           91 EIKKYFAAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        91 ~l~~~~~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      .+..++..+.... ..-++||||+..++..
T Consensus       102 rl~~il~e~~~~~-~~iILfIDeih~l~~~  130 (195)
T d1jbka_         102 RLKGVLNDLAKQE-GNVILFIDELHTMVGA  130 (195)
T ss_dssp             HHHHHHHHHHHST-TTEEEEEETGGGGTT-
T ss_pred             HHHHHHHHHhcCC-CcEEEEcchHHHHhcC
Confidence            6666776553222 1458899999999874

>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=98.52  E-value=3e-07  Score=71.07  Aligned_cols=41  Identities=17%  Similarity=0.248  Sum_probs=35.2

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..++.++++.||+|+||||.+.-+|.... ..|.+|..|+..
T Consensus         3 ~~~~~vi~lvGptGvGKTTTiaKLA~~~~-~~g~kV~lit~D   43 (207)
T d1okkd2           3 EPKGRVVLVVGVNGVGKTTTIAKLGRYYQ-NLGKKVMFCAGD   43 (207)
T ss_dssp             CCSSSEEEEECSTTSSHHHHHHHHHHHHH-TTTCCEEEECCC
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEEec
Confidence            34678999999999999999999988777 678999999765

>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=98.51  E-value=1.6e-07  Score=74.35  Aligned_cols=36  Identities=25%  Similarity=0.265  Sum_probs=28.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+...++|+|||||||||+++.+|.    +.+..+.+++.
T Consensus        50 ~~~~~lll~GPpG~GKTt~a~~la~----~~~~~~~~~~~   85 (253)
T d1sxja2          50 GVFRAAMLYGPPGIGKTTAAHLVAQ----ELGYDILEQNA   85 (253)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHH----HTTCEEEEECT
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH----HHHhhhhcccc
Confidence            3556899999999999999998776    44566777753

>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=98.50  E-value=9.8e-08  Score=73.96  Aligned_cols=43  Identities=14%  Similarity=0.101  Sum_probs=36.0

Q ss_pred             ccCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           14 LETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        14 ~~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      |....++++++.||+|+||||.+.-+|.... ..|.+|..++..
T Consensus         5 p~~~~~~vi~lvGp~GvGKTTTiaKLA~~~~-~~g~kV~lit~D   47 (207)
T d1ls1a2           5 PVLKDRNLWFLVGLQGSGKTTTAAKLALYYK-GKGRRPLLVAAD   47 (207)
T ss_dssp             CCCCSSEEEEEECCTTTTHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEecc
Confidence            3445667889999999999999999998887 678899999865

>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=98.50  E-value=9.5e-08  Score=75.84  Aligned_cols=39  Identities=26%  Similarity=0.283  Sum_probs=32.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ++..++|+||||||||++++.++..+....+..++++..
T Consensus        42 ~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~   80 (276)
T d1fnna2          42 HYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYING   80 (276)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEET
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecc
Confidence            557899999999999999999998887555667777753

>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=98.46  E-value=1e-06  Score=69.42  Aligned_cols=26  Identities=31%  Similarity=0.268  Sum_probs=22.7

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +..++|+||||+|||++|+.++..+.
T Consensus        34 ~~~~Ll~Gp~G~GKtt~a~~~~~~l~   59 (239)
T d1njfa_          34 HHAYLFSGTRGVGKTSIARLLAKGLN   59 (239)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeeEEEECCCCCcHHHHHHHHHHHhc
Confidence            45689999999999999999887665

>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=98.41  E-value=3.7e-07  Score=70.73  Aligned_cols=40  Identities=18%  Similarity=0.217  Sum_probs=30.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+.++++.||+|+||||.+.-+|.... ..|.+|..|+..
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~kV~lit~D   49 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK-KKGFKVGLVGAD   49 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH-HTTCCEEEEECC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCCceEEEEee
Confidence            3567788899999999999999998776 678899999865

>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=98.37  E-value=4e-07  Score=70.85  Aligned_cols=24  Identities=38%  Similarity=0.501  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|+||||+|||++++.++....
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~l~   60 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALAREIY   60 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHHhh
Confidence            589999999999999999988765

>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=98.33  E-value=8.6e-07  Score=68.58  Aligned_cols=39  Identities=21%  Similarity=0.263  Sum_probs=33.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ++.++++.||+|+||||.+.-+|.... ..|.+|..|++.
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~kV~lit~D   46 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLARQFE-QQGKSVMLAAGD   46 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHHHH-TTTCCEEEECCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEecc
Confidence            456888999999999999999998777 778899999865

>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=98.33  E-value=1.8e-07  Score=69.74  Aligned_cols=35  Identities=29%  Similarity=0.350  Sum_probs=28.8

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ++++|+||||||||||+.+++..+. ..+..+.++.
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~-~~~~~v~~~~   36 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLK-SSGVPVDGFY   36 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH-HTTCCCEEEE
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEE
Confidence            4689999999999999999998887 5566665554

>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=98.31  E-value=1.5e-07  Score=74.95  Aligned_cols=36  Identities=33%  Similarity=0.397  Sum_probs=28.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ..+..++|+||||||||+||+.+|..    .+..++.++.
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~----~~~~~~~i~~   65 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEE----TQGNVIVIDN   65 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHH----TTTCCEEECT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH----hhcceEEEec
Confidence            35678999999999999999977764    3456777753

>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=98.30  E-value=8.3e-07  Score=68.82  Aligned_cols=40  Identities=18%  Similarity=0.148  Sum_probs=34.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++.++++.||+|+||||.+.-+|.... ..+.+|..|+..
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~-~~~~kV~lit~D   48 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFV-DEGKSVVLAAAD   48 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEEC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCCceEEEeec
Confidence            4667889999999999999999998776 678899999765

>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=98.29  E-value=4.1e-07  Score=67.47  Aligned_cols=41  Identities=15%  Similarity=0.160  Sum_probs=31.3

Q ss_pred             cCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           15 ETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        15 ~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ...+|-+++|+|+|||||||+|+.++..+.......+.+++
T Consensus         2 ~~~~g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~~~   42 (183)
T d1m8pa3           2 RATQGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLL   42 (183)
T ss_dssp             TTTCCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEE
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCchhhhh
Confidence            34588899999999999999999999877634334444543

>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=98.29  E-value=1.4e-06  Score=68.46  Aligned_cols=25  Identities=28%  Similarity=0.344  Sum_probs=22.2

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..++|+|||||||||+++.++....
T Consensus        34 ~~lll~Gp~G~GKTt~~~~la~~l~   58 (252)
T d1sxje2          34 PHLLLYGPNGTGKKTRCMALLESIF   58 (252)
T ss_dssp             CCEEEECSTTSSHHHHHHTHHHHHS
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhhc
Confidence            4589999999999999999998764

>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=98.28  E-value=5.5e-06  Score=63.73  Aligned_cols=27  Identities=15%  Similarity=0.260  Sum_probs=23.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+..++++||||+|||++++.++..+.
T Consensus        23 l~h~lLl~Gp~G~GKtt~a~~~a~~l~   49 (207)
T d1a5ta2          23 GHHALLIQALPGMGDDALIYALSRYLL   49 (207)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cCeEEEEECCCCCcHHHHHHHHHHhcc
Confidence            355699999999999999999998765

>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=98.27  E-value=8.1e-07  Score=63.16  Aligned_cols=42  Identities=14%  Similarity=0.135  Sum_probs=31.6

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++|..++|.+|+|+|||..+...+.......+..++++...
T Consensus         4 l~~~~~~il~~~tGsGKT~~~~~~~~~~~~~~~~~vli~~p~   45 (140)
T d1yksa1           4 LKKGMTTVLDFHPGAGKTRRFLPQILAECARRRLRTLVLAPT   45 (140)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEEESS
T ss_pred             HHcCCcEEEEcCCCCChhHHHHHHHHHHhhhcCceeeeeecc
Confidence            367899999999999999777644443443667888888754

>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=98.26  E-value=1.7e-06  Score=66.38  Aligned_cols=76  Identities=11%  Similarity=0.055  Sum_probs=51.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCC--CeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSN--ANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKY   95 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g--~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~   95 (233)
                      .+..++++||||+|||++|..++........  ..++++..++   .                 ++      .-+.++++
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~---~-----------------~I------~Id~IR~i   67 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG---E-----------------NI------GIDDIRTI   67 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS---S-----------------CB------CHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCc---C-----------------CC------CHHHHHHH
Confidence            6789999999999999999998876652221  2477775332   0                 00      04566666


Q ss_pred             HHHhccc--CCCCcEEEEeCCCcccc
Q 041690           96 FAAFHQH--DKIPTAVVVDDFGDLFD  119 (233)
Q Consensus        96 ~~~~~~~--~~~p~iIvIDei~~~~~  119 (233)
                      ...+...  ....++++||+++.+-.
T Consensus        68 ~~~~~~~~~~~~~KviIId~ad~l~~   93 (198)
T d2gnoa2          68 KDFLNYSPELYTRKYVIVHDCERMTQ   93 (198)
T ss_dssp             HHHHTSCCSSSSSEEEEETTGGGBCH
T ss_pred             HHHHhhCcccCCCEEEEEeCccccch
Confidence            6655432  34468999999988765

>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=98.26  E-value=1.9e-06  Score=72.73  Aligned_cols=82  Identities=20%  Similarity=0.270  Sum_probs=43.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc------CCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecC-HH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ------SNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVED-DE   90 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~------~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~-~~   90 (233)
                      .....+|.||||+|||+++..+|......      .+..++.++... +....                   .|... .+
T Consensus        42 ~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~-l~ag~-------------------~~~g~~e~  101 (387)
T d1qvra2          42 TKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS-LLAGA-------------------KYRGEFEE  101 (387)
T ss_dssp             SCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------------------------CHHH
T ss_pred             CCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhh-hhccc-------------------CcchhHHH
Confidence            44556778999999999999888776632      134566665221 10101                   11111 45


Q ss_pred             HHHHHHHHhcccCCCCcEEEEeCCCccccc
Q 041690           91 EIKKYFAAFHQHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        91 ~l~~~~~~~~~~~~~p~iIvIDei~~~~~~  120 (233)
                      .+..++..+... ..+.++||||+..++..
T Consensus       102 r~~~i~~~~~~~-~~~~ilfide~h~l~~~  130 (387)
T d1qvra2         102 RLKAVIQEVVQS-QGEVILFIDELHTVVGA  130 (387)
T ss_dssp             HHHHHHHHHHTT-CSSEEEEECCC------
T ss_pred             HHHHHHHHhccC-CCceEEEeccHHHHhcC
Confidence            666666655422 12567999999999974

>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=98.26  E-value=3.1e-07  Score=77.02  Aligned_cols=35  Identities=23%  Similarity=0.270  Sum_probs=28.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ++++.++++||||||||++|..+|..+    |.+++.++
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~----~~~~i~in  186 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELC----GGKALNVN  186 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH----CCEEECCS
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHc----CCCEEEEE
Confidence            467799999999999999999887644    46777764

>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=98.25  E-value=4.5e-07  Score=70.57  Aligned_cols=25  Identities=32%  Similarity=0.437  Sum_probs=22.1

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..++|+|||||||||+|+.++....
T Consensus        37 ~~~ll~Gp~G~GKTt~a~~la~~l~   61 (224)
T d1sxjb2          37 PHMIISGMPGIGKTTSVHCLAHELL   61 (224)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCchhhHHHHHHHHh
Confidence            4589999999999999999987765

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=98.23  E-value=5.3e-07  Score=66.45  Aligned_cols=36  Identities=17%  Similarity=0.173  Sum_probs=30.6

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .++.|+|+||||||||+..++..+. ..|.++.++..
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~~l~-~~g~~v~v~~~   38 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIPALC-ARGIRPGLIKH   38 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEEE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHH-HCCCeEEEecc
Confidence            4789999999999999999998887 66777777753

>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=98.23  E-value=3.9e-07  Score=67.60  Aligned_cols=36  Identities=28%  Similarity=0.318  Sum_probs=29.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .|++++|.|||||||||+++.++.    +.|.++++++..
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~----~lg~~~~~~~~d   38 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALAN----LPGVPKVHFHSD   38 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT----CSSSCEEEECTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH----HhCCCEEEecHH
Confidence            578899999999999999996544    567788888754

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=98.12  E-value=9e-07  Score=65.47  Aligned_cols=28  Identities=29%  Similarity=0.278  Sum_probs=23.9

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+++-.++|+|||||||||++..++...
T Consensus         2 ~pk~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           2 QPKGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            3578889999999999999999887643

>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=98.09  E-value=5e-06  Score=63.44  Aligned_cols=40  Identities=20%  Similarity=0.140  Sum_probs=29.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..|..+++.+|+|||||+.+...+.... ..+.+++|+...
T Consensus        38 ~~~~~~il~apTGsGKT~~a~l~i~~~~-~~~~~vl~l~P~   77 (202)
T d2p6ra3          38 FSGKNLLLAMPTAAGKTLLAEMAMVREA-IKGGKSLYVVPL   77 (202)
T ss_dssp             TTCSCEEEECSSHHHHHHHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             HcCCCEEEEcCCCCchhHHHHHHHHHHh-hccCcceeeccc
Confidence            4678899999999999988754333333 456788998764

>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=98.09  E-value=9.1e-06  Score=68.78  Aligned_cols=37  Identities=24%  Similarity=0.388  Sum_probs=30.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      .+...++|+||.||||||.+..+..... ..+.+++-+
T Consensus       156 ~~~GliLvtGpTGSGKSTTl~~~l~~~~-~~~~~i~ti  192 (401)
T d1p9ra_         156 RPHGIILVTGPTGSGKSTTLYAGLQELN-SSERNILTV  192 (401)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHC-CTTSCEEEE
T ss_pred             hhhceEEEEcCCCCCccHHHHHHhhhhc-CCCceEEEe
Confidence            5788999999999999999999888765 555666544

>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=98.06  E-value=9.3e-07  Score=70.29  Aligned_cols=24  Identities=25%  Similarity=0.037  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +++|+||||||||++++.++..+.
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~l~   71 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKRVS   71 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHH
Confidence            467789999999999999998764

>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=98.05  E-value=3.6e-05  Score=58.09  Aligned_cols=39  Identities=18%  Similarity=0.217  Sum_probs=29.9

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +..++|.+|.|+|||..+..++.......+.+++|+...
T Consensus        23 ~~n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P~   61 (200)
T d1wp9a1          23 ETNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPT   61 (200)
T ss_dssp             GSCEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECSS
T ss_pred             cCCeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcCc
Confidence            345789999999999877766655554567889999754

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.03  E-value=1.1e-06  Score=65.28  Aligned_cols=23  Identities=22%  Similarity=0.255  Sum_probs=20.4

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ..++|.|||||||||||+.++..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            45999999999999999988774

>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=98.02  E-value=2.7e-06  Score=62.74  Aligned_cols=33  Identities=12%  Similarity=0.161  Sum_probs=25.9

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ..+++|+|||||||||+|+.++..    .+..++.++
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~----l~~~~~~~~   35 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSV----LPEPWLAFG   35 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH----SSSCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH----cCCCeEEee
Confidence            568999999999999999987764    345565554

>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=98.02  E-value=1.3e-06  Score=64.16  Aligned_cols=24  Identities=21%  Similarity=0.411  Sum_probs=20.6

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..++|.|||||||||+|+.++...
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            468999999999999999887643

>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=98.02  E-value=1.2e-06  Score=69.22  Aligned_cols=50  Identities=28%  Similarity=0.342  Sum_probs=34.9

Q ss_pred             ccccccccc-ccccCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690            3 ESFFDGNQV-EILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus         3 ~~ff~~~~~-~~~~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      +.||++... .......++.++|+||+|+|||+|+++++...    +....|++.
T Consensus        12 ~~f~GR~~el~~l~~~~~~~i~i~G~~G~GKTsLl~~~~~~~----~~~~~~i~~   62 (283)
T d2fnaa2          12 KDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINEL----NLPYIYLDL   62 (283)
T ss_dssp             GGSCCCHHHHHHHHHTCSSEEEEEESTTSSHHHHHHHHHHHH----TCCEEEEEG
T ss_pred             hhCCChHHHHHHHHhccCCEEEEEcCCCCcHHHHHHHHHHHC----CCCeEEEEe
Confidence            456666533 11122477899999999999999999887643    456777764

>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=98.00  E-value=2.7e-06  Score=63.18  Aligned_cols=35  Identities=17%  Similarity=0.218  Sum_probs=28.6

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+++|.|||||||||++..++..+. ..+.++..++
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~-~~~~~~~~~~   36 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLR-KEGVNYKMVS   36 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH-TTTCCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH-HcCCCeEEEe
Confidence            6799999999999999999988776 5566666554

>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=98.00  E-value=1.8e-06  Score=63.65  Aligned_cols=27  Identities=26%  Similarity=0.293  Sum_probs=23.4

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+.+++|.|||||||||+++.++..+
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            367889999999999999999887754

>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=97.98  E-value=2.5e-06  Score=64.62  Aligned_cols=34  Identities=15%  Similarity=0.217  Sum_probs=26.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .++.+++|.|||||||||+|..++....      +.++++
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~g------~~~i~~   37 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDFG------WVHLSA   37 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHHC------CEEEEH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHC------CceEch
Confidence            3567899999999999999998876432      556664

>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=97.98  E-value=1.8e-06  Score=63.61  Aligned_cols=30  Identities=30%  Similarity=0.380  Sum_probs=22.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      .++|.|||||||||+|+.++...    |.+++.+
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l----~~~~i~~   35 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKS----GLKYINV   35 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHH----CCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH----CCcEEec
Confidence            47799999999999999877643    4455443

>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=97.98  E-value=1.7e-06  Score=62.80  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+.|.|||||||||+|+.+|..+
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47777999999999999887744

>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=97.96  E-value=2.4e-05  Score=65.14  Aligned_cols=40  Identities=18%  Similarity=0.277  Sum_probs=28.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh---cCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS---QSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~---~~g~~v~yi~~e   57 (233)
                      .++.++|.||||||||+++..+...+..   ..+.+++.....
T Consensus       162 ~~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApT  204 (359)
T d1w36d1         162 TRRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPT  204 (359)
T ss_dssp             TBSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSS
T ss_pred             cCCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCc
Confidence            5789999999999999988765544431   345567666543

>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=97.96  E-value=2.7e-05  Score=55.28  Aligned_cols=37  Identities=14%  Similarity=0.123  Sum_probs=29.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ......+|.+|.|+|||+++..++.    ..|.+++++...
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~----~~~~~vli~~P~   42 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYA----AQGYKVLVLNPS   42 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHH----TTTCCEEEEESC
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHH----HcCCcEEEEcCh
Confidence            4567889999999999998765433    567889998765

>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=97.96  E-value=1.5e-05  Score=62.47  Aligned_cols=29  Identities=21%  Similarity=0.292  Sum_probs=24.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCAS   45 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~   45 (233)
                      ...+.++|+||+.+|||+++++++..+..
T Consensus        39 ~~~~~~iiTGpN~~GKSt~lk~i~l~~~l   67 (234)
T d1wb9a2          39 PQRRMLIITGPNMGGKSTYMRQTALIALM   67 (234)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCceEEEEeccCchhhHHHHHHHHHHHHH
Confidence            34578999999999999999999877653

>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=97.95  E-value=2.1e-06  Score=64.64  Aligned_cols=37  Identities=14%  Similarity=0.058  Sum_probs=28.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +|.++.|+|+|||||||+|+.++..+. .......++.
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l~-~~~~~~~~~~   54 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYLV-CHGIPCYTLD   54 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHHH-HTTCCEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-hcCCCccchh
Confidence            577889999999999999999988776 4444444443

>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=97.95  E-value=2.3e-06  Score=61.88  Aligned_cols=32  Identities=25%  Similarity=0.298  Sum_probs=23.3

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+++|+|||||||||+|+.++..     ...+.+++.
T Consensus         3 klIii~G~pGsGKTTla~~L~~~-----~~~~~~~~~   34 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK-----NPGFYNINR   34 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH-----STTEEEECH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh-----CCCCEEech
Confidence            36889999999999999976542     223666653

>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=97.95  E-value=2.9e-06  Score=64.35  Aligned_cols=34  Identities=15%  Similarity=0.247  Sum_probs=27.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+-++++|.|||||||||+|..++...      .+.|+++
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~------g~~~is~   39 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY------SFVHLSA   39 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS------SCEEEEH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh------CCeEEeh
Confidence            356788999999999999999887643      3677775

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.93  E-value=2.3e-05  Score=64.03  Aligned_cols=34  Identities=21%  Similarity=0.232  Sum_probs=27.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      |...+++.||||+|||.||+++|....    .+.+.++
T Consensus        51 p~~~~lf~Gp~GvGKT~lak~la~~l~----~~~i~~d   84 (315)
T d1r6bx3          51 PVGSFLFAGPTGVGKTEVTVQLSKALG----IELLRFD   84 (315)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHHT----CEEEEEE
T ss_pred             CceEEEEECCCcchhHHHHHHHHhhcc----CCeeEec
Confidence            555789999999999999999988654    5666665

>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=97.92  E-value=1.2e-05  Score=65.92  Aligned_cols=38  Identities=21%  Similarity=0.180  Sum_probs=30.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .|..+++++||+|+|||.+|+.+|..+. ..+.+++.++
T Consensus        51 kp~~~~lf~Gp~G~GKt~lak~la~~l~-~~~~~~~~~~   88 (315)
T d1qvra3          51 RPIGSFLFLGPTGVGKTELAKTLAATLF-DTEEAMIRID   88 (315)
T ss_dssp             SCSEEEEEBSCSSSSHHHHHHHHHHHHH-SSGGGEEEEC
T ss_pred             CCceEEEEECCCcchHHHHHHHHHHHhc-CCCcceEEEe
Confidence            3455788999999999999999998876 4455677775

>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=97.91  E-value=4.8e-06  Score=62.77  Aligned_cols=33  Identities=27%  Similarity=0.373  Sum_probs=26.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      +|-.++|.|||||||||+|..+|....      +.||++
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~~~g------~~~i~~   34 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAKNFC------VCHLAT   34 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHT------CEEEEH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHHHhC------CeEEeH
Confidence            667788899999999999998876443      667764

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=97.90  E-value=1.9e-05  Score=65.84  Aligned_cols=81  Identities=16%  Similarity=0.192  Sum_probs=45.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCCcccccccccccccCCchhhhcceEEEEecCHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRSRLQSKRPYLSQSIDPSSHVFKLIQMKYVEDDEEIKKYF   96 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~   96 (233)
                      .+...+|+.||+|||||-||+++|...    +.+.+-++.....+  ..+.    +.             +....+.+++
T Consensus        66 ~p~~niLfiGPTGvGKTElAk~LA~~~----~~~~ir~D~s~~~e--~gyv----g~-------------dv~~~i~~l~  122 (364)
T d1um8a_          66 LSKSNILLIGPTGSGKTLMAQTLAKHL----DIPIAISDATSLTE--AGYV----GE-------------DVENILTRLL  122 (364)
T ss_dssp             CCCCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEGGGCC---------------------------CTHHHHHHH
T ss_pred             CCCcceeeeCCCCccHHHHHHHHHhhc----ccceeehhhhhccc--chhh----Hh-------------hhccchhhhh
Confidence            366779999999999999999888643    45566665221000  0000    00             0033455554


Q ss_pred             HHhc--ccCCCCcEEEEeCCCccccc
Q 041690           97 AAFH--QHDKIPTAVVVDDFGDLFDD  120 (233)
Q Consensus        97 ~~~~--~~~~~p~iIvIDei~~~~~~  120 (233)
                      ....  ......++|++||++...+.
T Consensus       123 ~~~~~~v~~~~~~iv~lDEieK~~~~  148 (364)
T d1um8a_         123 QASDWNVQKAQKGIVFIDEIDKISRL  148 (364)
T ss_dssp             HHTTTCHHHHTTSEEEEETGGGC---
T ss_pred             hhchhHHHHhhcccchhhhhhhhccc
Confidence            4331  11222689999999887763

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.90  E-value=2.5e-06  Score=66.37  Aligned_cols=25  Identities=36%  Similarity=0.583  Sum_probs=22.1

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..++|+|||||||||+++.++..+.
T Consensus        34 ~~lll~Gp~G~GKTtl~~~i~~~l~   58 (237)
T d1sxjd2          34 PHMLFYGPPGTGKTSTILALTKELY   58 (237)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCChHHHHHHHHHHHc
Confidence            4589999999999999999998764

>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=97.89  E-value=1.2e-05  Score=62.58  Aligned_cols=27  Identities=30%  Similarity=0.455  Sum_probs=23.3

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCAS   45 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~   45 (233)
                      ..+++|+||+.+||||++++++.....
T Consensus        35 ~~~~iiTGpN~~GKSt~lk~i~l~~il   61 (224)
T d1ewqa2          35 HELVLITGPNMAGKSTFLRQTALIALL   61 (224)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCccccchhhhhhHHHHHH
Confidence            458999999999999999999877643

>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=97.88  E-value=3.8e-06  Score=62.77  Aligned_cols=25  Identities=16%  Similarity=0.287  Sum_probs=21.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .++..+++.|+|||||||++++++.
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            5678999999999999999997643

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=97.87  E-value=2.7e-05  Score=63.93  Aligned_cols=36  Identities=11%  Similarity=0.179  Sum_probs=27.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+..++|+||+||||||++..++....  ...+++.|-
T Consensus       165 ~~~nili~G~tgSGKTT~l~al~~~i~--~~~rivtiE  200 (323)
T d1g6oa_         165 IGKNVIVCGGTGSGKTTYIKSIMEFIP--KEERIISIE  200 (323)
T ss_dssp             HTCCEEEEESTTSSHHHHHHHHGGGSC--TTCCEEEEE
T ss_pred             hCCCEEEEeeccccchHHHHHHhhhcc--cccceeecc
Confidence            456799999999999999998775443  356677763

>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=97.85  E-value=8.1e-06  Score=60.13  Aligned_cols=37  Identities=16%  Similarity=0.154  Sum_probs=30.8

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .++.|.|++|||||||+..++..+. ..|.+|..+-.+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~-~~g~~v~vik~d   38 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAV-REGWRVGTVKHH   38 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH-hCCCeEEEEEec
Confidence            3678999999999999999998888 667788777533

>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=97.81  E-value=9.6e-06  Score=60.81  Aligned_cols=38  Identities=18%  Similarity=0.200  Sum_probs=29.6

Q ss_pred             CCC-EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDP-ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~-~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .++ ++.|.||+||||||||.+++.... ..+..+..++.
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~l~-~~~~~~~~~~~   58 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQTLR-EQGISVCVFHM   58 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHHH-HTTCCEEEEEG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhc-cccccceeccc
Confidence            444 466999999999999999987777 56666666654

>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=97.79  E-value=1.1e-05  Score=61.25  Aligned_cols=36  Identities=14%  Similarity=0.108  Sum_probs=29.4

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +.++++.|.|||||||++.+++.... ..+.++.-++
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~-~~~~~~~~~~   37 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLN-FIGVPTREFN   37 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH-hcCCCCeEEc
Confidence            46789999999999999999998776 5566666665

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.79  E-value=7.4e-06  Score=62.82  Aligned_cols=31  Identities=23%  Similarity=0.341  Sum_probs=25.6

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .++.|.|||||||||+|+.++....      ..|+++
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~g------l~~iSt   34 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEALQ------WHLLDS   34 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT------CEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC------CcEECH
Confidence            4899999999999999998877554      667764

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.76  E-value=1.2e-05  Score=59.75  Aligned_cols=35  Identities=20%  Similarity=0.290  Sum_probs=29.1

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+++|.|+|||||||++..++..+. ..+..+..++
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~-~~~~~~~~~~   36 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILD-NQGINNKIIN   36 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHH-TTTCCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEEE
Confidence            3678999999999999999988777 6677777665

>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=97.75  E-value=8.1e-06  Score=61.77  Aligned_cols=33  Identities=15%  Similarity=0.218  Sum_probs=26.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+.+++|.|||||||||+|..++.    ..|  +.++++
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~----~~g--~~~is~   39 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQ----KYG--YTHLST   39 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHH----HTC--CEEEEH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH----HhC--CeeEec
Confidence            568899999999999999998776    333  566664

>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=97.75  E-value=8.3e-06  Score=61.51  Aligned_cols=31  Identities=13%  Similarity=0.222  Sum_probs=24.7

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .++.|.|||||||||.|..++....      ..||++
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~g------~~~i~~   32 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKYG------YTHLSA   32 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC------CEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC------CceEcH
Confidence            4688999999999999998876442      566765

>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=97.71  E-value=9.5e-06  Score=61.06  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      -.+.|.|||||||||+|..++...
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999877644

>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=97.71  E-value=1e-05  Score=60.23  Aligned_cols=23  Identities=22%  Similarity=0.202  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|.|||||||||+|+.++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999999887744

>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=97.71  E-value=1.3e-05  Score=61.72  Aligned_cols=41  Identities=12%  Similarity=0.165  Sum_probs=34.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+|.++.|+|.|||||||++..++..+....+.++++++..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD   62 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGD   62 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcch
Confidence            58889999999999999999998876653456788888754

>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=97.70  E-value=1.2e-05  Score=59.30  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=19.0

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++ |.|+|||||||+++.++..+.
T Consensus         3 ~Iv-liG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           3 KAV-LVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             SEE-EECSTTSSHHHHHHHHHHHHT
T ss_pred             cEE-EECCCCCCHHHHHHHHHHHhC
Confidence            444 559999999999998887543

>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=97.69  E-value=1.4e-05  Score=59.19  Aligned_cols=24  Identities=21%  Similarity=0.314  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+.|.|+|||||||+++.+|..+.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            356789999999999998887444

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=97.68  E-value=1.3e-05  Score=61.67  Aligned_cols=31  Identities=16%  Similarity=0.307  Sum_probs=24.6

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      -.+.|.|||||||||+|+.++..+.      +.|+++
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg------~~~ist   34 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFG------FTYLDT   34 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHC------CEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC------CcEECH
Confidence            3567889999999999998887554      567764

>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=97.65  E-value=1.4e-05  Score=59.61  Aligned_cols=23  Identities=35%  Similarity=0.491  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|.|||||||||+|..++...
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47788999999999999887644

>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=97.65  E-value=1.7e-05  Score=58.24  Aligned_cols=23  Identities=22%  Similarity=0.216  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhh
Q 041690           22 TLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +.|.|+|||||||+++.+|..+.
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            66779999999999998887554

>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=97.64  E-value=0.00033  Score=50.06  Aligned_cols=38  Identities=18%  Similarity=0.265  Sum_probs=30.0

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      |...+++||-.|||||-+.+.+.... ..|.+++.+...
T Consensus         2 G~L~~i~GpMfsGKTteLi~~~~~~~-~~~~kv~~ikp~   39 (139)
T d2b8ta1           2 GWIEFITGPMFAGKTAELIRRLHRLE-YADVKYLVFKPK   39 (139)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEEEEC
T ss_pred             cEEEEEEccccCHHHHHHHHHHHHHH-HCCCcEEEEEEc
Confidence            56789999999999997777776666 668888877543

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.63  E-value=0.00024  Score=50.39  Aligned_cols=39  Identities=15%  Similarity=0.216  Sum_probs=32.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +|...+|+||-.|||||-+.+.+.... ..|.+++.+...
T Consensus         1 ~G~L~li~GpMfsGKTt~Li~~~~~~~-~~g~~v~~ikp~   39 (133)
T d1xbta1           1 RGQIQVILGPMFSGKSTELMRRVRRFQ-IAQYKCLVIKYA   39 (133)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHH-TTTCCEEEEEET
T ss_pred             CcEEEEEEecccCHHHHHHHHHHHHHH-HcCCcEEEEecc
Confidence            578899999999999999998887766 668888887643

>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=97.62  E-value=2.1e-05  Score=59.44  Aligned_cols=33  Identities=12%  Similarity=0.163  Sum_probs=25.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      +.-.++|.|||||||||+|..++...    |  +.++++
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~~----g--~~~is~   37 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKHF----E--LKHLSS   37 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHB----C--CEEEEH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHH----C--CeEEcH
Confidence            44567788999999999999887633    3  666765

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.62  E-value=4.5e-06  Score=65.31  Aligned_cols=40  Identities=15%  Similarity=0.087  Sum_probs=32.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..|..+++.+|+|+|||+.+...+.... ..|.+++|+...
T Consensus        56 l~g~~~~i~apTGsGKT~~~~~~~~~~~-~~~~rvliv~Pt   95 (237)
T d1gkub1          56 LRKESFAATAPTGVGKTSFGLAMSLFLA-LKGKRCYVIFPT   95 (237)
T ss_dssp             HTTCCEECCCCBTSCSHHHHHHHHHHHH-TTSCCEEEEESC
T ss_pred             HCCCCEEEEecCCChHHHHHHHHHHHHH-HhcCeEEEEecc
Confidence            4788899999999999988776666666 567889999864

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=97.62  E-value=0.00028  Score=50.55  Aligned_cols=40  Identities=13%  Similarity=0.182  Sum_probs=33.9

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ...|...+|+||-.|||||-+.+.+.... ..|.+++.+..
T Consensus         4 ~~~G~l~lI~GpMfSGKTteLi~~~~~~~-~~g~~vl~i~~   43 (141)
T d1xx6a1           4 KDHGWVEVIVGPMYSGKSEELIRRIRRAK-IAKQKIQVFKP   43 (141)
T ss_dssp             TTCCEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEEE
T ss_pred             CcceeEEEEEeccccHHHHHHHHHHHHhh-hcCCcEEEEEe
Confidence            45889999999999999999998887776 66888888764

>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=97.62  E-value=1.7e-05  Score=59.31  Aligned_cols=23  Identities=22%  Similarity=0.212  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|.|||||||||+|..++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36789999999999999888754

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=97.59  E-value=2.6e-05  Score=66.71  Aligned_cols=35  Identities=26%  Similarity=0.271  Sum_probs=28.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      ..+.+|+.||+|||||.||+.+|..+    +-+++.++.
T Consensus        48 ~ksNILliGPTGvGKTlLAr~LAk~l----~VPFv~~da   82 (443)
T d1g41a_          48 TPKNILMIGPTGVGKTEIARRLAKLA----NAPFIKVEA   82 (443)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEG
T ss_pred             ccccEEEECCCCCCHHHHHHHHHHHh----CCCEEEeec
Confidence            45689999999999999999888733    567777764

>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=97.59  E-value=1.9e-05  Score=58.79  Aligned_cols=23  Identities=22%  Similarity=0.245  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .++|.|||||||||+|..++...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999887644

>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=97.58  E-value=1.9e-05  Score=58.98  Aligned_cols=30  Identities=20%  Similarity=0.305  Sum_probs=23.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .++|.|||||||||+|+.++....      +.++++
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g------~~~i~~   33 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFH------AAHLAT   33 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHC------CEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC------CceEec
Confidence            467889999999999998876432      556654

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

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: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=97.55  E-value=8.8e-05  Score=59.33  Aligned_cols=41  Identities=15%  Similarity=0.216  Sum_probs=29.8

Q ss_pred             CCCCCEEEEEcCCCCcHHH-HHHHHHHHhhhcCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTS-LLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTt-La~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..+++.++|.+|+|+|||+ ++..++.... ..+.+++|+...
T Consensus         6 ~~~~~~~lv~~~TGsGKT~~~l~~~~~~~~-~~~~~~lvi~Pt   47 (305)
T d2bmfa2           6 FRKKRLTIMDLHPGAGKTKRYLPAIVREAI-KRGLRTLILAPT   47 (305)
T ss_dssp             SSTTCEEEECCCTTSSTTTTHHHHHHHHHH-HHTCCEEEEESS
T ss_pred             hhcCCcEEEEECCCCCHHHHHHHHHHHHHH-hcCCEEEEEccH
Confidence            4578999999999999996 4434443333 457789998754

>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=97.51  E-value=5.8e-05  Score=57.87  Aligned_cols=37  Identities=11%  Similarity=0.147  Sum_probs=32.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +|..+.|.|+.||||||++..++..+. ..|.+++++.
T Consensus         2 rG~lI~ieG~dGsGKsT~~~~L~~~L~-~~g~~v~~~~   38 (209)
T d1nn5a_           2 RGALIVLEGVDRAGKSTQSRKLVEALC-AAGHRAELLR   38 (209)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEe
Confidence            688899999999999999999988877 6688888775

>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=97.51  E-value=8.2e-05  Score=55.68  Aligned_cols=32  Identities=16%  Similarity=0.327  Sum_probs=26.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+||.|+.+||||.+|.+++     ..+.+++||.|-
T Consensus         1 iiLVtGGarSGKS~~AE~l~-----~~~~~~~YiAT~   32 (180)
T d1c9ka_           1 MILVTGGARSGKSRHAEALI-----GDAPQVLYIATS   32 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHH-----CSCSSEEEEECC
T ss_pred             CEEEECCCCccHHHHHHHHH-----hcCCCcEEEEcc
Confidence            37999999999999998653     346789999864

>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=97.51  E-value=3.1e-05  Score=57.85  Aligned_cols=26  Identities=23%  Similarity=0.442  Sum_probs=22.4

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      |..++|.|||||||||++..+.....
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCC
Confidence            67899999999999999998776543

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=97.48  E-value=0.0003  Score=56.96  Aligned_cols=41  Identities=12%  Similarity=0.135  Sum_probs=32.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc-CCCeEEEEecCC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ-SNANVVFMCNRS   58 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~-~g~~v~yi~~e~   58 (233)
                      .+-++.|.|++||||||+|+.+...+... .+.+|..|++.+
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~  120 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDG  120 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGG
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeee
Confidence            45678899999999999999988776632 357788888765

>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=97.36  E-value=8.7e-05  Score=56.52  Aligned_cols=37  Identities=14%  Similarity=0.060  Sum_probs=29.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +|..+.|.|+.||||||++..++..+. ..|.+.+.+.
T Consensus         1 rgkfIviEG~dGsGKsT~~~~L~~~L~-~~g~~~~~~~   37 (210)
T d4tmka_           1 RSKYIVIEGLEGAGKTTARNVVVETLE-QLGIRDMVFT   37 (210)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHH-HTTCCCEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH-hCCCCeEEEe
Confidence            578899999999999999999988777 5555544443

>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=97.34  E-value=0.0012  Score=52.65  Aligned_cols=37  Identities=30%  Similarity=0.321  Sum_probs=29.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVF   53 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~y   53 (233)
                      .+|..++|.||+|+|||+|+.+++.+........+++
T Consensus        41 grGQr~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~   77 (289)
T d1xpua3          41 GRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLM   77 (289)
T ss_dssp             BTTCEEEEEECSSSSHHHHHHHHHHHHHHHCTTSEEE
T ss_pred             cCCCeeeEeCCCCCCHHHHHHHHHHHHhhcCCCeEEE
Confidence            5999999999999999999999998776343333433

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.31  E-value=0.00012  Score=59.98  Aligned_cols=38  Identities=18%  Similarity=0.239  Sum_probs=31.5

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+...+.|+||||+|||||...++.... ..|.+|..+.
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~~~~-~~g~~vavla   89 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGMLLI-REGLKVAVIA   89 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHHHHH-hcCCceeeec
Confidence            4567789999999999999999998777 5677776665

>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=97.29  E-value=0.0014  Score=49.06  Aligned_cols=22  Identities=41%  Similarity=0.661  Sum_probs=19.5

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ..++|.|+||+|||||..++..
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~   25 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTT   25 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3689999999999999998865

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.28  E-value=7.5e-05  Score=56.97  Aligned_cols=38  Identities=18%  Similarity=0.220  Sum_probs=27.4

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhc----CCCeEEEEecC
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQ----SNANVVFMCNR   57 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~----~g~~v~yi~~e   57 (233)
                      -++.|+||+|||||||+..++..+...    .+..+..++..
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~~l~~~~~~~~~~~~~vi~~D   44 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQD   44 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhchhccccCCCceEEEecc
Confidence            467899999999999999988766421    13346666543

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.24  E-value=0.00035  Score=53.11  Aligned_cols=36  Identities=17%  Similarity=0.176  Sum_probs=27.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+...+|..|+|+|||.++..++.    +.+.+++++...
T Consensus        84 ~~~~~ll~~~tG~GKT~~a~~~~~----~~~~~~Liv~p~  119 (206)
T d2fz4a1          84 VDKRGCIVLPTGSGKTHVAMAAIN----ELSTPTLIVVPT  119 (206)
T ss_dssp             TTSEEEEEESSSTTHHHHHHHHHH----HSCSCEEEEESS
T ss_pred             hCCCcEEEeCCCCCceehHHhHHH----HhcCceeEEEcc
Confidence            445677889999999998876554    445788888754

>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=97.23  E-value=3.6e-05  Score=63.07  Aligned_cols=25  Identities=20%  Similarity=0.046  Sum_probs=21.9

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +.++||.||||||||+|++.++..+
T Consensus        28 ~h~vLl~G~pG~GKT~lar~~~~iL   52 (333)
T d1g8pa_          28 IGGVLVFGDRGTGKSTAVRALAALL   52 (333)
T ss_dssp             GCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             CCeEEEECCCCccHHHHHHHHHHhC
Confidence            4579999999999999999888654

>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=97.23  E-value=8.8e-05  Score=55.85  Aligned_cols=23  Identities=35%  Similarity=0.563  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhh
Q 041690           22 TLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +.|.||||||||||+..++....
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            77999999999999998876544

>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=97.22  E-value=8.6e-05  Score=55.65  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .++|.||||||||||+..++....
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            478999999999999998876543

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.22  E-value=0.00014  Score=56.05  Aligned_cols=33  Identities=27%  Similarity=0.395  Sum_probs=26.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      +++|.||+|+|||||+..+.....  .++.+..|+
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~--~~~~~~ivn   34 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE--DNYKVAYVN   34 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT--TTSCEEEEE
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh--hCCeEEEEe
Confidence            588999999999999999876543  455666664

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.15  E-value=0.00024  Score=57.96  Aligned_cols=38  Identities=13%  Similarity=0.143  Sum_probs=30.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .+...+-|+||||+|||||.-.++.... ..|.++..+.
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~~~~-~~g~~vaVia   86 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGSLLT-AAGHKVAVLA   86 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHHHHh-hcCCceeeee
Confidence            3556788999999999999999998766 5566666654

>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=97.13  E-value=0.00015  Score=55.43  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=22.0

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      |..++|.||+|+|||||...++...
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            7889999999999999999877643

>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=97.10  E-value=0.00018  Score=57.41  Aligned_cols=39  Identities=10%  Similarity=0.020  Sum_probs=26.1

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhc---CCCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQ---SNANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~---~g~~v~yi~~e   57 (233)
                      ...++|.||||||||+.+..-+..+...   ...++++++..
T Consensus        14 ~~~~lI~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~t   55 (306)
T d1uaaa1          14 TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFT   55 (306)
T ss_dssp             SSEEEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESS
T ss_pred             CCCEEEEeeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeCc
Confidence            4558899999999998776543333212   23578888753

>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=97.05  E-value=0.00013  Score=58.59  Aligned_cols=40  Identities=15%  Similarity=0.262  Sum_probs=29.4

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      +..++.|+|++||||||++..+...+. ..+.++..|+...
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~-~~~v~~~iI~~Ds   42 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFR-REGVKAVSIEGDA   42 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH-HHTCCEEEEEGGG
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHh-hcCCCeEEEeCCC
Confidence            445899999999999999999887776 5567778887553

>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=97.05  E-value=0.00026  Score=56.95  Aligned_cols=40  Identities=15%  Similarity=0.098  Sum_probs=26.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhc---CCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQ---SNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~---~g~~v~yi~~e   57 (233)
                      ++..++|.|+|||||||.+.+-+..+...   ...++++++..
T Consensus        23 ~~g~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t   65 (318)
T d1pjra1          23 TEGPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFT   65 (318)
T ss_dssp             CSSCEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESS
T ss_pred             CCCCEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEecc
Confidence            44568899999999999876644333312   22467887653

>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=97.02  E-value=0.00032  Score=55.86  Aligned_cols=39  Identities=15%  Similarity=0.182  Sum_probs=28.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhh---cCCCeEEEEec
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCAS---QSNANVVFMCN   56 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~---~~g~~v~yi~~   56 (233)
                      ...++.|+|++|+||||||.++......   ..-..++|++-
T Consensus        43 ~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~v   84 (277)
T d2a5yb3          43 DSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKD   84 (277)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEEC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEe
Confidence            4568889999999999999987654321   12345778763

>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=97.01  E-value=0.0023  Score=50.70  Aligned_cols=37  Identities=22%  Similarity=0.204  Sum_probs=29.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      .+|..++|.|++|+|||+|+.+++.+.. .....++|+
T Consensus        65 g~GQr~~Ifg~~g~GKt~l~~~~~~~~~-~~~~v~V~~  101 (276)
T d1fx0a3          65 GRGQRELIIGDRQTGKTAVATDTILNQQ-GQNVICVYV  101 (276)
T ss_dssp             BTTCBCBEEESSSSSHHHHHHHHHHTCC-TTTCEEEEE
T ss_pred             cCCceEeeccCCCCChHHHHHHHHhhhc-ccCceeeee
Confidence            4999999999999999999998766544 444456665

>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=97.00  E-value=0.0002  Score=51.24  Aligned_cols=22  Identities=27%  Similarity=0.555  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .++|.|+||||||||+.+++..
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999988653

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=96.99  E-value=0.00023  Score=59.91  Aligned_cols=45  Identities=20%  Similarity=0.247  Sum_probs=36.3

Q ss_pred             cccCCCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecCC
Q 041690           13 ILETHVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNRS   58 (233)
Q Consensus        13 ~~~~~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e~   58 (233)
                      .+.....++++|.|++|+|||+++..++.... ..|..++.+|..+
T Consensus        44 ~~~~~~~~H~~I~G~tGsGKT~~l~~li~~~~-~~g~~~iiiD~kg   88 (433)
T d1e9ra_          44 MPRDAEPRHLLVNGATGTGKSVLLRELAYTGL-LRGDRMVIVDPNG   88 (433)
T ss_dssp             CCGGGGGGCEEEEECTTSSHHHHHHHHHHHHH-HTTCEEEEEEETT
T ss_pred             cCCCcccceEEEEeCCCCcHHHHHHHHHHHHH-hCCCCEEEEeCCh
Confidence            33445667899999999999999988887777 6688888888874

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.99  E-value=0.00032  Score=56.23  Aligned_cols=41  Identities=15%  Similarity=0.195  Sum_probs=29.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC--CCeEEEEecCC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS--NANVVFMCNRS   58 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~--g~~v~yi~~e~   58 (233)
                      ++-++.|.|++|||||||+..+...+....  ...+..++..+
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Dd   68 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDD   68 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGG
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCC
Confidence            345777999999999999998877665332  34577776543

>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=96.97  E-value=0.00039  Score=52.33  Aligned_cols=34  Identities=15%  Similarity=0.244  Sum_probs=28.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .|.|.|+.||||||++..++..+. ..|.+|.++.
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~-~~g~~v~~~~   35 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFR-AAGRSVATLA   35 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HCCCCEEEEe
Confidence            478899999999999999987776 5677888774

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=96.93  E-value=0.00023  Score=52.93  Aligned_cols=25  Identities=16%  Similarity=0.244  Sum_probs=21.9

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .|..++|.|+||+||||++..+...
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc
Confidence            6788999999999999999976653

>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=96.93  E-value=0.00067  Score=53.76  Aligned_cols=40  Identities=23%  Similarity=0.362  Sum_probs=36.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ...+.+.++|--|+||||++..+|..++ +.|.+|+.||..
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA-~~G~rVLlvD~D   45 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLA-EQGKRVLLVSTD   45 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHH-HCCCCEEEEeCC
Confidence            3567889999999999999999999999 779999999966

>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=96.88  E-value=0.00062  Score=54.09  Aligned_cols=38  Identities=26%  Similarity=0.253  Sum_probs=31.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      .+|..++|+|++|+|||+|+.+++.+....+...++|+
T Consensus        66 gkGQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~  103 (276)
T d2jdid3          66 AKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFA  103 (276)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEE
T ss_pred             cCCCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEE
Confidence            39999999999999999999999987663344456775

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=96.87  E-value=0.00021  Score=53.21  Aligned_cols=24  Identities=21%  Similarity=0.250  Sum_probs=21.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .|..++|.||+|+|||+++..+..
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Confidence            678899999999999999997664

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.85  E-value=0.00036  Score=50.84  Aligned_cols=28  Identities=21%  Similarity=0.194  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|.+++|.|+=|+|||||++.++..+.
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcc
Confidence            5788999999999999999999988765

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.84  E-value=0.00038  Score=51.75  Aligned_cols=24  Identities=13%  Similarity=0.145  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ..+.|.||+|+|||||+..++...
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            468899999999999999877543

>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=96.83  E-value=0.0005  Score=51.87  Aligned_cols=35  Identities=11%  Similarity=0.013  Sum_probs=31.2

Q ss_pred             EEEEEcC-CCCcHHHHHHHHHHHhhhcCCCeEEEEec
Q 041690           21 ITLLSGP-PCCGKTSLLFQFAYNCASQSNANVVFMCN   56 (233)
Q Consensus        21 ~~ll~Gp-pGsGKTtLa~~~a~~~~~~~g~~v~yi~~   56 (233)
                      .+.|+|- +|+||||++..+|..++ +.|.+|++++.
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa-~~G~rVl~id~   38 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAK-AAGYRTAGYKP   38 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHH-HTTCCEEEECS
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHH-HCCCeEEEECc
Confidence            5778998 59999999999999999 77999999974

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=96.81  E-value=0.00032  Score=51.82  Aligned_cols=26  Identities=15%  Similarity=0.185  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .|..++|.|+||+|||+++..+....
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHcC
Confidence            67889999999999999999776643

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.79  E-value=0.00091  Score=51.26  Aligned_cols=147  Identities=11%  Similarity=0.110  Sum_probs=70.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhh--cCCCeEEEEecCCccccc-cc---cccccc-----------CCchh---
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCAS--QSNANVVFMCNRSRLQSK-RP---YLSQSI-----------DPSSH---   76 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~--~~g~~v~yi~~e~~l~~~-~~---~~~~~~-----------~~~~~---   76 (233)
                      ..|..+++..|+|||||.-..--+.....  ..+..++++....++... ..   .+....           .....   
T Consensus        47 l~g~dvl~~a~TGsGKTlayllp~l~~i~~~~~~~~alil~Pt~eL~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  126 (218)
T d2g9na1          47 IKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQK  126 (218)
T ss_dssp             HHTCCEEEECCTTSSHHHHHHHHHHHHCCTTCCSCCEEEECSSHHHHHHHHHHHHHHHTTTTCCEEEECC--CCCSTTTS
T ss_pred             HcCCCEEEEcccchhhhhhhhhhhhheecccccCccEEEEcccchhhhhHHHHHhhhccccceeEEeeecccchhHHHHH
Confidence            47888999999999999755433322221  234456666543111000 00   000000           00000   


Q ss_pred             hh-cceEEEEecCHHHHHHHHHHhcccCCCCcEEEEeCCCccccccccccccCCcchhhHHHHHHHHHHHHHHHHhhhcC
Q 041690           77 VF-KLIQMKYVEDDEEIKKYFAAFHQHDKIPTAVVVDDFGDLFDDRTCQERYTNPRGRDLAMVRTLALCYNAITHANKKS  155 (233)
Q Consensus        77 ~~-~~i~~~~~~~~~~l~~~~~~~~~~~~~p~iIvIDei~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~  155 (233)
                      .. +... ..+.....+..++..-...-...+.+|+||++.+++..           .    ...   +...+..+ .+.
T Consensus       127 ~~~~~~~-IvV~TP~rl~~~l~~~~~~~~~l~~lVlDEaD~ll~~~-----------f----~~~---~~~Il~~~-~~~  186 (218)
T d2g9na1         127 LQMEAPH-IIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRG-----------F----KDQ---IYDIFQKL-NSN  186 (218)
T ss_dssp             SSSCCCS-EEEECHHHHHHHHHTTSSCSTTCCEEEEESHHHHHHTT-----------C----HHH---HHHHHHHS-CTT
T ss_pred             HhcCCCE-EEEeCChhHHHHHhcCCcccccceEEEeeecchhhcCc-----------h----HHH---HHHHHHhC-CCC
Confidence            00 0000 12334556666665433223347899999999988731           0    111   22233333 344


Q ss_pred             CcEEEEeecCCCCCchhHHHHHHhhccceEE
Q 041690          156 PCKLLLSDTHLGNSTRLLYIYKRWISSIFTV  186 (233)
Q Consensus       156 ~~vlvi~~~~~~~~~~~~~~~~~~~~~~~~i  186 (233)
                      ..+++.++|-...   ...+...|+..-+.|
T Consensus       187 ~Q~il~SAT~~~~---v~~~~~~~l~~pv~i  214 (218)
T d2g9na1         187 TQVVLLSATMPSD---VLEVTKKFMRDPIRI  214 (218)
T ss_dssp             CEEEEEESCCCHH---HHHHHHHHCSSCEEE
T ss_pred             CeEEEEEecCCHH---HHHHHHHHCCCCEEE
Confidence            6677777765322   223556666544443

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {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: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.77  E-value=0.0021  Score=48.66  Aligned_cols=38  Identities=8%  Similarity=0.032  Sum_probs=26.2

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhh-cCCCeEEEEecC
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCAS-QSNANVVFMCNR   57 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~-~~g~~v~yi~~e   57 (233)
                      ..+++..|+|+|||......+..... ..+..++++...
T Consensus        43 ~d~iv~a~TGsGKT~~~~l~~~~~~~~~~~~~~lil~pt   81 (208)
T d1hv8a1          43 YNIVAQARTGSGKTASFAIPLIELVNENNGIEAIILTPT   81 (208)
T ss_dssp             SEEEEECCSSSSHHHHHHHHHHHHSCSSSSCCEEEECSC
T ss_pred             CCeeeechhcccccceeecccccccccccCcceEEEeec
Confidence            47889999999999877655544332 335567777643

>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=96.72  E-value=0.00062  Score=53.69  Aligned_cols=40  Identities=20%  Similarity=0.228  Sum_probs=34.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ...+++.++|--|+||||++..+|..++ +.|.+|+.|+..
T Consensus        18 ~~~~iii~sGKGGVGKTT~a~nLA~~lA-~~G~rVllvD~D   57 (279)
T d1ihua2          18 NEHGLIMLMGKGGVGKTTMAAAIAVRLA-DMGFDVHLTTSD   57 (279)
T ss_dssp             TSCEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEESC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEeCC
Confidence            3556677789999999999999999999 779999999966

>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=96.72  E-value=0.00024  Score=52.55  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=19.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQF   39 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~   39 (233)
                      +.-.++|.|+||+|||||..++
T Consensus        16 k~~KI~lvG~~~vGKTsLi~~l   37 (182)
T d1moza_          16 KELRILILGLDGAGKTTILYRL   37 (182)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHT
T ss_pred             ceEEEEEECCCCCCHHHHHHHH
Confidence            5567889999999999999965

>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=96.71  E-value=0.00039  Score=51.82  Aligned_cols=29  Identities=17%  Similarity=0.091  Sum_probs=21.6

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEE
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVF   53 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~y   53 (233)
                      -++.|+|++||||||+|..+.     +.|..++.
T Consensus         4 ~IIgitG~~gSGKstva~~l~-----~~g~~~~~   32 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALLR-----SWGYPVLD   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH-----HTTCCEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHH-----HCCCeEEE
Confidence            467799999999999998653     34555544

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=96.63  E-value=0.00055  Score=49.14  Aligned_cols=21  Identities=29%  Similarity=0.504  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .++|.|+||||||||+..+..
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~   27 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQV   27 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999998765

>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=96.62  E-value=0.00062  Score=51.29  Aligned_cols=22  Identities=27%  Similarity=0.276  Sum_probs=19.4

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      +.|+|.|+||+|||||+.++..
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~   22 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLT   22 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHc
Confidence            3689999999999999998765

>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=96.60  E-value=0.00068  Score=48.27  Aligned_cols=21  Identities=33%  Similarity=0.377  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .++|.|+||+|||+|+..+..
T Consensus         2 KI~liG~~nvGKSSLln~l~~   22 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKN   22 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998765

>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=96.59  E-value=0.0011  Score=52.11  Aligned_cols=36  Identities=8%  Similarity=0.071  Sum_probs=32.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+.|+|-=|+||||++..+|..++ +.|.+|+.||..
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA-~~G~rVllID~D   38 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLH-AMGKTIMVVGCD   38 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHH-TTTCCEEEEEEC
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHH-hCCCcEEEEecC
Confidence            577899999999999999999999 779999999965

>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=96.59  E-value=0.00053  Score=49.64  Aligned_cols=20  Identities=35%  Similarity=0.481  Sum_probs=17.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a   40 (233)
                      .++|.|+||||||+|+.++.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~   23 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFN   23 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            47899999999999999764

>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=96.56  E-value=0.0012  Score=50.33  Aligned_cols=38  Identities=16%  Similarity=0.180  Sum_probs=32.4

Q ss_pred             CCEEEEE-cCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           19 DPITLLS-GPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~-GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      |+++.|+ +-.|+||||++..+|..++ ..|.+|+++|..
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la-~~g~~VlliD~D   40 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALG-DRGRKVLAVDGD   40 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHH-hCCCCEEEEeCC
Confidence            3456666 7799999999999999999 789999999964

>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=96.54  E-value=0.00054  Score=50.03  Aligned_cols=23  Identities=26%  Similarity=0.286  Sum_probs=19.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a   40 (233)
                      +...++|.|+||||||||+.++.
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~   34 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLK   34 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            34568899999999999999764

>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=96.54  E-value=0.00068  Score=49.14  Aligned_cols=20  Identities=20%  Similarity=0.469  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|+||+|||+|+.++..
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998875

>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=96.54  E-value=0.0013  Score=51.43  Aligned_cols=37  Identities=16%  Similarity=0.138  Sum_probs=26.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ....++|+||+|||||++|+.+..... .....++.++
T Consensus        22 ~~~pvlI~Ge~GtGK~~~A~~ih~~s~-~~~~~~~~~~   58 (247)
T d1ny5a2          22 AECPVLITGESGVGKEVVARLIHKLSD-RSKEPFVALN   58 (247)
T ss_dssp             CCSCEEEECSTTSSHHHHHHHHHHHST-TTTSCEEEEE
T ss_pred             CCCCEEEECCCCcCHHHHHHHHHHhcC-Ccccccccch
Confidence            456799999999999999998765333 3344455554

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.54  E-value=0.00068  Score=49.63  Aligned_cols=21  Identities=33%  Similarity=0.566  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ++|.|+||||||+|+.++...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            788999999999999987653

>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=96.53  E-value=0.00061  Score=49.69  Aligned_cols=22  Identities=32%  Similarity=0.606  Sum_probs=19.0

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      -.++|.|.||||||||+.++..
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4688999999999999997653

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.50  E-value=0.00081  Score=51.70  Aligned_cols=36  Identities=31%  Similarity=0.355  Sum_probs=27.6

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      =.+++|+|..|+|||||++.+...   ..+.++..|-.|
T Consensus         3 iPv~iitGFLGaGKTTll~~lL~~---~~~~riaVI~Ne   38 (222)
T d1nija1           3 IAVTLLTGFLGAGKTTLLRHILNE---QHGYKIAVIENE   38 (222)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHS---CCCCCEEEECSS
T ss_pred             CCEEEEeeCCCCCHHHHHHHHHhc---CCCCcEEEEEec
Confidence            368999999999999999988763   346677666433

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {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: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.49  E-value=0.0052  Score=46.34  Aligned_cols=41  Identities=17%  Similarity=0.238  Sum_probs=25.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhh--cCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCAS--QSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~--~~g~~v~yi~~e   57 (233)
                      ..|..+++..|+|||||.-..-=+.....  ..+..++++...
T Consensus        36 l~g~dvl~~A~TGsGKTla~~lp~l~~~~~~~~~~~~lil~Pt   78 (207)
T d1t6na_          36 ILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHT   78 (207)
T ss_dssp             HTTCCEEEECCTTSCHHHHHHHHHHHHCCCCTTCCCEEEECSC
T ss_pred             HcCCCeEEEeccccccccccccceeeeecccCCCceEEEEecc
Confidence            47889999999999998643322222211  123457777543

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=96.48  E-value=0.00079  Score=48.76  Aligned_cols=21  Identities=29%  Similarity=0.254  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .++|.|++|+|||+|+.++..
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            377889999999999998865

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {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: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.46  E-value=0.0025  Score=48.22  Aligned_cols=20  Identities=15%  Similarity=0.028  Sum_probs=17.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLL   36 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa   36 (233)
                      ..|.-+++..|+|||||.-.
T Consensus        38 l~g~dvl~~a~TGsGKTlay   57 (206)
T d1veca_          38 LSGRDILARAKNGTGKSGAY   57 (206)
T ss_dssp             HTTCCEEEECCSSSTTHHHH
T ss_pred             HcCCCEEeeccCcccccccc
Confidence            47889999999999999543

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.43  E-value=0.00085  Score=48.87  Aligned_cols=22  Identities=23%  Similarity=0.363  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -++|.|++|||||+|+.+++..
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3788999999999999988763

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.42  E-value=0.00081  Score=49.73  Aligned_cols=20  Identities=30%  Similarity=0.551  Sum_probs=17.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|+||+|||+|+.++..
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            78899999999999997753

>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=96.42  E-value=0.00047  Score=51.48  Aligned_cols=24  Identities=29%  Similarity=0.313  Sum_probs=20.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++-.+.|.|+.||||||+++.++.
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            556899999999999999996544

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.40  E-value=0.0028  Score=48.19  Aligned_cols=21  Identities=19%  Similarity=0.049  Sum_probs=17.9

Q ss_pred             CCCCEEEEEcCCCCcHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLF   37 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~   37 (233)
                      ..|.-+++..|+|||||....
T Consensus        45 l~g~dvl~~a~TGsGKT~a~~   65 (212)
T d1qdea_          45 IEGHDVLAQAQSGTGKTGTFS   65 (212)
T ss_dssp             HTTCCEEEECCTTSSHHHHHH
T ss_pred             HcCCCEEeecccccchhhhhH
Confidence            478889999999999997544

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.40  E-value=0.00086  Score=48.90  Aligned_cols=21  Identities=29%  Similarity=0.376  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      -++|.|.||||||+|+.++..
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            488999999999999998875

>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=96.38  E-value=0.00096  Score=48.40  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -++|.|++|+|||+|+.+++..
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999988753

>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=96.38  E-value=0.00097  Score=48.55  Aligned_cols=20  Identities=30%  Similarity=0.600  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a   40 (233)
                      .+.|.|+||+|||||+.+++
T Consensus         2 ~V~liG~~n~GKSsLi~~L~   21 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLV   21 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999999876

>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=96.37  E-value=0.00088  Score=48.60  Aligned_cols=22  Identities=27%  Similarity=0.374  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -++|.|++|||||+|+.++...
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3788999999999999988753

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.34  E-value=0.001  Score=48.70  Aligned_cols=21  Identities=29%  Similarity=0.381  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      -++|.|.+|||||+|+.++..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            588999999999999998875

>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=96.34  E-value=0.001  Score=48.48  Aligned_cols=20  Identities=30%  Similarity=0.572  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|+||+|||+|+.++..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            78999999999999998865

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=96.33  E-value=0.0026  Score=49.21  Aligned_cols=39  Identities=18%  Similarity=0.257  Sum_probs=34.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .....||.|..|||||-++...+.... ..|..++++..+
T Consensus        75 ~~~~~LL~GdvGsGKT~V~~~a~~~~~-~~g~qv~~l~Pt  113 (233)
T d2eyqa3          75 LAMDRLVCGDVGFGKTEVAMRAAFLAV-DNHKQVAVLVPT  113 (233)
T ss_dssp             SCCEEEEECCCCTTTHHHHHHHHHHHH-TTTCEEEEECSS
T ss_pred             CccCeEEEcCCCCCcHHHHHHHHHHHH-HcCCceEEEccH
Confidence            556899999999999999999888887 789999999876

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.33  E-value=0.00099  Score=48.47  Aligned_cols=20  Identities=30%  Similarity=0.483  Sum_probs=17.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|++|+|||+|+.+++.
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            68899999999999998764

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.32  E-value=0.0011  Score=48.04  Aligned_cols=21  Identities=33%  Similarity=0.494  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ++|.|+||+|||+|+.++...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788899999999999988753

>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=96.30  E-value=0.0011  Score=48.21  Aligned_cols=21  Identities=38%  Similarity=0.703  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      -++|.|.+|||||+|+.++..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999998875

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {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: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.30  E-value=0.0066  Score=45.61  Aligned_cols=19  Identities=21%  Similarity=0.071  Sum_probs=16.3

Q ss_pred             CCCCEEEEEcCCCCcHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSL   35 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtL   35 (233)
                      ..|..+++.+|+|+|||.-
T Consensus        36 l~g~dvi~~a~tGsGKTla   54 (206)
T d1s2ma1          36 ITGRDILARAKNGTGKTAA   54 (206)
T ss_dssp             HHTCCEEEECCTTSCHHHH
T ss_pred             HcCCCEEEecCCcchhhhh
Confidence            4678899999999999953

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.29  E-value=0.0012  Score=48.10  Aligned_cols=22  Identities=32%  Similarity=0.539  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -++|.|++|+|||+|+.++...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988753

>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=96.29  E-value=0.014  Score=46.22  Aligned_cols=28  Identities=25%  Similarity=0.197  Sum_probs=25.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+|..++|.|++|+|||+|+.+++.+..
T Consensus        66 g~GQr~~If~~~g~GKt~ll~~~~~~~~   93 (285)
T d2jdia3          66 GRGQRELIIGDRQTGKTSIAIDTIINQK   93 (285)
T ss_dssp             BTTCBCEEEESTTSSHHHHHHHHHHHTH
T ss_pred             cCCCEEEeecCCCCChHHHHHHHHHhHH
Confidence            4999999999999999999998887654

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=96.28  E-value=0.0015  Score=49.24  Aligned_cols=29  Identities=28%  Similarity=0.258  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEE
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFM   54 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi   54 (233)
                      ++.|+|++||||||+|..+.     +.|..++-.
T Consensus         4 iIgITG~igSGKStv~~~l~-----~~G~~vida   32 (205)
T d1jjva_           4 IVGLTGGIGSGKTTIANLFT-----DLGVPLVDA   32 (205)
T ss_dssp             EEEEECSTTSCHHHHHHHHH-----TTTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHH-----HCCCeEEEc
Confidence            46799999999999998542     445555543

>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=96.28  E-value=0.0012  Score=49.82  Aligned_cols=27  Identities=19%  Similarity=0.237  Sum_probs=23.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ++...++|+|||+||||+++..++..+
T Consensus        51 PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          51 PKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             TTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCccHHHHHHHHHHHh
Confidence            466888999999999999999887654

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.28  E-value=0.0011  Score=48.24  Aligned_cols=21  Identities=33%  Similarity=0.441  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      -++|.|++|+|||+|+.+++.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999998875

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.28  E-value=0.0012  Score=48.04  Aligned_cols=21  Identities=43%  Similarity=0.738  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +++.|++|+|||+|+.++...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988753

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.27  E-value=0.0011  Score=47.96  Aligned_cols=22  Identities=32%  Similarity=0.348  Sum_probs=19.4

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .-++|.|++|+|||+|+.++..
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            4588899999999999998875

>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=96.27  E-value=0.0011  Score=47.48  Aligned_cols=22  Identities=36%  Similarity=0.483  Sum_probs=19.0

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      -.++|.|+||+|||||..++..
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3588999999999999997763

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.26  E-value=0.0017  Score=53.75  Aligned_cols=25  Identities=20%  Similarity=0.396  Sum_probs=21.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .+..++|+||+|||||+++-++...
T Consensus        24 ~~~l~~i~G~NGsGKS~ileAi~~~   48 (427)
T d1w1wa_          24 ESNFTSIIGPNGSGKSNMMDAISFV   48 (427)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            4568999999999999999988654

>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=96.25  E-value=0.0013  Score=47.54  Aligned_cols=21  Identities=29%  Similarity=0.542  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ++|.|++|+|||+|+.++...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988753

>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=96.25  E-value=0.0013  Score=48.21  Aligned_cols=20  Identities=35%  Similarity=0.551  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|+||||||+|+.++..
T Consensus         7 i~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998865

>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=96.23  E-value=0.023  Score=44.80  Aligned_cols=25  Identities=16%  Similarity=0.060  Sum_probs=21.6

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +.+.|.|..|+|||||+-++.....
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~g   31 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYTG   31 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999876543

>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=96.21  E-value=0.0013  Score=47.96  Aligned_cols=20  Identities=30%  Similarity=0.484  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|+||||||+|+.++..
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999998875

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=96.20  E-value=0.0014  Score=49.67  Aligned_cols=20  Identities=35%  Similarity=0.473  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a   40 (233)
                      ++.|+|++||||||++..|.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            57799999999999998653

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.19  E-value=0.0028  Score=48.08  Aligned_cols=35  Identities=26%  Similarity=0.264  Sum_probs=30.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           22 TLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ....|-.|+||||++..+|..++ +.|.+|++|+..
T Consensus         5 av~s~KGGvGKTtia~nlA~~la-~~g~~VlliD~D   39 (232)
T d1hyqa_           5 TVASGKGGTGKTTITANLGVALA-QLGHDVTIVDAD   39 (232)
T ss_dssp             EEEESSSCSCHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             EEECCCCCChHHHHHHHHHHHHH-hCCCCEEEEeCC
Confidence            34458899999999999999999 779999999865

>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=96.18  E-value=0.0014  Score=48.29  Aligned_cols=20  Identities=35%  Similarity=0.542  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|.||||||+|+.++..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998865

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.18  E-value=0.0014  Score=47.86  Aligned_cols=20  Identities=40%  Similarity=0.514  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|+||+|||+|+.++..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998865

>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=96.17  E-value=0.0015  Score=48.61  Aligned_cols=21  Identities=29%  Similarity=0.463  Sum_probs=18.8

Q ss_pred             CEEEEEcCCCCcHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a   40 (233)
                      ..+.|.|+||+|||||...+.
T Consensus        24 ~~I~lvG~~n~GKSTLin~L~   44 (195)
T d1svia_          24 PEIALAGRSNVGKSSFINSLI   44 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHhc
Confidence            369999999999999999875

>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=96.17  E-value=0.0014  Score=47.44  Aligned_cols=20  Identities=40%  Similarity=0.589  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      +++.|+||+|||+|+.+++.
T Consensus         5 i~vvG~~~vGKTSli~~l~~   24 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVE   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998865

>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=96.17  E-value=0.0015  Score=47.56  Aligned_cols=20  Identities=40%  Similarity=0.599  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|++|+|||+|+.++..
T Consensus         9 i~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999998865

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.16  E-value=0.0018  Score=49.27  Aligned_cols=27  Identities=19%  Similarity=0.127  Sum_probs=24.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      +|..+.|.|+-||||||++..++..+.
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            688999999999999999998887654

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.13  E-value=0.0015  Score=47.86  Aligned_cols=22  Identities=32%  Similarity=0.523  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -++|.|++|+|||+|+.+++..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678899999999999988764

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.12  E-value=0.0014  Score=47.23  Aligned_cols=20  Identities=40%  Similarity=0.685  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|.+|||||+|+.++..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78889999999999998875

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.12  E-value=0.0016  Score=47.16  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -++|.|.+|+|||+|+.++...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3789999999999999988753

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.11  E-value=0.0014  Score=48.85  Aligned_cols=21  Identities=38%  Similarity=0.626  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ++|.|++|||||+|+.++...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            788999999999999988753

>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=96.10  E-value=0.0016  Score=47.21  Aligned_cols=22  Identities=32%  Similarity=0.573  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -++|.|++|+|||+|+.++...
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3778999999999999988753

>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=96.10  E-value=0.0027  Score=50.32  Aligned_cols=36  Identities=14%  Similarity=0.113  Sum_probs=32.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .+.|+|-=|+||||++..+|..++ +.|.+|+.||..
T Consensus         4 ~IaisgKGGVGKTT~a~NLA~~LA-~~G~rVLlID~D   39 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLVAALA-EMGKKVMIVGCD   39 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHH-HTTCCEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HCCCCEEEEecC
Confidence            467899999999999999999999 779999999865

>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=96.10  E-value=0.0014  Score=47.67  Aligned_cols=22  Identities=41%  Similarity=0.422  Sum_probs=18.8

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQF   39 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~   39 (233)
                      +.-.++|.|+||+|||+|+.++
T Consensus        15 ~~~kI~vvG~~~vGKSsLi~~l   36 (176)
T d1fzqa_          15 QEVRILLLGLDNAGKTTLLKQL   36 (176)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHH
T ss_pred             CEEEEEEECCCCCCHHHHHHHH
Confidence            3456899999999999999966

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.09  E-value=0.0016  Score=47.36  Aligned_cols=20  Identities=40%  Similarity=0.534  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|++|+|||+|+.++..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            68899999999999997753

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=96.06  E-value=0.038  Score=41.87  Aligned_cols=25  Identities=32%  Similarity=0.304  Sum_probs=21.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +..++.|.|.|++|||||+..+...
T Consensus         4 r~p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           4 RSPIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCccHHHHHHHHHhh
Confidence            3456999999999999999988654

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.05  E-value=0.0018  Score=46.90  Aligned_cols=21  Identities=29%  Similarity=0.491  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .++|.|.+|+|||+|+.++..
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378889999999999998865

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=96.05  E-value=0.028  Score=43.99  Aligned_cols=24  Identities=29%  Similarity=0.356  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +.+.|.|+.|+|||||+-++....
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~   26 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKT   26 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHc
Confidence            467889999999999999887643

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=96.04  E-value=0.0019  Score=46.99  Aligned_cols=21  Identities=33%  Similarity=0.632  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      -++|.|++|+|||+|+.++..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999998865

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.03  E-value=0.0018  Score=47.62  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=20.0

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      --++|.|.+|+|||+|+.++...
T Consensus         6 iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           6 IKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35889999999999999988753

>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=96.01  E-value=0.0021  Score=49.43  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=21.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a   40 (233)
                      +|..+.+.|+||+|||||...+.
T Consensus        94 ~~kt~~~~G~SGVGKSTLiN~L~  116 (225)
T d1u0la2          94 KGKISTMAGLSGVGKSSLLNAIN  116 (225)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHS
T ss_pred             cCCeEEEECCCCCCHHHHHHhhc
Confidence            78899999999999999999664

>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=95.99  E-value=0.00079  Score=51.62  Aligned_cols=25  Identities=16%  Similarity=0.240  Sum_probs=20.9

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      ...+.|.|+-||||||++..++..+
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            5678999999999999999666543

>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=95.99  E-value=0.00029  Score=52.12  Aligned_cols=25  Identities=28%  Similarity=0.337  Sum_probs=21.5

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+++|+||+||||||++.++...+.
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Confidence            4788999999999999998876553

>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=95.97  E-value=0.001  Score=48.59  Aligned_cols=21  Identities=29%  Similarity=0.520  Sum_probs=18.0

Q ss_pred             CEEEEEcCCCCcHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a   40 (233)
                      -.+++.|+||+|||+|+.+++
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~   33 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLK   33 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHh
Confidence            358889999999999999664

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {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: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.96  E-value=0.0047  Score=47.28  Aligned_cols=19  Identities=16%  Similarity=0.064  Sum_probs=16.7

Q ss_pred             CCCCEEEEEcCCCCcHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSL   35 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtL   35 (233)
                      ..|..+++..|+|||||.-
T Consensus        52 l~g~dvi~~a~TGSGKTla   70 (222)
T d2j0sa1          52 IKGRDVIAQSQSGTGKTAT   70 (222)
T ss_dssp             HTTCCEEEECCTTSSHHHH
T ss_pred             HCCCCeEEEcCcchhhhhh
Confidence            4788999999999999963

>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=95.94  E-value=0.002  Score=47.01  Aligned_cols=21  Identities=33%  Similarity=0.343  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      -++|.|++|+|||+|+.++..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378899999999999997754

>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=95.91  E-value=0.0022  Score=46.57  Aligned_cols=21  Identities=29%  Similarity=0.371  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      -+++.|++|||||+|+.+++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~   26 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQ   26 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            477889999999999998875

>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=95.91  E-value=0.0021  Score=47.00  Aligned_cols=21  Identities=19%  Similarity=0.537  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .++|.|+||+|||||...+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999997753

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.86  E-value=0.0024  Score=46.65  Aligned_cols=21  Identities=38%  Similarity=0.581  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .++|.|++|+|||+|+.++..
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            488999999999999998875

>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=95.78  E-value=0.0026  Score=46.73  Aligned_cols=22  Identities=41%  Similarity=0.676  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -++|.|++|+|||+|+.+++..
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3688999999999999988763

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.77  E-value=0.0026  Score=47.13  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -++|.|++|+|||+|+.++...
T Consensus         5 KvvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3788999999999999988753

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.75  E-value=0.0027  Score=46.86  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      .++|.|.+|+|||+|+.+++..
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3789999999999999988753

>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=95.71  E-value=0.0028  Score=48.57  Aligned_cols=25  Identities=12%  Similarity=0.167  Sum_probs=21.7

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      ..+.|.|+-||||||++..++..+.
T Consensus         3 k~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           3 RRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHh
Confidence            5788999999999999998887554

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.69  E-value=0.0016  Score=47.49  Aligned_cols=20  Identities=45%  Similarity=0.689  Sum_probs=8.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|.+|||||+|+.+++.
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78889999999999997764

>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=95.67  E-value=0.0017  Score=47.24  Aligned_cols=20  Identities=25%  Similarity=0.300  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++|.|++|+|||+|+.+++.
T Consensus         6 i~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC-
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77889999999999997654

>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=95.67  E-value=0.0024  Score=50.68  Aligned_cols=24  Identities=25%  Similarity=0.515  Sum_probs=20.3

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      ...++|+||+|||||+++.++...
T Consensus        24 ~~lnvlvG~NgsGKS~iL~Ai~~~   47 (308)
T d1e69a_          24 DRVTAIVGPNGSGKSNIIDAIKWV   47 (308)
T ss_dssp             SSEEEEECCTTTCSTHHHHHHHHT
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            358999999999999999877653

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

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 VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=95.64  E-value=0.0047  Score=47.69  Aligned_cols=18  Identities=17%  Similarity=0.093  Sum_probs=16.6

Q ss_pred             CCCCEEEEEcCCCCcHHH
Q 041690           17 HVDPITLLSGPPCCGKTS   34 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTt   34 (233)
                      ..|..+++..|+|||||.
T Consensus        56 l~g~dvvi~a~TGsGKTl   73 (238)
T d1wrba1          56 LEHRDIMACAQTGSGKTA   73 (238)
T ss_dssp             HTTCCEEEECCTTSSHHH
T ss_pred             hCCCCEEEECCCCCCcce
Confidence            478899999999999998

>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=95.64  E-value=0.0034  Score=45.80  Aligned_cols=22  Identities=27%  Similarity=0.410  Sum_probs=19.1

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ..+.|.|.||+|||||...++.
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~   27 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLG   27 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            3689999999999999997754

>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=95.58  E-value=0.0031  Score=46.61  Aligned_cols=20  Identities=35%  Similarity=0.414  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a   40 (233)
                      -++|.|.+|+|||+|+.++.
T Consensus         4 KivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999999984

>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=95.57  E-value=0.0024  Score=46.90  Aligned_cols=19  Identities=37%  Similarity=0.385  Sum_probs=16.8

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQF   39 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~   39 (233)
                      -|.|.|+|++|||||...+
T Consensus         3 ~VaiiG~~nvGKSSLin~L   21 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVV   21 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHS
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            3789999999999999965

>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=95.48  E-value=0.0025  Score=46.34  Aligned_cols=23  Identities=22%  Similarity=0.250  Sum_probs=19.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQF   39 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~   39 (233)
                      .....+.|.|+|++|||||..++
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L   36 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTL   36 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTT
T ss_pred             ccCCEEEEECCCCCCHHHHHHHH
Confidence            45667999999999999999855

>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=95.45  E-value=0.0043  Score=45.43  Aligned_cols=23  Identities=26%  Similarity=0.283  Sum_probs=19.9

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHH
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -.+++.|++|+|||+|+.++...
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45889999999999999988753

>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=95.32  E-value=0.096  Score=38.94  Aligned_cols=25  Identities=28%  Similarity=0.165  Sum_probs=20.7

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      -.+.+.|.+++|||||+-++.....
T Consensus         4 ini~iiGhvd~GKSTL~~~Ll~~~g   28 (204)
T d2c78a3           4 VNVGTIGHVDHGKTTLTAALTYVAA   28 (204)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCcHHHHHHHHHHHhh
Confidence            3578899999999999998876543

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=95.30  E-value=0.0056  Score=46.87  Aligned_cols=21  Identities=24%  Similarity=0.202  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ++.|+|+.||||||+|..++.
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999987654

>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=95.28  E-value=0.0053  Score=44.47  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .|+|.|.||+|||||..++..
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999997753

>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=95.24  E-value=0.0047  Score=47.03  Aligned_cols=22  Identities=27%  Similarity=0.285  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -++|.|++|+|||+|++++...
T Consensus         8 KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998643

>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=95.17  E-value=0.0025  Score=49.11  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=20.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a   40 (233)
                      ++..+++.|++|+|||||...+.
T Consensus        96 ~~~~~vl~G~SGVGKSSLiN~L~  118 (231)
T d1t9ha2          96 QDKTTVFAGQSGVGKSSLLNAIS  118 (231)
T ss_dssp             TTSEEEEEESHHHHHHHHHHHHC
T ss_pred             ccceEEEECCCCccHHHHHHhhc
Confidence            67888999999999999999665

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {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: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.16  E-value=0.01  Score=44.43  Aligned_cols=19  Identities=16%  Similarity=-0.004  Sum_probs=16.6

Q ss_pred             CCCCEEEEEcCCCCcHHHH
Q 041690           17 HVDPITLLSGPPCCGKTSL   35 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtL   35 (233)
                      ..|..+++..|+|||||.-
T Consensus        36 l~G~dvii~a~TGSGKTla   54 (209)
T d1q0ua_          36 LRGESMVGQSQTGTGKTHA   54 (209)
T ss_dssp             HHTCCEEEECCSSHHHHHH
T ss_pred             HCCCCeEeeccccccccee
Confidence            4688899999999999973

>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=95.10  E-value=0.0039  Score=45.56  Aligned_cols=19  Identities=42%  Similarity=0.520  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a   40 (233)
                      +.|.|.|++|||||...+.
T Consensus         4 VaivG~~nvGKSTLin~L~   22 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMT   22 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            7889999999999999764

>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=95.10  E-value=0.034  Score=46.05  Aligned_cols=23  Identities=17%  Similarity=0.205  Sum_probs=19.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFA   40 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a   40 (233)
                      .+-.+.|.|.||+|||||...+.
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~   77 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLR   77 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHh
Confidence            34568999999999999999775

>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=95.07  E-value=0.0079  Score=43.90  Aligned_cols=24  Identities=21%  Similarity=0.253  Sum_probs=19.7

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .+-.+.|.|.+|+|||||...+..
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHC
Confidence            345688999999999999987653

>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=95.06  E-value=0.0063  Score=44.67  Aligned_cols=22  Identities=27%  Similarity=0.292  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      -++|.|.+|+|||+|+.++...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998653

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.03  E-value=0.0085  Score=47.04  Aligned_cols=39  Identities=21%  Similarity=0.150  Sum_probs=33.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      .....||.|..|||||-++...+..+. ..|..++++..+
T Consensus       103 ~~m~rLL~GdvGSGKT~Va~~a~~~~~-~~g~q~~~m~Pt  141 (264)
T d1gm5a3         103 KPMNRLLQGDVGSGKTVVAQLAILDNY-EAGFQTAFMVPT  141 (264)
T ss_dssp             SCCCCEEECCSSSSHHHHHHHHHHHHH-HHTSCEEEECSC
T ss_pred             CcceeeeeccccccccHHHHHHHHHHH-hcccceeEEeeh
Confidence            556789999999999999998887777 778889988765

>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=94.68  E-value=0.012  Score=46.22  Aligned_cols=27  Identities=26%  Similarity=0.260  Sum_probs=22.3

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+-..+.++|||++|||+|+..++..+
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            456778899999999999999777644

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=94.67  E-value=0.009  Score=48.47  Aligned_cols=34  Identities=21%  Similarity=0.236  Sum_probs=28.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .|.|-|+-|+||||+++.++.... ..+.+++|+.
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~-~~g~~v~~~~   40 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFA-ITPNRILLIG   40 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTT-TSGGGEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh-hcCCceEEEe
Confidence            477899999999999998887766 5567788874

>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=94.58  E-value=0.0029  Score=45.10  Aligned_cols=21  Identities=29%  Similarity=0.545  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +.|.|+||+|||||...+...
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999987643

>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=94.56  E-value=0.0084  Score=48.16  Aligned_cols=20  Identities=25%  Similarity=0.300  Sum_probs=18.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLF   37 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~   37 (233)
                      .|.+.+++|.+|||||||..
T Consensus        13 ~~~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          13 EGDVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             TCCEEEEEECTTSCHHHHTC
T ss_pred             CCCEEEEEccCCCCcccccc
Confidence            57889999999999999875

>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=94.52  E-value=0.0097  Score=43.40  Aligned_cols=23  Identities=26%  Similarity=0.264  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      -++|.|..|+|||+|++++...-
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            47889999999999999986543

>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=94.36  E-value=0.011  Score=47.22  Aligned_cols=20  Identities=25%  Similarity=0.303  Sum_probs=18.1

Q ss_pred             CCCEEEEEcCCCCcHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLF   37 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~   37 (233)
                      .|.+.+++|-+|||||||..
T Consensus        13 ~~~~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          13 KGDVAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             TSCEEEEECSTTSSHHHHHC
T ss_pred             CCCEEEEEccCCCCccccee
Confidence            57899999999999999875

>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=94.20  E-value=0.013  Score=45.57  Aligned_cols=24  Identities=21%  Similarity=0.126  Sum_probs=20.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      ..-.++|.|.||+|||||+..+..
T Consensus        31 ~~l~I~LvG~tg~GKSSliN~ilg   54 (257)
T d1h65a_          31 NSLTILVMGKGGVGKSSTVNSIIG   54 (257)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhC
Confidence            345788999999999999997764

>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=94.03  E-value=0.03  Score=38.29  Aligned_cols=42  Identities=5%  Similarity=-0.022  Sum_probs=32.3

Q ss_pred             CCCCCEEEEEcCCCCcHHHHHHHHHHHhhh-cCCCeEEEEecC
Q 041690           16 THVDPITLLSGPPCCGKTSLLFQFAYNCAS-QSNANVVFMCNR   57 (233)
Q Consensus        16 ~~~g~~~ll~GppGsGKTtLa~~~a~~~~~-~~g~~v~yi~~e   57 (233)
                      ...|-.+.+.|-+|+||+++|..+...+.. ..|+++-.+++.
T Consensus         3 ~kqgf~i~~tg~~~~gk~~ia~al~~~l~q~~G~R~vtll~~~   45 (122)
T d1g8fa3           3 PKQGFSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHN   45 (122)
T ss_dssp             GGCCEEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCT
T ss_pred             CccceEEEEeCCCCCCHHHHHHHHHHHHHHhcCCcceEEecCC
Confidence            346778899999999999999998877773 245667666543

>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=93.90  E-value=0.016  Score=46.60  Aligned_cols=20  Identities=30%  Similarity=0.336  Sum_probs=18.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLF   37 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~   37 (233)
                      .|.+.+++|-+|||||||..
T Consensus        13 ~gd~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          13 QGDVTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             TCCEEEEECCTTSSHHHHHC
T ss_pred             CCCEEEEEccCCCCccccee
Confidence            67889999999999999985

>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=93.83  E-value=0.018  Score=41.94  Aligned_cols=21  Identities=24%  Similarity=0.014  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .+.|.|.|++|||||..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            588999999999999998763

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=93.59  E-value=0.03  Score=45.28  Aligned_cols=33  Identities=15%  Similarity=0.112  Sum_probs=24.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .|.|-|+-|+||||+++.++.... . +..+.++.
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~-~-~~~v~~~~   40 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAAS-G-GSPTLYFP   40 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGG-C-SSCEEEEC
T ss_pred             EEEEECCccCCHHHHHHHHHHHhc-c-CCCeEEEe
Confidence            477889999999999998877554 2 34566653

>d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {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: Tandem AAA-ATPase domain
domain: Helicase of the SNF2/Rad54 hamily
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=91.89  E-value=0.18  Score=37.74  Aligned_cols=40  Identities=13%  Similarity=0.066  Sum_probs=29.0

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcC-CCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQS-NANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~-g~~v~yi~~e   57 (233)
                      .+.+.+|.=+.|.|||..+..++....... ..+++.|+..
T Consensus        30 ~~~g~iLaDe~GlGKT~~~i~~~~~~~~~~~~~~~LIv~p~   70 (230)
T d1z63a1          30 LGFGICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPL   70 (230)
T ss_dssp             TTCCEEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECS
T ss_pred             cCCCEEEEeCCCCChHHHHHHhhhhhhhcccccccceecch
Confidence            456688888999999999887776554232 3567777754

>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=91.87  E-value=0.041  Score=44.35  Aligned_cols=32  Identities=19%  Similarity=0.277  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      .|.|-|+=|+||||+++.++....   +..++|+.
T Consensus         6 rI~IEG~iGsGKTTl~~~La~~l~---~~~v~~~~   37 (329)
T d1e2ka_           6 RVYIDGPHGMGKTTTTQLLVALGS---RDDIVYVP   37 (329)
T ss_dssp             EEEECSCTTSSHHHHHHHHTC-------CCEEEEC
T ss_pred             EEEEECCcCCCHHHHHHHHHHHhC---CCCeEEec
Confidence            377889999999999997754332   34566653

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=91.08  E-value=0.036  Score=41.06  Aligned_cols=37  Identities=19%  Similarity=-0.011  Sum_probs=26.6

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      ..|..+++.-|+|+|||....-...    .....++|+...
T Consensus        38 l~g~~vlv~apTGsGKT~~~~~~~~----~~~~~~~~v~P~   74 (206)
T d1oywa2          38 LSGRDCLVVMPTGGGKSLCYQIPAL----LLNGLTVVVSPL   74 (206)
T ss_dssp             HTTCCEEEECSCHHHHHHHHHHHHH----HSSSEEEEECSC
T ss_pred             HcCCCEEEEcCCCCCCcchhhhhhh----hccCceEEeccc
Confidence            4678899999999999976543222    446778888643

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {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: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=90.98  E-value=0.093  Score=41.12  Aligned_cols=40  Identities=13%  Similarity=0.233  Sum_probs=29.6

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEecC
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMCNR   57 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~~e   57 (233)
                      +....++.-|.|+|||..+..++.......+.+++++...
T Consensus       127 ~~~~~il~~pTGsGKT~i~~~i~~~~~~~~~~k~Liivp~  166 (282)
T d1rifa_         127 VNRRRILNLPTSAGRSLIQALLARYYLENYEGKILIIVPT  166 (282)
T ss_dssp             HHSEEEECCCTTSCHHHHHHHHHHHHHHHCSSEEEEECSS
T ss_pred             hcCCceeEEEcccCccHHHHHHHHHhhhcccceEEEEEcC
Confidence            3445677789999999988877766554556788888754

>d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}

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: Rad54-like, Rad54L
species: Zebra fish (Danio rerio) [TaxId: 7955]

Probab=89.01  E-value=2.1  Score=32.92  Aligned_cols=40  Identities=15%  Similarity=0.105  Sum_probs=27.0

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhhhcC------CCeEEEEec
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCASQS------NANVVFMCN   56 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~~~~------g~~v~yi~~   56 (233)
                      ..+.+.+|.=..|.|||.-+..++.......      ..+++.|+.
T Consensus        77 ~~~~g~iLaDemGlGKT~qaia~l~~l~~~~~~~~~~~~~~LIV~P  122 (298)
T d1z3ix2          77 ENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSP  122 (298)
T ss_dssp             TTCCEEEECCCTTSCHHHHHHHHHHHHHHCCTTSSCSCSCEEEEEC
T ss_pred             ccCCceEEEeCCCCCHHHHHHHHHHHHHHhcccccCCCCcEEEEcc
Confidence            3567888888999999987766655444221      234777764

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=88.52  E-value=0.16  Score=44.92  Aligned_cols=28  Identities=18%  Similarity=0.181  Sum_probs=23.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+...++|.|.+|+|||.-++++...++
T Consensus        84 ~~~QsIiisGeSGsGKTe~~k~il~yL~  111 (684)
T d1lkxa_          84 QENQCVIISGESGAGKTEASKKIMQFLT  111 (684)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4778899999999999999888876554

>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=88.28  E-value=0.11  Score=40.59  Aligned_cols=24  Identities=21%  Similarity=0.149  Sum_probs=20.5

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      |-.++.|.||.++|||+|+.+++.
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~   54 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAG   54 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTT
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcC
Confidence            456788999999999999998764

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=87.93  E-value=0.18  Score=44.76  Aligned_cols=28  Identities=21%  Similarity=0.178  Sum_probs=23.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .+...++|.|.+|+|||.-++.+...++
T Consensus       123 ~~nQsIiisGeSGaGKTe~~k~il~yL~  150 (712)
T d1d0xa2         123 RQNQSLLITGESGAGKTENTKKVIQYLA  150 (712)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCceEEEeCCCCCCHHHHHHHHHHHHH
Confidence            4778999999999999998888776554

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=87.30  E-value=0.2  Score=44.36  Aligned_cols=28  Identities=25%  Similarity=0.160  Sum_probs=24.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .....++|.|.+|+|||.-++.+...++
T Consensus        89 ~~~Q~IiisGeSGaGKTe~~k~il~yL~  116 (710)
T d1br2a2          89 REDQSILCTGESGAGKTENTKKVIQYLA  116 (710)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4678899999999999998888877664

>d1w36b1 c.37.1.19 (B:1-485) Exodeoxyribonuclease V beta chain (RecB), N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.19  E-value=0.26  Score=40.52  Aligned_cols=27  Identities=15%  Similarity=0.124  Sum_probs=20.1

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      +..+.++|.+.+|||||+.+.+-...+
T Consensus        14 p~~g~~lv~A~AGsGKT~~l~~r~~~l   40 (485)
T d1w36b1          14 PLQGERLIEASAGTGKTFTIAALYLRL   40 (485)
T ss_dssp             CCSSCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEcCchHHHHHHHHHHHHH
Confidence            456679999999999998766544333

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=87.09  E-value=0.2  Score=45.00  Aligned_cols=28  Identities=21%  Similarity=0.176  Sum_probs=23.2

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .....++|.|.+|+|||.-++.+...++
T Consensus       121 ~~~QsIiisGeSGaGKTe~~K~il~yL~  148 (794)
T d2mysa2         121 RENQSILITGESGAGKTVNTKRVIQYFA  148 (794)
T ss_dssp             TCCEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4778899999999999988777766554

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=86.28  E-value=1.8  Score=35.48  Aligned_cols=32  Identities=22%  Similarity=0.183  Sum_probs=25.8

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhhhcCCCeEEEEe
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNCASQSNANVVFMC   55 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~~~~~g~~v~yi~   55 (233)
                      ...+|.|-+|||||.++..++.    +.+++++.|+
T Consensus        32 ~~q~l~GltGS~ka~~iA~l~~----~~~rp~LVVt   63 (413)
T d1t5la1          32 KHQTLLGATGTGKTFTISNVIA----QVNKPTLVIA   63 (413)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHH----HHTCCEEEEC
T ss_pred             CcEEEeCCCCcHHHHHHHHHHH----HhCCCEEEEe
Confidence            5678999999999999886655    4457888886

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=85.90  E-value=0.23  Score=44.56  Aligned_cols=28  Identities=21%  Similarity=0.201  Sum_probs=23.7

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .....++|.|.+|+|||.-++.+...++
T Consensus       119 ~~nQ~IiisGESGaGKTe~~K~il~yL~  146 (789)
T d1kk8a2         119 RENQSCLITGESGAGKTENTKKVIMYLA  146 (789)
T ss_dssp             TSEEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4678999999999999998887776655

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=85.81  E-value=0.27  Score=43.66  Aligned_cols=28  Identities=21%  Similarity=0.100  Sum_probs=23.8

Q ss_pred             CCCCEEEEEcCCCCcHHHHHHHHHHHhh
Q 041690           17 HVDPITLLSGPPCCGKTSLLFQFAYNCA   44 (233)
Q Consensus        17 ~~g~~~ll~GppGsGKTtLa~~~a~~~~   44 (233)
                      .....++|.|.+|+|||.-++.+...++
T Consensus        92 ~~~Q~IiisGeSGsGKTe~~k~il~~l~  119 (730)
T d1w7ja2          92 ERNQSIIVSGESGAGKTVSAKYAMRYFA  119 (730)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4778899999999999998888876654

>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=84.82  E-value=0.25  Score=38.70  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=20.3

Q ss_pred             CCEEEEEcCCCCcHHHHHHHHHHH
Q 041690           19 DPITLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        19 g~~~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +-.+.|.|-|.||||||..++...
T Consensus        10 ~~kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          10 NLKTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHCC
Confidence            345889999999999999988754

>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=84.46  E-value=0.27  Score=38.75  Aligned_cols=21  Identities=19%  Similarity=0.279  Sum_probs=17.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 041690           22 TLLSGPPCCGKTSLLFQFAYN   42 (233)
Q Consensus        22 ~ll~GppGsGKTtLa~~~a~~   42 (233)
                      +.|.|-|.+|||||..++...
T Consensus         3 v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EeEECCCCCCHHHHHHHHHCC
Confidence            679999999999999987543

>d1khba1 c.91.1.1 (A:260-622) Cytosolic phosphoenolpyruvate carboxykinase (GTP-hydrolyzing) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Cytosolic phosphoenolpyruvate carboxykinase (GTP-hydrolyzing)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.30  E-value=0.29  Score=39.34  Aligned_cols=21  Identities=33%  Similarity=0.600  Sum_probs=18.6

Q ss_pred             CCCCEEEEEc--CCCCcHHHHHH
Q 041690           17 HVDPITLLSG--PPCCGKTSLLF   37 (233)
Q Consensus        17 ~~g~~~ll~G--ppGsGKTtLa~   37 (233)
                      +.|+.+-|+|  |++||||+||.
T Consensus        14 P~g~~~yvaaAFPSaCGKTnlAM   36 (363)
T d1khba1          14 PEGEKKYLAAAFPSACGKTNLAM   36 (363)
T ss_dssp             TTSCEEEEEEECCTTSCHHHHHT
T ss_pred             CCCCEEEEEEecCccccchhHHH
Confidence            4688888998  99999999997

>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=82.65  E-value=0.54  Score=34.36  Aligned_cols=24  Identities=21%  Similarity=0.081  Sum_probs=20.3

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      |.-.+.|.|...+|||||+-.+..
T Consensus         7 p~ini~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3           7 PEVNIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHS
T ss_pred             CCeEEEEEEccCCcHHHHHHHHHh
Confidence            445789999999999999998753

>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=82.62  E-value=0.57  Score=34.29  Aligned_cols=24  Identities=21%  Similarity=-0.049  Sum_probs=20.2

Q ss_pred             CEEEEEcCCCCcHHHHHHHHHHHh
Q 041690           20 PITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        20 ~~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      -.+.+.|-+++|||||+-++....
T Consensus         4 ini~iiGHvd~GKSTL~~~l~~~~   27 (196)
T d1d2ea3           4 VNVGTIGHVDHGKTTLTAAITKIL   27 (196)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCcHHHHHHHHHHHH
Confidence            458899999999999999887543

>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=81.02  E-value=0.54  Score=33.98  Aligned_cols=21  Identities=24%  Similarity=0.078  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 041690           21 ITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .+.+.|...+|||||+.++..
T Consensus         7 nIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEEeccCCcHHHHHHHHHh
Confidence            578899999999999998853

>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=80.68  E-value=0.5  Score=36.42  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+-|.|-|.+|||||..++...-
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHCCC
Confidence            47899999999999999777543

>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=80.20  E-value=0.57  Score=36.03  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=20.2

Q ss_pred             CCCEEEEEcCCCCcHHHHHHHHHH
Q 041690           18 VDPITLLSGPPCCGKTSLLFQFAY   41 (233)
Q Consensus        18 ~g~~~ll~GppGsGKTtLa~~~a~   41 (233)
                      .+-.+.|.|-|.+|||||...+..
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~  134 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAK  134 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CceEEEEEecCccchhhhhhhhhc
Confidence            556689999999999999996653

>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=80.11  E-value=0.67  Score=34.62  Aligned_cols=23  Identities=22%  Similarity=0.183  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 041690           21 ITLLSGPPCCGKTSLLFQFAYNC   43 (233)
Q Consensus        21 ~~ll~GppGsGKTtLa~~~a~~~   43 (233)
                      .+.+.|-..+|||||+-++....
T Consensus        11 ~i~viGHVd~GKSTL~~~Ll~~~   33 (222)
T d1zunb3          11 RFLTCGNVDDGKSTLIGRLLHDS   33 (222)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHc
Confidence            36888999999999999887543