Citrus Sinensis ID: 045657

---

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-------
Protein Sequence
MASSSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFRLAEMSPRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE
Secondary Structure (PSIPRED)
ccccccccccccccccccEEEcccccccccccHHHHHHHHHHccccEEccccccccccccHHHHHHHHHccEEEEEEcccccccHHHHHHHHHHHHcccccccEEEEEEccccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccccccEEccccccccccccccHHHHHHHHHHHHccccccEEEEEEEcccccHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccEEEEEcccccHHHHHHHHHHHHHHHHHccccEEEcccccccccccHHHHHHHHHccEEEEEEEccccccHHHHHHHHHHHHHHHHcccEEEEEEEEccHHHHHHccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
masssssslsprninkydvflsfrgedtrdnFTSHLYSALSLKSIQTFIDdqlnrgdeISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVipvfyrvdpsdvrnqtgpfgdsfSKLEERFKENSEKLKSWRNALKEAasfsgfdsqnfrlaemsprnyknqLVGVESRVKEIESLLGAESKYVYTLGIwgfggigkTTIARAIFDKISSNFE
Flexible Loop (DISEMBL)
masssssslsprniNKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPvfyrvdpsdvrnqtgpfgdsfsKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFRLAEMSPRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE
Low Complexity Region (SEG)
MAsssssslsPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFRLAEMSPRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE
Disordered region (IsUnstruct)
*************INKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVD************************************************************KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI*****
Disordered Region (DISOPRED)
****************YDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEER*****EKL*SWRNALKEAASFSGFDSQNFRLAEMSPRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF*
Disordered Region (DISEMBL)
***********RNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFRLAEMSPRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE
Disordered Region (DISPRO)
************NINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFRLAEMSPRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MASSSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFRLAEMSPRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	227	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.903	0.179	0.479	4e-53
O82500	1095	Putative disease resistan	yes	no	0.960	0.199	0.464	1e-52
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.951	0.166	0.448	2e-45
Q9FHE9	354	Protein PHLOEM PROTEIN 2-	no	no	0.744	0.477	0.370	7e-26
Q9C5Q9	411	Protein PHLOEM PROTEIN 2-	no	no	0.572	0.316	0.458	1e-25
Q9SYC9	571	Vesicle-associated protei	no	no	0.647	0.257	0.358	6e-22
Q9FHE8	392	Protein PHLOEM PROTEIN 2-	no	no	0.788	0.456	0.380	1e-20
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.819	0.098	0.325	1e-17
Q9FL92	1372	Probable WRKY transcripti	no	no	0.762	0.126	0.322	3e-17
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.837	0.117	0.273	2e-12

>sp|Q40392|TMVRN_NICGU TMV resistance protein N OS=Nicotiana glutinosa GN=N PE=1 SV=1

 Score =  207 bits (527), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 107/223 (47%), Positives = 144/223 (64%), Gaps = 18/223 (8%)

Query: 17  YDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQ-LNRGDEISQSLVYAIENSAISLI 75
           YDVFLSFRGEDTR  FTSHLY  L+ K I+TF DD+ L  G  I   L  AIE S  +++
Sbjct: 12  YDVFLSFRGEDTRKTFTSHLYEVLNDKGIKTFQDDKRLEYGATIPGELCKAIEESQFAIV 71

Query: 76  IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERF 135
           +FSE YA+SRWCL+ELVKI++CK  + Q VIP+FY VDPS VRNQ   F  +F + E ++
Sbjct: 72  VFSENYATSRWCLNELVKIMECKTRFKQTVIPIFYDVDPSHVRNQKESFAKAFEEHETKY 131

Query: 136 KENSEKLKSWRNALKEAASFSG----------------FDSQNFRLAEMSPRNYKNQLVG 179
           K++ E ++ WR AL EAA+  G                 D  + +L ++S  +Y   +VG
Sbjct: 132 KDDVEGIQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKLCKIS-LSYLQNIVG 190

Query: 180 VESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI 222
           +++ +++IESLL      V  +GIWG GG+GKTTIARAIFD +
Sbjct: 191 IDTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTL 233

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.
Nicotiana glutinosa (taxid: 35889)

>sp|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score =  206 bits (523), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 112/241 (46%), Positives = 150/241 (62%), Gaps = 23/241 (9%)

Query: 1   MASSSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEIS 60
           MASSSS+S       +YDVF SFRGED R+NF SHL      K I TF DD + R   I 
Sbjct: 1   MASSSSNSW------RYDVFPSFRGEDVRNNFLSHLLKEFESKGIVTFRDDHIKRSHTIG 54

Query: 61  QSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQ 120
             L  AI  S IS+++FSE YASS WCLDEL++I++CK E    V+PVFY+VDPSD+R Q
Sbjct: 55  HELRAAIRESKISVVLFSENYASSSWCLDELIEIMKCKEEQGLKVMPVFYKVDPSDIRKQ 114

Query: 121 TGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSG-----FDSQNFRLAEMS------ 169
           TG FG SF  LE    +  E+  +WR AL +AA+  G     +D++ +++  +S      
Sbjct: 115 TGKFGMSF--LETCCGKTEERQHNWRRALTDAANILGDHPQNWDNEAYKITTISKDVLEK 172

Query: 170 ----PRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSN 225
               P    N LVG+E+ + ++ESLL  ES+ V  +GIWG  G+GKTTIARA++++   N
Sbjct: 173 LNATPSRDFNDLVGMEAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTIARALYNQYHEN 232

Query: 226 F 226
           F
Sbjct: 233 F 233

Arabidopsis thaliana (taxid: 3702)

>sp|O23530|SNC1_ARATH Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS=Arabidopsis thaliana GN=SNC1 PE=1 SV=3

 Score =  182 bits (461), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 109/243 (44%), Positives = 147/243 (60%), Gaps = 27/243 (11%)

Query: 1   MASSSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEIS 60
           +ASSS S        +YDVF SFRGED RD+F SHL   L  K+I TFIDD++ R   I 
Sbjct: 3   IASSSGS-------RRYDVFPSFRGEDVRDSFLSHLLKELRGKAI-TFIDDEIERSRSIG 54

Query: 61  QSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQ 120
             L+ AI+ S I+++IFS+ YASS WCL+ELV+I +C     Q+VIP+F+ VD S+V+ Q
Sbjct: 55  PELLSAIKESRIAIVIFSKNYASSTWCLNELVEIHKCYTNLNQMVIPIFFHVDASEVKKQ 114

Query: 121 TGPFGDSFSKLEERFKENSEKLK-SWRNALKEAASFSGFDSQNF--------RLAE---- 167
           TG FG  F   EE  K  SE  K SW+ AL   A  +G+D + +         LAE    
Sbjct: 115 TGEFGKVF---EETCKAKSEDEKQSWKQALAAVAVMAGYDLRKWPSEAAMIEELAEDVLR 171

Query: 168 --MSPRNYKNQLVGVESRVKEIESLLGAESKYVYTL-GIWGFGGIGKTTIARAIFDKISS 224
             M+P +    LVG+E+ ++ I+S+L  ESK    + GIWG  GIGK+TI RA++ K+S 
Sbjct: 172 KTMTPSDDFGDLVGIENHIEAIKSVLCLESKEARIMVGIWGQSGIGKSTIGRALYSKLSI 231

Query: 225 NFE 227
            F 
Sbjct: 232 QFH 234

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHE9|P2A08_ARATH Protein PHLOEM PROTEIN 2-LIKE A8 OS=Arabidopsis thaliana GN=PP2A8 PE=2 SV=1

 Score =  117 bits (293), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 67/181 (37%), Positives = 102/181 (56%), Gaps = 12/181 (6%)

Query: 1   MASSSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEIS 60
           MA+SSS   +P       VF++FRG+D R+ F S L  A+   +I  FID     G ++ 
Sbjct: 1   MAASSSVRPTPTGPQ---VFINFRGKDLRNGFLSFLEPAMREANINVFIDKDEVVGTDLV 57

Query: 61  QSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQ 120
            +L   I+ S ++++IFS+ Y SS WCLDEL +I  C  +     IP+FY++ PS V   
Sbjct: 58  -NLFVRIQESRVAVVIFSKDYTSSEWCLDELAEIKDCINQGGLNAIPIFYKLAPSSVLEL 116

Query: 121 TGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFRLAEMSPRN---YKNQL 177
            G FGD+F  L+E++K + E+ + W+ AL+      G      RLAE S RN   + N++
Sbjct: 117 KGGFGDTFRVLKEKYKNDPERTQKWQEALESIPKLKG-----LRLAEKSDRNEREFMNEM 171

Query: 178 V 178
           +
Sbjct: 172 I 172

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C5Q9|P2A05_ARATH Protein PHLOEM PROTEIN 2-LIKE A5 OS=Arabidopsis thaliana GN=PP2A5 PE=2 SV=1

 Score =  116 bits (291), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 60/131 (45%), Positives = 82/131 (62%), Gaps = 1/131 (0%)

Query: 19  VFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFS 78
           VF++FRG+D R  F S L  AL  + I  FID+Q  RG  +  SL   I  S I+L+IFS
Sbjct: 24  VFINFRGKDLRKGFMSFLKPALKKEKINVFIDEQEERGKYLI-SLFDTIGESKIALVIFS 82

Query: 79  EGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKEN 138
           EGY  S WC+DELVKI +   +   I+IP+FYR+D   V++ TG FGD+F  L ++++  
Sbjct: 83  EGYCESHWCMDELVKIKEYMDQNRLIIIPIFYRLDLDVVKDLTGKFGDNFWDLVDKYQPE 142

Query: 139 SEKLKSWRNAL 149
            +KL  W  AL
Sbjct: 143 PKKLHKWTEAL 153

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SYC9|VAP14_ARATH Vesicle-associated protein 1-4 OS=Arabidopsis thaliana GN=PVA14 PE=2 SV=1

 Score =  104 bits (259), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 53/148 (35%), Positives = 85/148 (57%), Gaps = 1/148 (0%)

Query: 13  NINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAI 72
            + +Y VF++FRG++ R++F   L  A+ L+ I  F D+   RG  ++  L   IE S +
Sbjct: 354 TLPQYQVFINFRGDELRNSFVGFLVKAMRLEKINVFTDEVELRGTNLNY-LFRRIEESRV 412

Query: 73  SLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLE 132
           ++ IFSE Y  S WCLDELVK+ +   +   +V+PVFYR++ +  +   G FGD+   LE
Sbjct: 413 AVAIFSERYTESCWCLDELVKMKEQMEQGKLVVVPVFYRLNATACKRFMGAFGDNLRNLE 472

Query: 133 ERFKENSEKLKSWRNALKEAASFSGFDS 160
             ++   E+++ W+ AL    S  G  S
Sbjct: 473 WEYRSEPERIQKWKEALSSVFSNIGLTS 500

May play a role in vesicle trafficking.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHE8|P2A06_ARATH Protein PHLOEM PROTEIN 2-LIKE A6 OS=Arabidopsis thaliana GN=PP2A6 PE=2 SV=1

 Score =  100 bits (248), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 72/189 (38%), Positives = 101/189 (53%), Gaps = 10/189 (5%)

Query: 3   SSSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQS 62
           +SSSS + P       VF+ FRG D R +F S L  AL   +I  FID+    G E++ +
Sbjct: 2   ASSSSVVKPTPTGP-QVFICFRGADVRKHFISFLVPALREANINVFIDENEFLGSEMA-N 59

Query: 63  LVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTG 122
           L+  IE S ++L+IFS  +  S  CL+EL KI + K +   IVIP+FY+V PS V+   G
Sbjct: 60  LLTRIEESELALVIFSVDFTRSHRCLNELAKIKERKDQGRLIVIPIFYKVKPSAVKFLEG 119

Query: 123 PFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFRLAEMSPRNYKNQLVGVES 182
            FGD+F  LE   +      + W+ AL+   S  G  S    LAE S R   +    + S
Sbjct: 120 KFGDNFRALERNNRHMLPITQKWKEALE---SIPG--SIGMPLAEQSERTDND---FINS 171

Query: 183 RVKEIESLL 191
            V +I+ LL
Sbjct: 172 MVIKIQQLL 180

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1

 Score = 89.7 bits (221), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 73/224 (32%), Positives = 110/224 (49%), Gaps = 38/224 (16%)

Query: 17  YDVFLSF-RGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLI 75
           YDV + + R + + ++F SHL ++L  + I  +  ++ N  D        A+    + +I
Sbjct: 668 YDVVIRYGRADISNEDFISHLRASLCRRGISVY--EKFNEVD--------ALPKCRVLII 717

Query: 76  IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSD-VRNQTGPFGDSFSKLEER 134
           + +  Y  S      L+ IL+ +    ++V P+FYR+ P D V N         SK  ER
Sbjct: 718 VLTSTYVPS-----NLLNILEHQHTEDRVVYPIFYRLSPYDFVCN---------SKNYER 763

Query: 135 FKENSEKLKSWRNALKEAASFSGF---DSQNFRLAEMSPRNY--------KNQLVGVESR 183
           F    E  K W+ ALKE     G+   D     L +   R+         K  ++G++ +
Sbjct: 764 FYLQDEP-KKWQAALKEITQMPGYTLTDKSESELIDEIVRDALKVLCSADKVNMIGMDMQ 822

Query: 184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
           V+EI SLL  ES  V ++GIWG  GIGKTTIA  IF KIS  +E
Sbjct: 823 VEEILSLLCIESLDVRSIGIWGTVGIGKTTIAEEIFRKISVQYE 866

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May act also as a disease resistance protein with a serine/threonine-protein kinase activity.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL92|WRK16_ARATH Probable WRKY transcription factor 16 OS=Arabidopsis thaliana GN=WRKY16 PE=2 SV=1

 Score = 89.0 bits (219), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 67/208 (32%), Positives = 105/208 (50%), Gaps = 35/208 (16%)

Query: 26  EDTRDNFTSHLYSALSLKSIQ-TFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASS 84
           E+ R +F SHL  AL  K +   FID   +  +E SQS+V   E + +S++I       S
Sbjct: 14  EEVRYSFVSHLSKALQRKGVNDVFIDSDDSLSNE-SQSMV---ERARVSVMILPGNRTVS 69

Query: 85  RWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKENSEKLKS 144
              LD+LVK+L C++   Q+V+PV Y V  S+    +      FS +    KE S     
Sbjct: 70  ---LDKLVKVLDCQKNKDQVVVPVLYGVRSSETEWLSALDSKGFSSVHHSRKECS----- 121

Query: 145 WRNALKEAASFSGFDSQNFRLAEMSPRNYKNQL-----VGVESRVKEIESLLGAESKYVY 199
                         DSQ   L + + R+   +L     +G+ S++ EIE ++  +   + 
Sbjct: 122 --------------DSQ---LVKETVRDVYEKLFYMERIGIYSKLLEIEKMINKQPLDIR 164

Query: 200 TLGIWGFGGIGKTTIARAIFDKISSNFE 227
            +GIWG  GIGKTT+A+A+FD++S  F+
Sbjct: 165 CVGIWGMPGIGKTTLAKAVFDQMSGEFD 192

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May also act as a disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score = 72.8 bits (177), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 56/205 (27%), Positives = 103/205 (50%), Gaps = 15/205 (7%)

Query: 26  EDTRDNFTSHLYSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYA 82
           E    +  SHL +AL  + I  F+D    Q  +   I Q+         + ++I  E   
Sbjct: 26  ETVLHSLVSHLSAALRREGISVFVDACGLQETKFFSIKQNQPLTDGARVLVVVISDEVEF 85

Query: 83  SSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKENSEKL 142
              W   + +K++Q  +    +V+PVFY VD     + T  +G + S LE      +EKL
Sbjct: 86  YDPW-FPKFLKVIQGWQNNGHVVVPVFYGVD-----SLTRVYGWANSWLE------AEKL 133

Query: 143 KSWRNALKEAASFSGFDSQNFRLAEMSPRNYKNQLVGVESRVKEIESLLGAESKYVYTLG 202
            S ++ +      +  +     + ++  + Y  + VG+ +R+ EIE LL  + + + ++G
Sbjct: 134 TSHQSKILSNNVLTDSELVEEIVRDVYGKLYPAERVGIYARLLEIEKLLYKQHRDIRSIG 193

Query: 203 IWGFGGIGKTTIARAIFDKISSNFE 227
           IWG  GIGKTT+A+A+F+ +S++++
Sbjct: 194 IWGMPGIGKTTLAKAVFNHMSTDYD 218

Arabidopsis thaliana (taxid: 3702)

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	227
255555357	1094	leucine-rich repeat-containing protein,	0.933	0.193	0.578	4e-68
224127754	1125	tir-nbs-lrr resistance protein [Populus	0.991	0.2	0.534	6e-68
317106744	947	JHS03A10.2 [Jatropha curcas]	0.929	0.222	0.548	3e-64
255561496	876	TMV resistance protein N, putative [Rici	0.929	0.240	0.561	9e-64
356569977	833	PREDICTED: TMV resistance protein N-like	0.925	0.252	0.523	3e-62
359496028	1284	PREDICTED: putative disease resistance p	0.933	0.165	0.543	5e-62
255564976	944	TMV resistance protein N, putative [Rici	0.933	0.224	0.543	6e-62
359496034	1132	PREDICTED: TMV resistance protein N-like	0.933	0.187	0.539	7e-62
296090597	1201	unnamed protein product [Vitis vinifera]	0.933	0.176	0.539	9e-62
356545721	653	PREDICTED: protein SUPPRESSOR OF npr1-1,	0.911	0.316	0.533	1e-61

>gi|255555357|ref|XP_002518715.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223542096|gb|EEF43640.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  263 bits (672), Expect = 4e-68,   Method: Compositional matrix adjust.
 Identities = 132/228 (57%), Positives = 163/228 (71%), Gaps = 16/228 (7%)

Query: 16  KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLI 75
           KYDVFLSFRGEDTR NFTSHL++AL+ K I TFIDD L RG+EIS SL+ AIE S IS++
Sbjct: 22  KYDVFLSFRGEDTRYNFTSHLHAALNGKKIPTFIDDDLERGNEISPSLLKAIEESKISVV 81

Query: 76  IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERF 135
           I S+ Y SS+WCL+ELVKIL+C +   Q+VIPVFYRVDPS VRNQTG F D F++ EE  
Sbjct: 82  IISQDYPSSKWCLEELVKILECMKNRGQMVIPVFYRVDPSHVRNQTGSFEDVFARHEESL 141

Query: 136 KENSEKLKSWRNALKEAASFSGFDSQNFR----------------LAEMSPRNYKNQLVG 179
             + EK++SWR ALKE A+ SG+ S + R                L +MSP  Y   LVG
Sbjct: 142 SVSKEKVQSWRAALKEVANLSGWHSTSTRPEAEAVKEIIEVIVKKLNQMSPNCYSRGLVG 201

Query: 180 VESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
           +ESR++EIESLL   S  V  +GIWG GG+GKTT+ARAI+D+I+  FE
Sbjct: 202 MESRIQEIESLLCLRSSNVRIVGIWGMGGLGKTTLARAIYDRIAPQFE 249

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127754|ref|XP_002329169.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222870950|gb|EEF08081.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  262 bits (670), Expect = 6e-68,   Method: Compositional matrix adjust.
 Identities = 130/243 (53%), Positives = 178/243 (73%), Gaps = 18/243 (7%)

Query: 1   MASSSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEIS 60
           MAS+SSS+ +P+   KYDVFLSFRGEDTR  F SHLY+AL  K I TFID +LNRG+EIS
Sbjct: 1   MASTSSSTTTPQE--KYDVFLSFRGEDTRVCFVSHLYAALKRKQISTFIDYKLNRGEEIS 58

Query: 61  QSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQ 120
            SL+ AIE+S +S+++FS+ YASS+WCL+EL KIL+CK+   Q+VIPVFYRVDPS VRNQ
Sbjct: 59  PSLLKAIEDSKLSVVVFSDNYASSKWCLEELAKILECKKVKGQMVIPVFYRVDPSHVRNQ 118

Query: 121 TGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNF----------------R 164
           TG F D+F++ ++  KE  EK+ +WR A++EAA+ SG+DS N                 +
Sbjct: 119 TGSFADAFARHDQLLKEKMEKVLNWRAAMREAANLSGWDSHNIKSESEFVDDIVRDILNK 178

Query: 165 LAEMSPRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISS 224
           L + S   +   L+G+++R+K++E+LL  ES+ V  +GIWG GGIGKTTIA+A++D +S+
Sbjct: 179 LHQTSMSTHHTSLIGIDARIKKVETLLKMESQDVRIVGIWGMGGIGKTTIAKAVYDNVSA 238

Query: 225 NFE 227
            FE
Sbjct: 239 QFE 241

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|317106744|dbj|BAJ53239.1| JHS03A10.2 [Jatropha curcas]

 Score =  250 bits (639), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 125/228 (54%), Positives = 160/228 (70%), Gaps = 17/228 (7%)

Query: 16  KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLI 75
           +YDVFLSFRGEDTRD+FTSHLY+AL  K IQTFID+ L RG EIS SL+ AIE S IS+ 
Sbjct: 9   RYDVFLSFRGEDTRDSFTSHLYAALCDKKIQTFIDNNLVRGKEISSSLLKAIEESKISVP 68

Query: 76  IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERF 135
           I SE YASS+WCL+EL +I++C ++  QIVIPVFYR+ PSDVRNQTG F D+F++ E+  
Sbjct: 69  ILSENYASSKWCLEELAEIIKCMKKNGQIVIPVFYRIRPSDVRNQTGSFHDAFARYEKSL 128

Query: 136 KENSEKLKSWRNALKEAASFSGFDSQNFR----------------LAEMSPRNYKNQLVG 179
             N +K++ WR ALKE A  SG+DS   R                L  + P +Y + L+G
Sbjct: 129 MVNKDKVQRWRAALKEVAGLSGWDSMAIRPESTLIHEVLKDILKKLNRIFP-SYSSGLIG 187

Query: 180 VESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
           ++SR+K IE+L+  ES    T+GIWG GG GKTT+ARA +D+IS  FE
Sbjct: 188 IDSRIKHIEALISMESSAARTVGIWGMGGSGKTTLARATYDRISYQFE 235

Source: Jatropha curcas

Species: Jatropha curcas

Genus: Jatropha

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561496|ref|XP_002521758.1| TMV resistance protein N, putative [Ricinus communis] gi|223538971|gb|EEF40568.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  249 bits (635), Expect = 9e-64,   Method: Compositional matrix adjust.
 Identities = 128/228 (56%), Positives = 163/228 (71%), Gaps = 17/228 (7%)

Query: 16  KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLI 75
           KYDVFLSFRGEDTRDNFTSHLYSAL+ K I TF+D ++ RG+EIS S+  AI+ S +S+I
Sbjct: 10  KYDVFLSFRGEDTRDNFTSHLYSALNKKKIFTFMDKEIKRGEEISPSIAKAIKGSKLSVI 69

Query: 76  IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERF 135
           IFSE YA S+WCLDEL KIL+CK+   QIVIPVFYRVDP  VRNQ G F  +F+K EE  
Sbjct: 70  IFSEKYAFSKWCLDELTKILECKKMNGQIVIPVFYRVDPVHVRNQRGSFACAFAKHEETL 129

Query: 136 KENSEKLKSWRNALKEAASFSGFDSQNFR----------------LAEMSPRNYKNQLVG 179
           KE  EK++SWR+AL EA S SG++S   R                L + SP ++   LVG
Sbjct: 130 KERMEKVESWRSALNEAGSISGWNSLVARPESKLIEEIVKDISKKLNQTSP-SHSIGLVG 188

Query: 180 VESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
           ++SR+++IES+L  +   V  +G+WG GGIGKTT+A AIFD+IS+ +E
Sbjct: 189 IDSRLEQIESMLCLDMSDVRIIGVWGMGGIGKTTLAGAIFDQISAQYE 236

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356569977|ref|XP_003553169.1| PREDICTED: TMV resistance protein N-like [Glycine max]

 Score =  244 bits (622), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 123/235 (52%), Positives = 159/235 (67%), Gaps = 25/235 (10%)

Query: 9   LSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIE 68
           LSP+   KYDVFLSFRGEDTR NFTSHLY AL  K ++T+ID+ L +GDEIS +L+ AIE
Sbjct: 15  LSPK---KYDVFLSFRGEDTRRNFTSHLYEALKQKKVETYIDEHLEKGDEISPALIKAIE 71

Query: 69  NSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSF 128
           +S +S+++FS+ YASS+WCL EL+KIL CK++  QIVIPVFY +DPSDVR QTG +  +F
Sbjct: 72  DSHVSIVVFSKNYASSKWCLVELIKILDCKKDRGQIVIPVFYEIDPSDVRKQTGSYEQAF 131

Query: 129 SKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFR-------------LAEMSPRNYKN 175
           +K      E       W+ AL EAA+ +G+DS+ +R             L ++ PR Y+N
Sbjct: 132 AK-----HEGEPSCNKWKTALTEAANLAGWDSRTYRTDPELLKDIVADVLQKLPPR-YQN 185

Query: 176 Q---LVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
           Q   LVG+E   K IESLL      V TLGIWG GGIGKT +A  ++DK+S  FE
Sbjct: 186 QRKGLVGIEEHCKHIESLLKIGPTEVRTLGIWGMGGIGKTALATTLYDKLSHEFE 240

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496028|ref|XP_003635135.1| PREDICTED: putative disease resistance protein At4g11170-like [Vitis vinifera] gi|296090593|emb|CBI40962.3| unnamed protein product [Vitis vinifera]

 Score =  243 bits (619), Expect = 5e-62,   Method: Compositional matrix adjust.
 Identities = 124/228 (54%), Positives = 160/228 (70%), Gaps = 16/228 (7%)

Query: 15  NKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDD-QLNRGDEISQSLVYAIENSAIS 73
           +KYDVFLSFRGEDTR+NFT+HLY AL  K I TFIDD +L RG+ IS +LV AIENS  S
Sbjct: 23  HKYDVFLSFRGEDTRNNFTAHLYHALCQKGIYTFIDDDKLERGEVISSALVEAIENSMFS 82

Query: 74  LIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEE 133
           +I+ SE YASSRWCL+ELVKIL+CK    Q V+P+FY VDP+DVR Q G FG++ +K  +
Sbjct: 83  IIVLSENYASSRWCLEELVKILECKENKGQTVLPIFYHVDPADVRKQRGKFGEALAK-HK 141

Query: 134 RFKENSEKLKSWRNALKEAASFSGFDSQN---FRLAEMSPRNYKNQ-----------LVG 179
           +  EN E++K W++AL + A  SG+DSQN     L +    N  N+           LVG
Sbjct: 142 KNMENMERVKIWKDALTKVAYLSGWDSQNKNELLLIKEVAENIWNKLLSTLTSDTEDLVG 201

Query: 180 VESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
           ++S ++E+E+LL  E+  V  +GIWG GGIGKTT+ARAI+ KIS  FE
Sbjct: 202 IDSHIQEVETLLCLEADDVRMVGIWGMGGIGKTTLARAIYKKISDKFE 249

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255564976|ref|XP_002523481.1| TMV resistance protein N, putative [Ricinus communis] gi|223537309|gb|EEF38940.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  243 bits (619), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 124/228 (54%), Positives = 153/228 (67%), Gaps = 16/228 (7%)

Query: 16  KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLI 75
           KYDVF+SFRGEDTRDNFTSHLY+AL  K I+ F+DD+L+RG+EIS +LV  IE S +S+I
Sbjct: 15  KYDVFVSFRGEDTRDNFTSHLYAALHQKQIKAFVDDKLSRGEEISAALVKVIEESMVSVI 74

Query: 76  IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERF 135
           IFSE YA S WCLDELVKIL+CK+   QIV+PVFY VDPSDV  Q G FG +F + E+ F
Sbjct: 75  IFSENYAFSPWCLDELVKILECKKTVGQIVLPVFYHVDPSDVAEQKGGFGAAFIEHEKCF 134

Query: 136 KENSEKLKSWRNALKEAASFSGFDSQNFR----------------LAEMSPRNYKNQLVG 179
           KE  +KL+ WR AL EAA+ SG+ S   R                L  MS       LVG
Sbjct: 135 KERIDKLQKWRAALTEAANISGWSSSVIRSESKLIQEIAEDILKKLNHMSSSTDSKGLVG 194

Query: 180 VESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
           + SR+ +IE LL  E   V  LG+WG GG GKTT A  +F++IS+ F+
Sbjct: 195 INSRIDKIELLLCVELADVRFLGLWGMGGAGKTTTAEVVFNRISTQFD 242

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496034|ref|XP_002277500.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  242 bits (618), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 123/228 (53%), Positives = 162/228 (71%), Gaps = 16/228 (7%)

Query: 16  KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFID-DQLNRGDEISQSLVYAIENSAISL 74
           KYDVFLSFRGEDTR+NFT+HLY AL  K I  FID D+L  G+ IS +L+ AIE S  S+
Sbjct: 9   KYDVFLSFRGEDTRNNFTAHLYDALHCKGINAFIDADKLRIGEIISPALLSAIEGSRFSI 68

Query: 75  IIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEER 134
           ++ SE YASSRWCL+ELVKIL+CK+   Q+V+P+FY+VDPSDVR Q G +G +F+K EE 
Sbjct: 69  VVLSENYASSRWCLEELVKILECKKTKGQVVLPIFYQVDPSDVRKQKGSYGKAFAKHEEN 128

Query: 135 FKENSEKLKSWRNALKEAASFSGFDSQN------------FRLAEM--SP-RNYKNQLVG 179
            KEN EK+  WR AL E  + SG DS+N              L E+  +P  + ++QLVG
Sbjct: 129 MKENMEKVHIWREALSEVGNISGRDSRNKDESVLIKEIVSMLLNELLSTPSSDAEDQLVG 188

Query: 180 VESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
           + S+++E+E LL  ES  V  +GIWG GGIGKTT+A+AI++++SS FE
Sbjct: 189 IGSQIREMELLLCTESTDVRMVGIWGMGGIGKTTLAQAIYNQVSSQFE 236

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296090597|emb|CBI40966.3| unnamed protein product [Vitis vinifera]

 Score =  242 bits (617), Expect = 9e-62,   Method: Compositional matrix adjust.
 Identities = 123/228 (53%), Positives = 162/228 (71%), Gaps = 16/228 (7%)

Query: 16  KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFID-DQLNRGDEISQSLVYAIENSAISL 74
           KYDVFLSFRGEDTR+NFT+HLY AL  K I  FID D+L  G+ IS +L+ AIE S  S+
Sbjct: 9   KYDVFLSFRGEDTRNNFTAHLYDALHCKGINAFIDADKLRIGEIISPALLSAIEGSRFSI 68

Query: 75  IIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEER 134
           ++ SE YASSRWCL+ELVKIL+CK+   Q+V+P+FY+VDPSDVR Q G +G +F+K EE 
Sbjct: 69  VVLSENYASSRWCLEELVKILECKKTKGQVVLPIFYQVDPSDVRKQKGSYGKAFAKHEEN 128

Query: 135 FKENSEKLKSWRNALKEAASFSGFDSQN------------FRLAEM--SP-RNYKNQLVG 179
            KEN EK+  WR AL E  + SG DS+N              L E+  +P  + ++QLVG
Sbjct: 129 MKENMEKVHIWREALSEVGNISGRDSRNKDESVLIKEIVSMLLNELLSTPSSDAEDQLVG 188

Query: 180 VESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
           + S+++E+E LL  ES  V  +GIWG GGIGKTT+A+AI++++SS FE
Sbjct: 189 IGSQIREMELLLCTESTDVRMVGIWGMGGIGKTTLAQAIYNQVSSQFE 236

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356545721|ref|XP_003541284.1| PREDICTED: protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1-like [Glycine max]

 Score =  241 bits (616), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 121/227 (53%), Positives = 156/227 (68%), Gaps = 20/227 (8%)

Query: 16  KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLI 75
           KYDVFLSFRGEDTR NFT HLY AL  K I+T+ID+QL +GD+I+ +L  AIE+S IS++
Sbjct: 23  KYDVFLSFRGEDTRRNFTCHLYEALMQKKIKTYIDEQLEKGDQIALALTKAIEDSCISIV 82

Query: 76  IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERF 135
           IFS+ YASS+WCL EL KIL+CK+E  QIVIPVFY +DPS VR Q G +  +F+KL    
Sbjct: 83  IFSDNYASSKWCLGELFKILECKKEKGQIVIPVFYNIDPSHVRKQIGSYKQAFAKL---- 138

Query: 136 KENSEKLKSWRNALKEAASFSGFDSQNFR------------LAEMSPRNYKNQ---LVGV 180
            E   +   W++AL EAA+  G DS+N+R            ++E  PR Y+NQ   LVG+
Sbjct: 139 -EGEPECNKWKDALTEAANLVGLDSKNYRNDVELLKDIVRAVSEKLPRRYQNQSKGLVGI 197

Query: 181 ESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
           E   K IES L   S  V TLGIWG GGIGK+T+A A+++++S  FE
Sbjct: 198 EEHYKRIESFLNNGSSEVRTLGIWGMGGIGKSTLATALYNELSPEFE 244

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	227
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.907	0.180	0.481	1.1e-46
TAIR|locus:2136108	1095	AT4G11170 [Arabidopsis thalian	0.920	0.190	0.464	1.9e-45
TAIR|locus:2153072	1229	AT5G51630 [Arabidopsis thalian	0.920	0.170	0.466	9e-43
TAIR|locus:2160472	1038	AT5G41540 [Arabidopsis thalian	0.938	0.205	0.426	1.3e-42
TAIR|locus:2175075	1068	AT5G41750 [Arabidopsis thalian	0.925	0.196	0.449	2.3e-42
TAIR|locus:2155189	980	AT5G49140 [Arabidopsis thalian	0.911	0.211	0.455	3.8e-42
TAIR|locus:2205824	1384	AT1G27170 [Arabidopsis thalian	0.929	0.152	0.445	3.9e-42
TAIR|locus:2151506	1127	RPS6 "RESISTANT TO P. SYRINGAE	0.920	0.185	0.438	1.1e-41
TAIR|locus:2130319	796	RLM3 "RESISTANCE TO LEPTOSPHAE	0.916	0.261	0.455	3.8e-41
TAIR|locus:2129236	1301	SNC1 "SUPPRESSOR OF NPR1-1, CO	0.911	0.159	0.458	5.2e-41

UNIPROTKB|Q40392 N "TMV resistance protein N" [Nicotiana glutinosa (taxid:35889)]

 Score = 500 (181.1 bits), Expect = 1.1e-46, P = 1.1e-46
 Identities = 107/222 (48%), Positives = 145/222 (65%)

Query:    17 YDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQ-LNRGDEISQSLVYAIENSAISLI 75
             YDVFLSFRGEDTR  FTSHLY  L+ K I+TF DD+ L  G  I   L  AIE S  +++
Sbjct:    12 YDVFLSFRGEDTRKTFTSHLYEVLNDKGIKTFQDDKRLEYGATIPGELCKAIEESQFAIV 71

Query:    76 IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERF 135
             +FSE YA+SRWCL+ELVKI++CK  + Q VIP+FY VDPS VRNQ   F  +F + E ++
Sbjct:    72 VFSENYATSRWCLNELVKIMECKTRFKQTVIPIFYDVDPSHVRNQKESFAKAFEEHETKY 131

Query:   136 KENSEKLKSWRNALKEAASFSGF-------DSQNFR--LAEMSPR------NYKNQLVGV 180
             K++ E ++ WR AL EAA+  G        D+   R  + ++S +      +Y   +VG+
Sbjct:   132 KDDVEGIQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKLCKISLSYLQNIVGI 191

Query:   181 ESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI 222
             ++ +++IESLL      V  +GIWG GG+GKTTIARAIFD +
Sbjct:   192 DTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTL 233

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2136108 AT4G11170 [Arabidopsis thaliana (taxid:3702)]

 Score = 488 (176.8 bits), Expect = 1.9e-45, P = 1.9e-45
 Identities = 105/226 (46%), Positives = 142/226 (62%)

Query:    16 KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLI 75
             +YDVF SFRGED R+NF SHL      K I TF DD + R   I   L  AI  S IS++
Sbjct:    10 RYDVFPSFRGEDVRNNFLSHLLKEFESKGIVTFRDDHIKRSHTIGHELRAAIRESKISVV 69

Query:    76 IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERF 135
             +FSE YASS WCLDEL++I++CK E    V+PVFY+VDPSD+R QTG FG SF  LE   
Sbjct:    70 LFSENYASSSWCLDELIEIMKCKEEQGLKVMPVFYKVDPSDIRKQTGKFGMSF--LETCC 127

Query:   136 KENSEKLKSWRNALKEAASFSG-----FDSQNFRLAEMS----------PRNYKNQLVGV 180
              +  E+  +WR AL +AA+  G     +D++ +++  +S          P    N LVG+
Sbjct:   128 GKTEERQHNWRRALTDAANILGDHPQNWDNEAYKITTISKDVLEKLNATPSRDFNDLVGM 187

Query:   181 ESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF 226
             E+ + ++ESLL  ES+ V  +GIWG  G+GKTTIARA++++   NF
Sbjct:   188 EAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTIARALYNQYHENF 233

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0010193 "response to ozone" evidence=IEP

TAIR|locus:2153072 AT5G51630 [Arabidopsis thaliana (taxid:3702)]

 Score = 464 (168.4 bits), Expect = 9.0e-43, P = 9.0e-43
 Identities = 106/227 (46%), Positives = 140/227 (61%)

Query:    17 YDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLII 76
             YDVF SF GED R +F SHL   L  KSI TFID+ + R   I+  L+ AI NS IS+++
Sbjct:    11 YDVFPSFSGEDVRKSFLSHLLKKLHRKSINTFIDNNIERSHAIAPDLLSAINNSMISIVV 70

Query:    77 FSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFK 136
             FS+ YASS WCL+ELV+I +C +E  QIVIP+FY VDPSDVR QT  FG+ F K+    K
Sbjct:    71 FSKKYASSTWCLNELVEIHKCYKELTQIVIPIFYEVDPSDVRKQTREFGEFF-KVTCVGK 129

Query:   137 ENSEKLKSWRNALKEAASFSGFDSQNF----------------RLAEMSPRNYKNQLVGV 180
                 K + W  AL+E AS +G DS+N+                +L   S  N    LVG+
Sbjct:   130 TEDVK-QQWIEALEEVASIAGHDSKNWPNEANMIEHIAKDVLNKLIATSSSNCFGDLVGI 188

Query:   181 ESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
             E+ +K ++S+L  ES+    +GI G  GIGKTTIAR ++ K+SS F+
Sbjct:   189 EAHLKAVKSILCLESEEARMVGILGPSGIGKTTIARILYSKLSSQFD 235

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2160472 AT5G41540 [Arabidopsis thaliana (taxid:3702)]

 Score = 461 (167.3 bits), Expect = 1.3e-42, P = 1.3e-42
 Identities = 98/230 (42%), Positives = 141/230 (61%)

Query:    13 NINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAI 72
             ++ KY VF SF G D R  F SHL    ++K I  F D ++ RG  I   LV AI  S +
Sbjct:     7 HVRKYHVFPSFHGSDVRRKFLSHLRFHFAIKGIVAFKDQEIERGQRIGPELVQAIRESRV 66

Query:    73 SLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLE 132
             SL++ S+ Y SS WCLDELV+IL+CK +  QIV+P+FY +DPSDVR Q+G FG +F K  
Sbjct:    67 SLVVLSKNYPSSSWCLDELVEILKCKEDQEQIVMPIFYEIDPSDVRKQSGDFGKAFGKT- 125

Query:   133 ERFKENSEKLKSWRNALKEAASFSGFDSQNFR---------LAEMS------PRNYKNQL 177
                 +  E  + W NAL EAA+  G  S N+          +A++S      P     ++
Sbjct:   126 -CVGKTKEVKQRWTNALTEAANIGGEHSLNWTDEAEMIEKIVADVSNKLNVIPSRDFEEM 184

Query:   178 VGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
             VG+++ +++++SLL   S  V  +GIWG  GIGKTTIARA+++++S+NF+
Sbjct:   185 VGLDAHLRKLDSLLCLNSDEVKMIGIWGPAGIGKTTIARALYNQLSTNFQ 234

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2175075 AT5G41750 [Arabidopsis thaliana (taxid:3702)]

 Score = 459 (166.6 bits), Expect = 2.3e-42, P = 2.3e-42
 Identities = 103/229 (44%), Positives = 142/229 (62%)

Query:    14 INKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAIS 73
             I +Y VF SF G D R  F SHL+S  + K I TF D +++RG  I   L+  I  + +S
Sbjct:    10 IKRYQVFSSFHGPDVRKGFLSHLHSVFASKGITTFNDQKIDRGQTIGPELIQGIREARVS 69

Query:    74 LIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEE 133
             +++ S+ YASS WCLDELV+IL+CK    QIV+ VFY VDPSDV+ Q+G FG++F K  +
Sbjct:    70 IVVLSKKYASSSWCLDELVEILKCKEALGQIVMTVFYEVDPSDVKKQSGVFGEAFEKTCQ 129

Query:   134 RFKENSEKLKSWRNALKEAASFSGFDSQNF-RLAEM--------------SP-RNYKNQL 177
               K    K++ WRNAL   A+ +G  S N+   A+M              +P R+++  +
Sbjct:   130 G-KNEEVKIR-WRNALAHVATIAGEHSLNWDNEAKMIQKIVTDVSDKLNLTPSRDFEG-M 186

Query:   178 VGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF 226
             VG+E+ +K + SLL  ES  V  +GIWG  GIGKTTIAR +F+KISS F
Sbjct:   187 VGMEAHLKRLNSLLCLESDEVKMIGIWGPAGIGKTTIARTLFNKISSIF 235

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2155189 AT5G49140 [Arabidopsis thaliana (taxid:3702)]

 Score = 456 (165.6 bits), Expect = 3.8e-42, P = 3.8e-42
 Identities = 103/226 (45%), Positives = 137/226 (60%)

Query:    16 KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLI 75
             KYDVF SFRGED R NF SHL      K I TF DD + R   I   L  A+  S I ++
Sbjct:    14 KYDVFPSFRGEDVRGNFLSHLMKEFESKGIVTFKDDLIERSQTIGLELKEAVRQSKIFVV 73

Query:    76 IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERF 135
             IFS+ YASS WCLDELV+IL+CK E  + +IP+FY+V+PSDVRNQTG FG  F +  E  
Sbjct:    74 IFSKNYASSSWCLDELVEILKCKEE--RRLIPIFYKVNPSDVRNQTGKFGRGFRETCEG- 130

Query:   136 KENSEKLKSWRNALKEAASFSGFDSQNFR-------------LAEMS--PRNYKNQLVGV 180
              +N E    W+ AL EAA+ +G DSQ+++             LA+++  P N    ++G+
Sbjct:   131 -KNDETQNKWKAALTEAANIAGEDSQSWKNEADFLTKIAKDILAKLNGTPSNDFENIIGI 189

Query:   181 ESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF 226
             ES ++++  LL      V  +GIWG  GIGKTTIAR +  + S +F
Sbjct:   190 ESHMEKMVQLLCLNDDDVRMVGIWGPAGIGKTTIARVLHSRFSGDF 235

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2205824 AT1G27170 [Arabidopsis thaliana (taxid:3702)]

 Score = 459 (166.6 bits), Expect = 3.9e-42, P = 3.9e-42
 Identities = 102/229 (44%), Positives = 141/229 (61%)

Query:    16 KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQ-LNRGDEISQSLVYAIENSAISL 74
             KYDVFLSFRG DTRDNF  HLY AL  K ++ F D++ + RGDEIS SL   +E+SA S+
Sbjct:    13 KYDVFLSFRGADTRDNFGDHLYKALKDK-VRVFRDNEGMERGDEISSSLKAGMEDSAASV 71

Query:    75 IIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEER 134
             I+ S  Y+ SRWCLDEL  + + K    + ++P+FY VDPS VR Q+      F + + R
Sbjct:    72 IVISRNYSGSRWCLDELAMLCKMKSSLDRRILPIFYHVDPSHVRKQSDHIKKDFEEHQVR 131

Query:   135 FKENSEKLKSWRNALKEAASFSGF----DSQNFR---------LAEMS--PRNYKNQLVG 179
             F E  EK++ WR AL    + +G+    DS++           LAE+S  P      +VG
Sbjct:   132 FSEEKEKVQEWREALTLVGNLAGYVCDKDSKDDDMIELVVKRVLAELSNTPEKVGEFIVG 191

Query:   180 VESRVKEIESLLGAESKY-VYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
             +ES +K++  L+  ES   V  LG++G GGIGKTT+A+A ++KI  NFE
Sbjct:   192 LESPLKDLTGLIDTESSSGVQVLGLYGMGGIGKTTLAKAFYNKIVGNFE 240

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2151506 RPS6 "RESISTANT TO P. SYRINGAE 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 453 (164.5 bits), Expect = 1.1e-41, P = 1.1e-41
 Identities = 99/226 (43%), Positives = 140/226 (61%)

Query:    17 YDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLII 76
             Y VF SF GED R+ F SH    L  K I +F D+++ R   +   L + I NS I++++
Sbjct:    14 YHVFPSFSGEDVRNTFLSHFLKELDRKLIISFKDNEIERSQSLDPELKHGIRNSRIAVVV 73

Query:    77 FSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFK 136
             FS+ YASS WCL+EL++I++CK+E+ Q+VIP+FY +DPS VR QTG FG  F K   R K
Sbjct:    74 FSKTYASSSWCLNELLEIVKCKKEFGQLVIPIFYNLDPSHVRKQTGDFGKIFEKTC-RNK 132

Query:   137 ENSEKLKSWRNALKEAASFSGF-----DSQ--------NFRLAEM--SPRNYKNQLVGVE 181
                EK++ W+ AL + A+  G+     D++        N  L +M  SP N    LVG+E
Sbjct:   133 TVDEKIR-WKEALTDVANILGYHIVTWDNEASMIEEIANDILGKMNISPSNDFEDLVGIE 191

Query:   182 SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE 227
               + ++ SLL  ES+ V  +GIWG  GIGKTTIARA+F ++S  F+
Sbjct:   192 DHITKMSSLLHLESEEVRMVGIWGPSGIGKTTIARALFSRLSCQFQ 237

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0042742 "defense response to bacterium" evidence=IMP

TAIR|locus:2130319 RLM3 "RESISTANCE TO LEPTOSPHAERIA MACULANS 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 444 (161.4 bits), Expect = 3.8e-41, P = 3.8e-41
 Identities = 102/224 (45%), Positives = 137/224 (61%)

Query:    17 YDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLII 76
             YDVF +FRGED R +  SHL   L  K I TF D+++ R  +I+  L+ AIENS ISL++
Sbjct:     9 YDVFPNFRGEDVRHSLVSHLRKELDRKFINTFNDNRIERSRKITPELLLAIENSRISLVV 68

Query:    77 FSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFK 136
             FS+ YASS WCLDELVKI +C  +  Q+VIP+FY+VDPS VR QTG FG  F +  +   
Sbjct:    69 FSKNYASSTWCLDELVKIQECYEKLDQMVIPIFYKVDPSHVRKQTGEFGMVFGETCKGRT 128

Query:   137 ENSEKLKSWRNALKEAASFSGFDSQNFRL-AEM-------------SPRNYKNQLVGVES 182
             EN EK K W  AL E A  +G D +N+R  AEM              P N  +  VG+E+
Sbjct:   129 EN-EKRK-WMRALAEVAHLAGEDLRNWRSEAEMLENIAKDVSNKLFPPSNNFSDFVGIEA 186

Query:   183 RVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF 226
              ++ + S+L  +SK    +GI G    GKTTI RA++ ++ S+F
Sbjct:   187 HIEALISMLRFDSKKARMIGICGPSETGKTTIGRALYSRLKSDF 230

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009817 "defense response to fungus, incompatible interaction" evidence=IMP

GO:0009861 "jasmonic acid and ethylene-dependent systemic resistance" evidence=IMP

GO:2000071 "regulation of defense response by callose deposition" evidence=IMP

GO:0015979 "photosynthesis" evidence=RCA

TAIR|locus:2129236 SNC1 "SUPPRESSOR OF NPR1-1, CONSTITUTIVE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 448 (162.8 bits), Expect = 5.2e-41, P = 5.2e-41
 Identities = 104/227 (45%), Positives = 141/227 (62%)

Query:    16 KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLI 75
             +YDVF SFRGED RD+F SHL   L  K+I TFIDD++ R   I   L+ AI+ S I+++
Sbjct:    11 RYDVFPSFRGEDVRDSFLSHLLKELRGKAI-TFIDDEIERSRSIGPELLSAIKESRIAIV 69

Query:    76 IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERF 135
             IFS+ YASS WCL+ELV+I +C     Q+VIP+F+ VD S+V+ QTG FG  F   EE  
Sbjct:    70 IFSKNYASSTWCLNELVEIHKCYTNLNQMVIPIFFHVDASEVKKQTGEFGKVF---EETC 126

Query:   136 KENSEKLK-SWRNALKEAASFSGFDSQNF--------RLAE------MSPRNYKNQLVGV 180
             K  SE  K SW+ AL   A  +G+D + +         LAE      M+P +    LVG+
Sbjct:   127 KAKSEDEKQSWKQALAAVAVMAGYDLRKWPSEAAMIEELAEDVLRKTMTPSDDFGDLVGI 186

Query:   181 ESRVKEIESLLGAESKYVYTL-GIWGFGGIGKTTIARAIFDKISSNF 226
             E+ ++ I+S+L  ESK    + GIWG  GIGK+TI RA++ K+S  F
Sbjct:   187 ENHIEAIKSVLCLESKEARIMVGIWGQSGIGKSTIGRALYSKLSIQF 233

GO:0000166 "nucleotide binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM;IDA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=NAS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=IMP

GO:0009733 "response to auxin stimulus" evidence=IGI

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0042742 "defense response to bacterium" evidence=IGI;IMP

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

---

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	227
PLN03210	1153	PLN03210, PLN03210, Resistant to P	3e-63
pfam01582	135	pfam01582, TIR, TIR domain	1e-43
smart00255	140	smart00255, TIR, Toll - interleukin 1 - resistance	1e-38
PLN03194	187	PLN03194, PLN03194, putative disease resistance pr	8e-14
pfam13676	102	pfam13676, TIR_2, TIR domain	7e-12
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	0.003

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score =  212 bits (541), Expect = 3e-63
 Identities = 107/242 (44%), Positives = 145/242 (59%), Gaps = 21/242 (8%)

Query: 1   MASSSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEIS 60
           MASSSSSS   RN   YDVF SF GED R  F SH    L  K I  F D+++ R   + 
Sbjct: 1   MASSSSSS---RNWV-YDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLD 56

Query: 61  QSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQ 120
             L  AI +S I++++FS+ YASS WCL+EL++I++CK E  Q+VIPVFY +DPS VR Q
Sbjct: 57  PELKQAIRDSRIAVVVFSKNYASSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQ 116

Query: 121 TGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQN-FRLAEM----------- 168
           TG FG++F K  +   E+ +    W+ AL + A+  G+ SQN    A+M           
Sbjct: 117 TGDFGEAFEKTCQNKTEDEKIQ--WKQALTDVANILGYHSQNWPNEAKMIEEIANDVLGK 174

Query: 169 ---SPRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSN 225
              +P N     VG+E  + ++ SLL  ES+ V  +GIWG  GIGKTTIARA+F ++S  
Sbjct: 175 LNLTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQ 234

Query: 226 FE 227
           F+
Sbjct: 235 FQ 236

syringae 6; Provisional. Length = 1153

>gnl|CDD|216585 pfam01582, TIR, TIR domain

 Score =  143 bits (362), Expect = 1e-43
 Identities = 62/135 (45%), Positives = 88/135 (65%), Gaps = 3/135 (2%)

Query: 19  VFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIF 77
           VF+SF G+D RD F SHL   L  K I+  IDD     G+ I ++L  AIE S  +++IF
Sbjct: 1   VFVSFSGKDDRDTFVSHLLKELEEKGIKLCIDDRDELPGESILENLFEAIEKSRRAIVIF 60

Query: 78  SEGYASSRWCLDELVKILQCKRE--YAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERF 135
           S  YASS WCLDELV+I++C  E    ++++P+FY+VDPSDVR Q+G FG +F K  +  
Sbjct: 61  SSNYASSEWCLDELVEIVKCALEGGGKKVILPIFYKVDPSDVRPQSGKFGKAFLKTLKWS 120

Query: 136 KENSEKLKSWRNALK 150
            +  +K++ W+ AL 
Sbjct: 121 GDKEDKIRFWKKALY 135

The Toll/interleukin-1 receptor (TIR) homology domain is an intracellular signalling domain found in MyD88, interleukin 1 receptor and the Toll receptor. It contains three highly-conserved regions, and mediates protein-protein interactions between the Toll-like receptors (TLRs) and signal-transduction components. TIR-like motifs are also found in plant proteins thought to be involved in resistance to disease. When activated, TIR domains recruit cytoplasmic adaptor proteins MyD88 and TOLLIP (Toll interacting protein). In turn, these associate with various kinases to set off signalling cascades. Length = 135

>gnl|CDD|214587 smart00255, TIR, Toll - interleukin 1 - resistance

 Score =  130 bits (328), Expect = 1e-38
 Identities = 60/141 (42%), Positives = 78/141 (55%), Gaps = 4/141 (2%)

Query: 16  KYDVFLSFRG-EDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISL 74
           +YDVF+S+ G ED R+ F SHL   L    +  FIDD    G    + +  AIE S I++
Sbjct: 1   EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFE-PGGGDLEEIDEAIEKSRIAI 59

Query: 75  IIFSEGYASSRWCLDELVKILQCKREYAQI-VIPVFYRVDPSDVRNQTGPFGDSFSKLEE 133
           ++ S  YA S WCLDELV  L+   E   + VIP+FY V PSDVR Q G F   F K   
Sbjct: 60  VVLSPNYAESEWCLDELVAALENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVFKKNYL 119

Query: 134 RFKENSEKLKSWRNALKEAAS 154
           ++ E  EK + W+ AL    S
Sbjct: 120 KWPE-DEKEQFWKKALYAVPS 139

Length = 140

>gnl|CDD|215626 PLN03194, PLN03194, putative disease resistance protein; Provisional

 Score = 66.8 bits (163), Expect = 8e-14
 Identities = 47/161 (29%), Positives = 79/161 (49%), Gaps = 19/161 (11%)

Query: 10  SPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQ-LNRGDEISQSLVYAIE 68
           S  +    DVF++ RG DT+    + LY  LS  +++ F+D++ +  GD++   +  AI 
Sbjct: 20  SSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIR 79

Query: 69  NSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSF 128
           N  + + +FS  Y  S +CL EL  I++ K+     VIP+F  V PS +R          
Sbjct: 80  NCKVGVAVFSPRYCESYFCLHELALIMESKKR----VIPIFCDVKPSQLR---------- 125

Query: 129 SKLEERFKENSEKLKSWRNALKEAASFSG--FDSQNFRLAE 167
             + +      E+++ +  AL+EA    G  FDS     +E
Sbjct: 126 --VVDNGTCPDEEIRRFNWALEEAKYTVGLTFDSLKGNWSE 164

Length = 187

>gnl|CDD|222311 pfam13676, TIR_2, TIR domain

 Score = 59.5 bits (145), Expect = 7e-12
 Identities = 25/108 (23%), Positives = 49/108 (45%), Gaps = 11/108 (10%)

Query: 19  VFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFS 78
           VF+S+   D    +   L  AL    I+ ++D  +  G++    +  A+ ++ + L++ S
Sbjct: 1   VFISYASADRE--WAEWLADALEAAGIRVWLDWDIPPGEDWRDEIEEALRSADVVLVLLS 58

Query: 79  EGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGD 126
             Y +S WC  E    L+  +     +IPV  R++  ++    G  G 
Sbjct: 59  PAYLASPWCRAEWGAALERGK----RLIPV--RLEDCEL---PGLLGQ 97

This is a family of bacterial Toll-like receptors. Length = 102

>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain

 Score = 37.3 bits (87), Expect = 0.003
 Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 5/50 (10%)

Query: 183 RVKEIESLLG---AESKYVYTLGIWGFGGIGKTTIARAIFDK--ISSNFE 227
           R   IE+L+      S  +  +GI G GG+GKTT+A+ I++   +  +F+
Sbjct: 1   REDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFD 50

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	227
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PLN03194	187	putative disease resistance protein; Provisional	100.0
PF01582	141	TIR: TIR domain; InterPro: IPR000157 In Drosophila	99.87
smart00255	140	TIR Toll - interleukin 1 - resistance.	99.86
PF13676	102	TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_	99.7
KOG3678	832	consensus SARM protein (with sterile alpha and arm	98.98
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.69
PF08937	130	DUF1863: MTH538 TIR-like domain (DUF1863); InterPr	98.56
PF08357	150	SEFIR: SEFIR domain; InterPro: IPR013568 This doma	98.06
PTZ00202	550	tuzin; Provisional	97.7
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.58
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.53
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	97.52
PRK00411	394	cdc6 cell division control protein 6; Reviewed	97.47
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.16
PRK13342	413	recombination factor protein RarA; Reviewed	97.02
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	96.96
PF10137	125	TIR-like: Predicted nucleotide-binding protein con	96.95
PRK03992	389	proteasome-activating nucleotidase; Provisional	96.85
PRK04195	482	replication factor C large subunit; Provisional	96.78
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	96.75
COG2256	436	MGS1 ATPase related to the helicase subunit of the	96.72
CHL00095	821	clpC Clp protease ATP binding subunit	96.63
PRK09376	416	rho transcription termination factor Rho; Provisio	96.57
PHA02544	316	44 clamp loader, small subunit; Provisional	96.57
PRK13341	725	recombination factor protein RarA/unknown domain f	96.57
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.56
PRK12402	337	replication factor C small subunit 2; Reviewed	96.56
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.48
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.46
PRK15455	644	PrkA family serine protein kinase; Provisional	96.42
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.41
PTZ00112	1164	origin recognition complex 1 protein; Provisional	96.39
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.37
PLN03025	319	replication factor C subunit; Provisional	96.34
PRK10865	857	protein disaggregation chaperone; Provisional	96.31
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.3
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.29
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	96.23
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.23
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.22
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.21
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.19
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.18
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.15
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.14
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	96.13
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.04
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.01
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	95.94
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	95.93
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.91
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	95.9
PRK06893	229	DNA replication initiation factor; Validated	95.88
PLN02796	347	D-glycerate 3-kinase	95.82
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	95.79
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	95.77
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	95.74
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.73
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.69
PRK05439	311	pantothenate kinase; Provisional	95.68
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	95.67
CHL00181	287	cbbX CbbX; Provisional	95.65
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.63
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	95.62
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	95.61
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	95.61
KOG2028	554	consensus ATPase related to the helicase subunit o	95.6
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	95.59
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	95.57
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	95.56
PLN02318	656	phosphoribulokinase/uridine kinase	95.55
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.49
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.47
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.46
TIGR00767	415	rho transcription termination factor Rho. Members	95.44
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	95.39
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	95.38
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.36
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	95.36
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	95.34
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.34
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	95.32
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	95.32
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.3
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	95.29
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.27
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.27
PRK13531	498	regulatory ATPase RavA; Provisional	95.26
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	95.23
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	95.19
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	95.19
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	95.19
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.18
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	95.14
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	95.14
CHL00176	638	ftsH cell division protein; Validated	95.12
PRK08727	233	hypothetical protein; Validated	95.12
PLN02348	395	phosphoribulokinase	95.1
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.07
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	95.05
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	95.03
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	95.02
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	95.01
PRK08084	235	DNA replication initiation factor; Provisional	95.0
PRK08099	399	bifunctional DNA-binding transcriptional repressor	94.99
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.99
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	94.97
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	94.97
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	94.92
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	94.9
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	94.9
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	94.85
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	94.85
PLN02200	234	adenylate kinase family protein	94.84
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	94.82
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	94.78
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	94.78
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	94.76
PRK06620	214	hypothetical protein; Validated	94.73
PRK10416	318	signal recognition particle-docking protein FtsY;	94.71
PRK14974	336	cell division protein FtsY; Provisional	94.7
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	94.66
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	94.65
PRK09087	226	hypothetical protein; Validated	94.64
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	94.64
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	94.63
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	94.61
PRK00771	437	signal recognition particle protein Srp54; Provisi	94.6
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	94.59
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	94.57
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	94.55
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	94.52
PRK07952	244	DNA replication protein DnaC; Validated	94.49
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	94.49
PRK09112	351	DNA polymerase III subunit delta'; Validated	94.48
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	94.44
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	94.41
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	94.39
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	94.38
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	94.37
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	94.36
COG1123	539	ATPase components of various ABC-type transport sy	94.35
PHA02244	383	ATPase-like protein	94.35
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	94.34
PRK12377	248	putative replication protein; Provisional	94.33
PRK10536	262	hypothetical protein; Provisional	94.32
PRK10865	857	protein disaggregation chaperone; Provisional	94.3
PRK07471	365	DNA polymerase III subunit delta'; Validated	94.29
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	94.28
PRK05642	234	DNA replication initiation factor; Validated	94.27
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	94.24
COG0714	329	MoxR-like ATPases [General function prediction onl	94.23
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	94.22
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	94.18
PLN03046	460	D-glycerate 3-kinase; Provisional	94.17
PRK05022	509	anaerobic nitric oxide reductase transcription reg	94.16
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	94.13
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	94.12
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	94.11
PLN02165	334	adenylate isopentenyltransferase	94.09
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	94.08
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	94.06
PRK14489	366	putative bifunctional molybdopterin-guanine dinucl	94.06
PRK08116	268	hypothetical protein; Validated	94.06
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	94.03
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	94.0
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	94.0
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	93.98
TIGR03238	504	dnd_assoc_3 dnd system-associated protein 3. cereu	93.97
PRK09183	259	transposase/IS protein; Provisional	93.94
COG4240	300	Predicted kinase [General function prediction only	93.9
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	93.89
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	93.89
PRK04220	301	2-phosphoglycerate kinase; Provisional	93.87
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	93.86
PRK06526	254	transposase; Provisional	93.85
PRK00149	450	dnaA chromosomal replication initiation protein; R	93.82
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	93.8
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	93.8
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	93.77
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	93.76
PRK10867	433	signal recognition particle protein; Provisional	93.74
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	93.72
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	93.71
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	93.71
KOG1969	877	consensus DNA replication checkpoint protein CHL12	93.7
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	93.7
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	93.67
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	93.67
COG0444	316	DppD ABC-type dipeptide/oligopeptide/nickel transp	93.67
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	93.66
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	93.66
PLN02199	303	shikimate kinase	93.65
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	93.64
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	93.64
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	93.62
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	93.61
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	93.6
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	93.56
cd03216	163	ABC_Carb_Monos_I This family represents the domain	93.56
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	93.56
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	93.55
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	93.52
PRK09473	330	oppD oligopeptide transporter ATP-binding componen	93.5
PRK11308	327	dppF dipeptide transporter ATP-binding subunit; Pr	93.49
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	93.49
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	93.48
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	93.47
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	93.47
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	93.46
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	93.46
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	93.46
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	93.45
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	93.43
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	93.41
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	93.4
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	93.39
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	93.38
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	93.38
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	93.36
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	93.36
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	93.35
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	93.34
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	93.33
PRK14260	259	phosphate ABC transporter ATP-binding protein; Pro	93.29
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	93.27
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	93.27
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	93.25
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	93.25
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	93.24
PF13245	76	AAA_19: Part of AAA domain	93.24
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	93.23
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	93.21
cd03234	226	ABCG_White The White subfamily represents ABC tran	93.21
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	93.19
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	93.19
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	93.19
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	93.18
PRK06921	266	hypothetical protein; Provisional	93.15
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	93.13
PRK10646	153	ADP-binding protein; Provisional	93.1
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	93.09
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	93.06
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	93.06
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	93.05
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	93.05
PRK14244	251	phosphate ABC transporter ATP-binding protein; Pro	93.03
PRK15079	331	oligopeptide ABC transporter ATP-binding protein O	93.03
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	93.01
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	92.98
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	92.98
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	92.93
PRK15424	538	propionate catabolism operon regulatory protein Pr	92.92
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	92.92
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	92.89
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	92.89
PRK14271	276	phosphate ABC transporter ATP-binding protein; Pro	92.87
PRK13546	264	teichoic acids export protein ATP-binding subunit;	92.85
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	92.85
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	92.82
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	92.81
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	92.81
PRK12422	445	chromosomal replication initiation protein; Provis	92.79
PRK14236	272	phosphate transporter ATP-binding protein; Provisi	92.78
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	92.75
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	92.74
CHL00095	821	clpC Clp protease ATP binding subunit	92.72
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	92.71
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	92.7
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	92.7
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	92.68
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	92.66
cd03291	282	ABCC_CFTR1 The CFTR subfamily domain 1. The cystic	92.65
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	92.65
PRK12337	475	2-phosphoglycerate kinase; Provisional	92.62
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	92.6
PRK13477	512	bifunctional pantoate ligase/cytidylate kinase; Pr	92.6
PRK14258	261	phosphate ABC transporter ATP-binding protein; Pro	92.59
PRK14275	286	phosphate ABC transporter ATP-binding protein; Pro	92.59
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	92.59
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	92.58
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	92.58
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	92.58
PRK14252	265	phosphate ABC transporter ATP-binding protein; Pro	92.56
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	92.55
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	92.53
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	92.53
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	92.52
PRK14088	440	dnaA chromosomal replication initiation protein; P	92.52
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	92.52
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	92.51
PF13271	83	DUF4062: Domain of unknown function (DUF4062)	92.5
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	92.47
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	92.47
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	92.46
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	92.45
PRK06835	329	DNA replication protein DnaC; Validated	92.39
KOG0062	582	consensus ATPase component of ABC transporters wit	92.3
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	92.29
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	92.29
TIGR00959	428	ffh signal recognition particle protein. This mode	92.28
CHL00195	489	ycf46 Ycf46; Provisional	92.28
PRK13651	305	cobalt transporter ATP-binding subunit; Provisiona	92.25
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	92.23
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	92.23
PRK14254	285	phosphate ABC transporter ATP-binding protein; Pro	92.2
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	92.18
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	92.18
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	92.17
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	92.14
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	92.12
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	92.12
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	92.11
PRK14264	305	phosphate ABC transporter ATP-binding protein; Pro	92.11
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	92.07
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	92.07
PRK10261	623	glutathione transporter ATP-binding protein; Provi	92.05
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	92.04
PRK13765	637	ATP-dependent protease Lon; Provisional	91.95
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	91.91
PRK08181	269	transposase; Validated	91.88
COG1245	591	Predicted ATPase, RNase L inhibitor (RLI) homolog	91.87
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	91.86
PTZ00035	337	Rad51 protein; Provisional	91.86
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	91.85
PRK14087	450	dnaA chromosomal replication initiation protein; P	91.8
PRK14263	261	phosphate ABC transporter ATP-binding protein; Pro	91.76
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	91.74
PF13555	62	AAA_29: P-loop containing region of AAA domain	91.71
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	91.68
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	91.67
PRK00098	298	GTPase RsgA; Reviewed	91.64
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	91.61
PRK13642	277	cbiO cobalt transporter ATP-binding subunit; Provi	91.61
COG1072	283	CoaA Panthothenate kinase [Coenzyme metabolism]	91.6
TIGR02236	310	recomb_radA DNA repair and recombination protein R	91.58
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	91.53
cd03288	257	ABCC_SUR2 The SUR domain 2. The sulfonylurea recep	91.52
PRK13634	290	cbiO cobalt transporter ATP-binding subunit; Provi	91.48
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	91.45
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	91.44
PRK09563	287	rbgA GTPase YlqF; Reviewed	91.42
PRK10261	623	glutathione transporter ATP-binding protein; Provi	91.41
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	91.37
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	91.33
PRK10070	400	glycine betaine transporter ATP-binding subunit; P	91.31
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	91.31
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	91.29
PRK13409	590	putative ATPase RIL; Provisional	91.29
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	91.27
PRK13409	590	putative ATPase RIL; Provisional	91.27
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	91.26
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	91.26
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	91.24
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	91.22
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	91.21
PRK13537	306	nodulation ABC transporter NodI; Provisional	91.19
COG1245	591	Predicted ATPase, RNase L inhibitor (RLI) homolog	91.18
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	91.17
COG1123	539	ATPase components of various ABC-type transport sy	91.16
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	91.13
PRK08939	306	primosomal protein DnaI; Reviewed	91.1
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	91.05
COG1127	263	Ttg2A ABC-type transport system involved in resist	91.02
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	91.0
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	90.93
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	90.91
PRK13536	340	nodulation factor exporter subunit NodI; Provision	90.89
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	90.88
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	90.88
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	90.87
cd00983	325	recA RecA is a bacterial enzyme which has roles in	90.83
COG4916	329	Uncharacterized protein containing a TIR (Toll-Int	90.83
PRK15064	530	ABC transporter ATP-binding protein; Provisional	90.82
COG1484	254	DnaC DNA replication protein [DNA replication, rec	90.79
PRK11823	446	DNA repair protein RadA; Provisional	90.78
PRK12608	380	transcription termination factor Rho; Provisional	90.77
PRK14246	257	phosphate ABC transporter ATP-binding protein; Pro	90.76
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	90.74
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	90.74
COG4167	267	SapF ABC-type antimicrobial peptide transport syst	90.74
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	90.73
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	90.71
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	90.7
PLN02674	244	adenylate kinase	90.68
PRK09866	741	hypothetical protein; Provisional	90.67
COG4172	534	ABC-type uncharacterized transport system, duplica	90.66
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	90.63
PRK04301	317	radA DNA repair and recombination protein RadA; Va	90.62
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	90.6
PRK12288	347	GTPase RsgA; Reviewed	90.6
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	90.56
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	90.54
PLN03073	718	ABC transporter F family; Provisional	90.51
PRK00652	325	lpxK tetraacyldisaccharide 4'-kinase; Reviewed	90.49
PRK11147	635	ABC transporter ATPase component; Reviewed	90.45
cd02033	329	BchX Chlorophyllide reductase converts chlorophyll	90.45
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	90.44
COG4598	256	HisP ABC-type histidine transport system, ATPase c	90.39
PRK04841	903	transcriptional regulator MalT; Provisional	90.33
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	90.29
PRK10938	490	putative molybdenum transport ATP-binding protein	90.23
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	90.21
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	90.2
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	90.18
PRK09354	349	recA recombinase A; Provisional	90.16
TIGR03018	207	pepcterm_TyrKin exopolysaccharide/PEPCTERM locus t	90.15
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	90.14
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	90.08
COG0488	530	Uup ATPase components of ABC transporters with dup	90.08
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	90.07
PRK01889	356	GTPase RsgA; Reviewed	90.06
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	90.05
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	90.04
PRK11860	661	bifunctional 3-phosphoshikimate 1-carboxyvinyltran	90.01
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	89.93
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	89.92
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	89.89
PHA02624	647	large T antigen; Provisional	89.85
PRK13851	344	type IV secretion system protein VirB11; Provision	89.82
PRK11058	426	GTPase HflX; Provisional	89.8
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	89.77
COG2204	464	AtoC Response regulator containing CheY-like recei	89.74
PRK03003	472	GTP-binding protein Der; Reviewed	89.69
PRK12289	352	GTPase RsgA; Reviewed	89.68
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	89.67
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	89.65
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	89.62
PRK06851	367	hypothetical protein; Provisional	89.57
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	89.55
TIGR03415	382	ABC_choXWV_ATP choline ABC transporter, ATP-bindin	89.51
PLN03073	718	ABC transporter F family; Provisional	89.49
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	89.48
TIGR01663	526	PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase	89.36
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	89.35
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	89.31
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	89.29
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	89.29
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	89.23
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	89.18
KOG0780	483	consensus Signal recognition particle, subunit Srp	89.16
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	89.16
COG1135	339	AbcC ABC-type metal ion transport system, ATPase c	89.13
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	89.12
PRK15115	444	response regulator GlrR; Provisional	89.08
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	89.03
smart00350	509	MCM minichromosome maintenance proteins.	89.0
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	88.95
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	88.95
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	88.93
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	88.9
COG4778	235	PhnL ABC-type phosphonate transport system, ATPase	88.82
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	88.67
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	88.67
COG1162	301	Predicted GTPases [General function prediction onl	88.64
PRK09302	509	circadian clock protein KaiC; Reviewed	88.58
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	88.54
TIGR01842	544	type_I_sec_PrtD type I secretion system ABC transp	88.49
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	88.46
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	88.45
PRK05973	237	replicative DNA helicase; Provisional	88.44
PRK14086	617	dnaA chromosomal replication initiation protein; P	88.38
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	88.26
PRK13705	388	plasmid-partitioning protein SopA; Provisional	88.2
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	88.13
COG4525	259	TauB ABC-type taurine transport system, ATPase com	88.08
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	88.07
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	88.05
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	87.98
COG0802	149	Predicted ATPase or kinase [General function predi	87.91
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	87.89
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	87.85
TIGR03453	387	partition_RepA plasmid partitioning protein RepA.	87.72
PRK10522	547	multidrug transporter membrane component/ATP-bindi	87.68
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	87.67
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	87.63
PLN02772	398	guanylate kinase	87.62
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	87.58
PRK15494	339	era GTPase Era; Provisional	87.58
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	87.54
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	87.51
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	87.47
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	87.47
PHA02519	387	plasmid partition protein SopA; Reviewed	87.46
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	87.44
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	87.4
PRK13833	323	conjugal transfer protein TrbB; Provisional	87.35
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	87.28
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	87.26
COG2074	299	2-phosphoglycerate kinase [Carbohydrate transport	87.19
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	87.1
PRK13869	405	plasmid-partitioning protein RepA; Provisional	87.08
KOG2702	323	consensus Predicted panthothenate kinase/uridine k	87.0
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	86.93
PRK12269	863	bifunctional cytidylate kinase/ribosomal protein S	86.91
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	86.88
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	86.85
KOG0927	614	consensus Predicted transporter (ABC superfamily)	86.68
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	86.66

>PLN03210 Resistant to P

Probab=100.00  E-value=1.4e-49  Score=387.74  Aligned_cols=216  Identities=45%  Similarity=0.779  Sum_probs=196.3

Q ss_pred             CCCCCCcccEEEccccccCCccHHHHHHHHHhhCCCeeEEeCCCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHH
Q 045657           10 SPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLD   89 (227)
Q Consensus        10 s~~~~~~~dvFISy~~~D~~~~~~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~   89 (227)
                      |++..++|||||||+|+|++.+|++||+.+|.++||.+|+|++++.|+.|.+++.+||++|+++|||||++|++|.||++
T Consensus         6 ~~~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s~wcl~   85 (1153)
T PLN03210          6 SSSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYASSSWCLN   85 (1153)
T ss_pred             CCCCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCcccchHHHH
Confidence            34567999999999999999999999999999999999998899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhccceeeeEEeecCCCccccccCCccCchhhHHHHhhhhHHHHHHHHHHHHHHhhhcCCccccc-ccccc
Q 045657           90 ELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNF-RLAEM  168 (227)
Q Consensus        90 El~~~~~~~~~~~~~iipif~~v~~~~vr~~~~~~~~~f~~~~~~~~~~~e~i~~w~~aL~~i~~~~g~~~~~~-~e~~~  168 (227)
                      ||+++++++++.++.|+||||+|+|++||++.|.|+++|.++....  ..+++++|+.||.+++++.|+.+... .|+++
T Consensus        86 el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~--~~~~~~~w~~al~~~~~~~g~~~~~~~~E~~~  163 (1153)
T PLN03210         86 ELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNK--TEDEKIQWKQALTDVANILGYHSQNWPNEAKM  163 (1153)
T ss_pred             HHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhccc--chhHHHHHHHHHHHHhCcCceecCCCCCHHHH
Confidence            9999999999899999999999999999999999999999866543  34679999999999999999887643 35544


Q ss_pred             -----------C---CCCccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhcCCC
Q 045657          169 -----------S---PRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNFE  227 (227)
Q Consensus       169 -----------l---~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~f~  227 (227)
                                 +   +.....+++|++.+++++..+|..+..+++++|||||||+||||||+++|+++..+|+
T Consensus       164 i~~Iv~~v~~~l~~~~~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~  236 (1153)
T PLN03210        164 IEEIANDVLGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQ  236 (1153)
T ss_pred             HHHHHHHHHHhhccccCcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCC
Confidence                       1   4455688999999999999999877788999999999999999999999999888774

syringae 6; Provisional

>PLN03194 putative disease resistance protein; Provisional

Probab=100.00  E-value=5.4e-38  Score=242.64  Aligned_cols=137  Identities=32%  Similarity=0.569  Sum_probs=124.7

Q ss_pred             CCCCCCCCcccEEEccccccCCccHHHHHHHHHhhCCCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcccchh
Q 045657            8 SLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRW   86 (227)
Q Consensus         8 ~~s~~~~~~~dvFISy~~~D~~~~~~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~w   86 (227)
                      |+|++..++|||||||+|+|++.+|+++|+.+|+++||++|+|+ ++++|+.|.+.|.+||++|+++|+|||++|++|+|
T Consensus        18 ~~~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~W   97 (187)
T PLN03194         18 PSSSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYF   97 (187)
T ss_pred             ccCCCCCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchh
Confidence            56677889999999999999999999999999999999999999 99999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhhhccceeeeEEeecCCCccccc-cCCccCchhhHHHHhhhhHHHHHHHHHHHHHHhhhcCCccc
Q 045657           87 CLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQ-TGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQ  161 (227)
Q Consensus        87 c~~El~~~~~~~~~~~~~iipif~~v~~~~vr~~-~~~~~~~f~~~~~~~~~~~e~i~~w~~aL~~i~~~~g~~~~  161 (227)
                      |++||.+++++.    ..|+||||+++|++|+.+ .+.+             ..+++++|+.||.+++++.|+.++
T Consensus        98 CLdEL~~I~e~~----~~ViPIFY~VdPsdVr~q~~~~~-------------~~e~v~~Wr~AL~~va~l~G~~~~  156 (187)
T PLN03194         98 CLHELALIMESK----KRVIPIFCDVKPSQLRVVDNGTC-------------PDEEIRRFNWALEEAKYTVGLTFD  156 (187)
T ss_pred             HHHHHHHHHHcC----CEEEEEEecCCHHHhhccccCCC-------------CHHHHHHHHHHHHHHhccccccCC
Confidence            999999998753    479999999999999997 3321             236799999999999999997664

>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo

Probab=99.87  E-value=1.3e-23  Score=159.55  Aligned_cols=132  Identities=33%  Similarity=0.561  Sum_probs=107.2

Q ss_pred             EEEccccccCCccHHHHHHHHHhhC--CCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHH
Q 045657           19 VFLSFRGEDTRDNFTSHLYSALSLK--SIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKIL   95 (227)
Q Consensus        19 vFISy~~~D~~~~~~~~L~~~L~~~--g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~   95 (227)
                      |||||++.+.+..|+.+|.++|++.  |+++|+++ |+.+|..+.+++.++|++|+++|+|+|++|+.|+||+.|+..++
T Consensus         1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~   80 (141)
T PF01582_consen    1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL   80 (141)
T ss_dssp             EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred             cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence            8999999433455999999999999  99999999 99999999999999999999999999999999999999999999


Q ss_pred             HHhhhc--cceeeeEEeecCCCccc-cccCCccCchhhHHHHhhhh--HHHHHHHHHHHH
Q 045657           96 QCKREY--AQIVIPVFYRVDPSDVR-NQTGPFGDSFSKLEERFKEN--SEKLKSWRNALK  150 (227)
Q Consensus        96 ~~~~~~--~~~iipif~~v~~~~vr-~~~~~~~~~f~~~~~~~~~~--~e~i~~w~~aL~  150 (227)
                      .+....  ...|+|+|+++.+.+++ .+.+.+...+..........  ..+...|++++.
T Consensus        81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~  140 (141)
T PF01582_consen   81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY  140 (141)
T ss_dssp             HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred             hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence            999554  48999999999999988 56666665555544443332  345677877653

In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....

>smart00255 TIR Toll - interleukin 1 - resistance

Probab=99.86  E-value=1.6e-21  Score=147.42  Aligned_cols=136  Identities=41%  Similarity=0.701  Sum_probs=106.4

Q ss_pred             cccEEEcccc-ccCCccHHHHHHHHHhhCCCeeEEeCCCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHH
Q 045657           16 KYDVFLSFRG-EDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKI   94 (227)
Q Consensus        16 ~~dvFISy~~-~D~~~~~~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~   94 (227)
                      .|||||||++ .+....|+.+|...|+..|+.+|.|+....+... .+|.++|++|+++|+|+|++|+.|+||..|+..+
T Consensus         1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~-~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a   79 (140)
T smart00255        1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDL-EEIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA   79 (140)
T ss_pred             CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchH-HHHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence            4999999999 3445679999999999999999998743333333 4999999999999999999999999999999999


Q ss_pred             HHHhhh-ccceeeeEEeecCCCccccccCCccCchhhHHHHhhhhHHHHHHHHHHHHHHh
Q 045657           95 LQCKRE-YAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKENSEKLKSWRNALKEAA  153 (227)
Q Consensus        95 ~~~~~~-~~~~iipif~~v~~~~vr~~~~~~~~~f~~~~~~~~~~~e~i~~w~~aL~~i~  153 (227)
                      ...... ...+||||+++..|..+..+.+.+...+............. ..|+..+..++
T Consensus        80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~  138 (140)
T smart00255       80 LENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVP  138 (140)
T ss_pred             HHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhc
Confidence            988744 56899999999888777777777777666542222222111 57888776654

>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A

Probab=99.70  E-value=4.3e-18  Score=121.93  Aligned_cols=87  Identities=30%  Similarity=0.538  Sum_probs=74.4

Q ss_pred             EEEccccccCCccHHHHHHHHHhhCCCeeEEeCCCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHh
Q 045657           19 VFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCK   98 (227)
Q Consensus        19 vFISy~~~D~~~~~~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~   98 (227)
                      |||||++.|.  .+|++|...|+..|+.+|+|.++.+|+.+.+.|.+++++|+.+|+++|++|..|+||..|+..+..  
T Consensus         1 VFIS~~~~D~--~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~--   76 (102)
T PF13676_consen    1 VFISYSSEDR--EFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK--   76 (102)
T ss_dssp             EEEEEEGGGC--CCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC--
T ss_pred             eEEEecCCcH--HHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH--
Confidence            8999999994  489999999999999999998889999999999999999999999999999999999999999843  


Q ss_pred             hhccceeeeEEee
Q 045657           99 REYAQIVIPVFYR  111 (227)
Q Consensus        99 ~~~~~~iipif~~  111 (227)
                        .+..|+||..+
T Consensus        77 --~~~~iipv~~~   87 (102)
T PF13676_consen   77 --RGKPIIPVRLD   87 (102)
T ss_dssp             --TSESEEEEECS
T ss_pred             --CCCEEEEEEEC
Confidence              34479999854

>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]

Probab=98.98  E-value=1.3e-09  Score=95.20  Aligned_cols=93  Identities=24%  Similarity=0.408  Sum_probs=78.9

Q ss_pred             CCCcccEEEccccccCCccHHHHHHHHHhhCCCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcc--------c
Q 045657           13 NINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYA--------S   83 (227)
Q Consensus        13 ~~~~~dvFISy~~~D~~~~~~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~--------~   83 (227)
                      ..+..||||||++.- ...+++.|+-.|+.+|++||+|- .+..|..- +.+.+.|..++.+|+|+||+.+        .
T Consensus       609 ~skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGKFd-ssLlkni~aAkhFiLVLtP~sLDr~lnD~nC  686 (832)
T KOG3678|consen  609 LSKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGKFD-SSLLKNIQAAKHFILVLTPNSLDRLLNDDNC  686 (832)
T ss_pred             ccCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhccccc-HHHHHHHHhhheeEEEeCcchHHHHhccccH
Confidence            356789999999875 44599999999999999999998 88888754 7888999999999999999965        3


Q ss_pred             chhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           84 SRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        84 S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      -.|...|+..++++.+    .|||||-.
T Consensus       687 eDWVHKEl~~Afe~~K----NIiPI~D~  710 (832)
T KOG3678|consen  687 EDWVHKELKCAFEHQK----NIIPIFDT  710 (832)
T ss_pred             HHHHHHHHHHHHHhcC----Ceeeeecc
Confidence            4688899999988775    59999943

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.69  E-value=1.6e-08  Score=96.80  Aligned_cols=48  Identities=40%  Similarity=0.772  Sum_probs=42.1

Q ss_pred             cccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH---hhcCCC
Q 045657          178 VGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK---ISSNFE  227 (227)
Q Consensus       178 ~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~---~~~~f~  227 (227)
                      +|.+..++++.+.|...+.  .++||+||||+||||||+.+||+   ++.+||
T Consensus       161 VG~e~~~~kl~~~L~~d~~--~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd  211 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDV--GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFD  211 (889)
T ss_pred             ccHHHHHHHHHHHhccCCC--CEEEEECCCcccHHHHHHHHhcccchhcccCc
Confidence            9999999999999985543  89999999999999999999998   345675

>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments

Probab=98.56  E-value=1.1e-07  Score=70.97  Aligned_cols=88  Identities=20%  Similarity=0.353  Sum_probs=46.7

Q ss_pred             ccEEEccccccCCccHHHHHHHHHhhC-------CCee----------EEeC-CCCCCCcchHHHHHHHHhcccEEEEee
Q 045657           17 YDVFLSFRGEDTRDNFTSHLYSALSLK-------SIQT----------FIDD-QLNRGDEISQSLVYAIENSAISLIIFS   78 (227)
Q Consensus        17 ~dvFISy~~~D~~~~~~~~L~~~L~~~-------g~~~----------~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S   78 (227)
                      |.|||||++.|.. ..+..|...+...       .+..          +.+. +......|...|.+.|..|.++||++|
T Consensus         1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig   79 (130)
T PF08937_consen    1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG   79 (130)
T ss_dssp             ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred             CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence            5799999999955 2677777777663       2221          1122 223345788899999999999999999


Q ss_pred             cCcccchhhHHHHHHHHHHhhhccceeeeEE
Q 045657           79 EGYASSRWCLDELVKILQCKREYAQIVIPVF  109 (227)
Q Consensus        79 ~~~~~S~wc~~El~~~~~~~~~~~~~iipif  109 (227)
                      ++-..|.|+..|+..++.    .+..|+-|.
T Consensus        80 ~~T~~s~wV~~EI~~A~~----~~~~Ii~V~  106 (130)
T PF08937_consen   80 PNTAKSKWVNWEIEYALK----KGKPIIGVY  106 (130)
T ss_dssp             TT----HHHHHHHHHHTT----T---EEEEE
T ss_pred             CCcccCcHHHHHHHHHHH----CCCCEEEEE
Confidence            999999999999998876    333566664

The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.

>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e

Probab=98.06  E-value=7e-06  Score=62.59  Aligned_cols=64  Identities=23%  Similarity=0.396  Sum_probs=53.7

Q ss_pred             cEEEccccccC-CccHHHHHHHHHhhC-CCeeEEeC-CCCC--CCcchHHHHHHHHhcccEEEEeecCc
Q 045657           18 DVFLSFRGEDT-RDNFTSHLYSALSLK-SIQTFIDD-QLNR--GDEISQSLVYAIENSAISLIIFSEGY   81 (227)
Q Consensus        18 dvFISy~~~D~-~~~~~~~L~~~L~~~-g~~~~~d~-~~~~--g~~~~~~i~~~i~~s~~~i~v~S~~~   81 (227)
                      -|||||++... ...+|..|...|+.. |+.|.+|. +...  +.....-+.+.+++++.+|+|+|+.+
T Consensus         2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~   70 (150)
T PF08357_consen    2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY   70 (150)
T ss_pred             eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence            49999999543 234689999999999 99999999 7743  77788899999999999999999654

g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].

>PTZ00202 tuzin; Provisional

Probab=97.70  E-value=7.1e-05  Score=66.27  Aligned_cols=52  Identities=21%  Similarity=0.250  Sum_probs=43.0

Q ss_pred             CCCccCcccccchhHHHHHHHhhcCC-CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          170 PRNYKNQLVGVESRVKEIESLLGAES-KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       170 ~~~~~~~~~g~~~~~~~~~~~l~~~~-~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+...+.|+||+.++..|...|...+ ...+++.|.|++|+|||||++.....
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~  309 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRK  309 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhc
Confidence            44567899999999999999886433 33569999999999999999988765

>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=97.58  E-value=0.00014  Score=59.01  Aligned_cols=57  Identities=25%  Similarity=0.414  Sum_probs=37.7

Q ss_pred             CCCccCcccccchhHHHHHHHhh---cCCCCeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          170 PRNYKNQLVGVESRVKEIESLLG---AESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       170 ~~~~~~~~~g~~~~~~~~~~~l~---~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      .|..-.+++|.+.-+..+.-++.   .......-+=.||.+|+||||||..+.+.+..+|
T Consensus        19 RP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~   78 (233)
T PF05496_consen   19 RPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNF   78 (233)
T ss_dssp             S-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--E
T ss_pred             CCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCe
Confidence            44556899999887777655553   2234466677899999999999999999876654

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.53  E-value=0.0001  Score=63.54  Aligned_cols=52  Identities=21%  Similarity=0.390  Sum_probs=41.2

Q ss_pred             ccCcccccchhHHHHHHHhhc---CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          173 YKNQLVGVESRVKEIESLLGA---ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~---~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ...+++|++..++.+..++..   .......+-++|.+|+||||||+.+.+.+..
T Consensus        23 ~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~   77 (328)
T PRK00080         23 SLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGV   77 (328)
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCC
Confidence            457899999999999887753   1233456779999999999999999988543

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=97.52  E-value=0.00014  Score=63.30  Aligned_cols=51  Identities=18%  Similarity=0.356  Sum_probs=40.7

Q ss_pred             ccCcccccchhHHHHHHHhhcC--CCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          173 YKNQLVGVESRVKEIESLLGAE--SKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~--~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+..++||++++++|...|...  ......+-|+|.+|+|||++++++++.+.
T Consensus        13 ~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~   65 (365)
T TIGR02928        13 VPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELE   65 (365)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHH
Confidence            3568999999999999988631  12234578899999999999999998754

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.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=97.47  E-value=0.00014  Score=64.02  Aligned_cols=51  Identities=24%  Similarity=0.378  Sum_probs=40.5

Q ss_pred             ccCcccccchhHHHHHHHhhcC--CCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          173 YKNQLVGVESRVKEIESLLGAE--SKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~--~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+..++||+++++++...|...  ......+-|+|.+|+|||++++.+++++.
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~   80 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELE   80 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            4678999999999999887432  12233456999999999999999998864

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.16  E-value=0.00047  Score=59.79  Aligned_cols=49  Identities=14%  Similarity=0.262  Sum_probs=40.9

Q ss_pred             cccccchhHHHHHHHhhcC----CCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          176 QLVGVESRVKEIESLLGAE----SKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~~----~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      +++|.++.++++.+.+...    ....+++.++|..|.||||||+++.+.+..
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            7999999999998887532    234689999999999999999999887543

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.02  E-value=0.00071  Score=60.18  Aligned_cols=50  Identities=28%  Similarity=0.470  Sum_probs=36.6

Q ss_pred             cCcccccchhHHH---HHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          174 KNQLVGVESRVKE---IESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       174 ~~~~~g~~~~~~~---~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ..+++|++.-+..   +..++...  ....+-++|.+|+||||||+.+.+.....
T Consensus        11 l~d~vGq~~~v~~~~~L~~~i~~~--~~~~ilL~GppGtGKTtLA~~ia~~~~~~   63 (413)
T PRK13342         11 LDEVVGQEHLLGPGKPLRRMIEAG--RLSSMILWGPPGTGKTTLARIIAGATDAP   63 (413)
T ss_pred             HHHhcCcHHHhCcchHHHHHHHcC--CCceEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            4567887766555   77777543  34456789999999999999998875443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=96.96  E-value=0.00077  Score=58.91  Aligned_cols=52  Identities=21%  Similarity=0.354  Sum_probs=39.6

Q ss_pred             cCcccccchhHHHHHHHhhcC--C---------CCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          174 KNQLVGVESRVKEIESLLGAE--S---------KYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~--~---------~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ..++.|++..++++.+.+...  .         ...+-+-++|.+|+|||+||+++++.....
T Consensus       121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~  183 (364)
T TIGR01242       121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT  183 (364)
T ss_pred             HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCC
Confidence            457889999999998866421  1         123457889999999999999999876544

Many proteins may score above the trusted cutoff because an internal

>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins

Probab=96.95  E-value=0.0032  Score=46.50  Aligned_cols=59  Identities=20%  Similarity=0.312  Sum_probs=50.0

Q ss_pred             EEEccccccCCccHHHHHHHHHhhCCCeeEE-eCCCCCCCcchHHHHHHHHhcccEEEEeecC
Q 045657           19 VFLSFRGEDTRDNFTSHLYSALSLKSIQTFI-DDQLNRGDEISQSLVYAIENSAISLIIFSEG   80 (227)
Q Consensus        19 vFISy~~~D~~~~~~~~L~~~L~~~g~~~~~-d~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~   80 (227)
                      |||.|+ .|  ..+++.+...|+..|+.+.+ +.....|..+.+.+.+.+.+++.+|++++|+
T Consensus         2 VFIvhg-~~--~~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpD   61 (125)
T PF10137_consen    2 VFIVHG-RD--LAAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPD   61 (125)
T ss_pred             EEEEeC-CC--HHHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEccc
Confidence            899998 44  24789999999988888544 3356889999999999999999999999985

Their exact function has not, as yet, been defined.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=96.85  E-value=0.0015  Score=57.77  Aligned_cols=52  Identities=19%  Similarity=0.336  Sum_probs=39.4

Q ss_pred             cCcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          174 KNQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ..++.|++..++++.+.+..           +-...+-+-++|.+|+|||+||+++++.....
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~  192 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT  192 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCC
Confidence            35788999999999886632           11234557789999999999999999876543

>PRK04195 replication factor C large subunit; Provisional

Probab=96.78  E-value=0.0014  Score=59.44  Aligned_cols=50  Identities=24%  Similarity=0.334  Sum_probs=40.8

Q ss_pred             ccCcccccchhHHHHHHHhhcCC--CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAES--KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~--~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|.+..++.+..|+..-.  ...+.+-|+|..|+||||+|+++.+.+
T Consensus        12 ~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el   63 (482)
T PRK04195         12 TLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY   63 (482)
T ss_pred             CHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            34678999999999999886421  225678899999999999999998875

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=96.75  E-value=0.0022  Score=53.63  Aligned_cols=55  Identities=22%  Similarity=0.416  Sum_probs=40.5

Q ss_pred             CccCcccccchhHHHHHHHhhc---CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          172 NYKNQLVGVESRVKEIESLLGA---ESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~---~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      ..-.+++|.++-++++.-.+..   .....-=+-++|.+|+||||||..+.+.+..++
T Consensus        23 ~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~   80 (332)
T COG2255          23 KTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNL   80 (332)
T ss_pred             ccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCe
Confidence            3457899998888777655542   222344466889999999999999999876653

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=96.72  E-value=0.0018  Score=56.46  Aligned_cols=47  Identities=30%  Similarity=0.506  Sum_probs=31.6

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      .+++|.+..+.   .++..  ..+...=.||.+|+||||||+.+.......|
T Consensus        30 ~HLlg~~~~lr---r~v~~--~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f   76 (436)
T COG2256          30 EHLLGEGKPLR---RAVEA--GHLHSMILWGPPGTGKTTLARLIAGTTNAAF   76 (436)
T ss_pred             HhhhCCCchHH---HHHhc--CCCceeEEECCCCCCHHHHHHHHHHhhCCce
Confidence            44555544443   34432  2455556899999999999999988766555

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.63  E-value=0.0028  Score=61.22  Aligned_cols=47  Identities=28%  Similarity=0.499  Sum_probs=38.5

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..++||+++++.+...|.....+  -+-++|.+|+|||+||+.+..++.
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~--n~lL~G~pGvGKTal~~~la~~i~  225 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKN--NPILIGEPGVGKTAIAEGLAQRIV  225 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccC--CeEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999998755432  234899999999999999988754

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=96.57  E-value=0.002  Score=56.52  Aligned_cols=29  Identities=24%  Similarity=0.129  Sum_probs=24.3

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHhhc-CCC
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKISS-NFE  227 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~~~-~f~  227 (227)
                      .-.+|+|.+|+|||||+++||+.+.. +||
T Consensus       170 QR~lIvgppGvGKTTLaK~Ian~I~~nhFD  199 (416)
T PRK09376        170 QRGLIVAPPKAGKTVLLQNIANSITTNHPE  199 (416)
T ss_pred             ceEEEeCCCCCChhHHHHHHHHHHHhhcCC
Confidence            45788999999999999999999654 454

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.57  E-value=0.0038  Score=53.29  Aligned_cols=51  Identities=18%  Similarity=0.177  Sum_probs=40.8

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ....+++|.+..++.+..++..+. -..++-++|..|+||||+|+++++.+.
T Consensus        18 ~~~~~~~~~~~~~~~l~~~~~~~~-~~~~lll~G~~G~GKT~la~~l~~~~~   68 (316)
T PHA02544         18 STIDECILPAADKETFKSIVKKGR-IPNMLLHSPSPGTGKTTVAKALCNEVG   68 (316)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhcCC-CCeEEEeeCcCCCCHHHHHHHHHHHhC
Confidence            345788999999999998887432 245777799999999999999988753

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=96.57  E-value=0.003  Score=59.97  Aligned_cols=51  Identities=29%  Similarity=0.464  Sum_probs=36.2

Q ss_pred             cCcccccchhHH---HHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          174 KNQLVGVESRVK---EIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       174 ~~~~~g~~~~~~---~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      ..+++|++..+.   .+..++..+  ....+-++|.+|+||||||+.+++.....|
T Consensus        27 ldd~vGQe~ii~~~~~L~~~i~~~--~~~slLL~GPpGtGKTTLA~aIA~~~~~~f   80 (725)
T PRK13341         27 LEEFVGQDHILGEGRLLRRAIKAD--RVGSLILYGPPGVGKTTLARIIANHTRAHF   80 (725)
T ss_pred             HHHhcCcHHHhhhhHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHhcCcc
Confidence            356788776553   455555533  344567899999999999999998765544

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=96.56  E-value=0.0035  Score=58.35  Aligned_cols=54  Identities=22%  Similarity=0.322  Sum_probs=43.5

Q ss_pred             ccCcccccchhHHHHHHHhhc----CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          173 YKNQLVGVESRVKEIESLLGA----ESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~----~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      ...+..|.++-++.+.+.|.-    ......+++++|.+|+|||.|++.+.+.+...|
T Consensus       321 Ld~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rkf  378 (782)
T COG0466         321 LDKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKF  378 (782)
T ss_pred             hcccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCE
Confidence            346788999999999888752    223357999999999999999999999876655

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=96.56  E-value=0.0039  Score=53.47  Aligned_cols=47  Identities=21%  Similarity=0.343  Sum_probs=37.6

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|++..++.+..++..+.  ...+-++|..|+||||+|+++.+.+
T Consensus        14 ~~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~GtGKT~la~~~~~~l   60 (337)
T PRK12402         14 LEDILGQDEVVERLSRAVDSPN--LPHLLVQGPPGSGKTAAVRALAREL   60 (337)
T ss_pred             HHHhcCCHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHHHh
Confidence            3678899999999988886442  2235689999999999999988875

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.48  E-value=0.0028  Score=41.62  Aligned_cols=23  Identities=30%  Similarity=0.564  Sum_probs=20.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHh
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ++.|.|..|.||||+++.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47889999999999999988764

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.46  E-value=0.0044  Score=59.99  Aligned_cols=49  Identities=16%  Similarity=0.319  Sum_probs=39.1

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ....++||+.+++.+...|......  -+-++|.+|+||||||+.+..++.
T Consensus       185 ~ld~~iGr~~ei~~~i~~l~r~~~~--n~lLvG~pGvGKTal~~~La~~i~  233 (852)
T TIGR03345       185 KIDPVLGRDDEIRQMIDILLRRRQN--NPILTGEAGVGKTAVVEGLALRIA  233 (852)
T ss_pred             CCCcccCCHHHHHHHHHHHhcCCcC--ceeEECCCCCCHHHHHHHHHHHHh
Confidence            3468899999999999888754322  234889999999999999998863

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.42  E-value=0.0047  Score=56.72  Aligned_cols=49  Identities=20%  Similarity=0.283  Sum_probs=40.4

Q ss_pred             CcccccchhHHHHHHHhh----cCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          175 NQLVGVESRVKEIESLLG----AESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~----~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .++.|.++.++.+.+.|.    ......+++.++|..|+||||||+.+.+.+.
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le  128 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLME  128 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHH
Confidence            468999999999988772    2234567999999999999999999887654

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.41  E-value=0.0054  Score=52.15  Aligned_cols=47  Identities=30%  Similarity=0.368  Sum_probs=38.5

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|++..++.+..++..+.  ...+-++|..|+||||+|+.+.+.+
T Consensus        16 ~~~~~g~~~~~~~l~~~i~~~~--~~~~ll~G~~G~GKt~~~~~l~~~l   62 (319)
T PRK00440         16 LDEIVGQEEIVERLKSYVKEKN--MPHLLFAGPPGTGKTTAALALAREL   62 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4678899999999998886543  2346889999999999999998875

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=96.39  E-value=0.0057  Score=58.73  Aligned_cols=51  Identities=25%  Similarity=0.309  Sum_probs=41.1

Q ss_pred             ccCcccccchhHHHHHHHhhc---CCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          173 YKNQLVGVESRVKEIESLLGA---ESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~---~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+..+.||++++++|...|..   +.....++-|+|..|+|||++++.|.++++
T Consensus       753 VPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELq  806 (1164)
T PTZ00112        753 VPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQ  806 (1164)
T ss_pred             CCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            346888999999999887753   233346777999999999999999988764

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=96.37  E-value=0.0039  Score=51.76  Aligned_cols=26  Identities=31%  Similarity=0.367  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+.|+|.+|+|||||++.+++.+.
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence            44788999999999999999998754

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PLN03025 replication factor C subunit; Provisional

Probab=96.34  E-value=0.0058  Score=52.43  Aligned_cols=48  Identities=25%  Similarity=0.268  Sum_probs=36.8

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-.+++|.+.-+..|..++..+... . +-++|..|+||||+|+++.+.+
T Consensus        11 ~l~~~~g~~~~~~~L~~~~~~~~~~-~-lll~Gp~G~GKTtla~~la~~l   58 (319)
T PLN03025         11 KLDDIVGNEDAVSRLQVIARDGNMP-N-LILSGPPGTGKTTSILALAHEL   58 (319)
T ss_pred             CHHHhcCcHHHHHHHHHHHhcCCCc-e-EEEECCCCCCHHHHHHHHHHHH
Confidence            3467889888888888877644322 2 4589999999999999998875

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.31  E-value=0.0062  Score=59.08  Aligned_cols=47  Identities=21%  Similarity=0.401  Sum_probs=38.2

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++||+.+++.+...|.....+  -+-++|.+|+|||+||+.+..++
T Consensus       177 l~~vigr~~ei~~~i~iL~r~~~~--n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        177 LDPVIGRDEEIRRTIQVLQRRTKN--NPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CCcCCCCHHHHHHHHHHHhcCCcC--ceEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999988765432  23488999999999999998875

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.30  E-value=0.007  Score=48.87  Aligned_cols=41  Identities=22%  Similarity=0.286  Sum_probs=30.3

Q ss_pred             cchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          180 VESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...-++.+..++..  .....+-++|..|+|||+||+++++..
T Consensus        22 ~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKT~la~~~~~~~   62 (226)
T TIGR03420        22 NAELLAALRQLAAG--KGDRFLYLWGESGSGKSHLLQAACAAA   62 (226)
T ss_pred             cHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            34456666666532  335678899999999999999998874

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.

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

Probab=96.29  E-value=0.0058  Score=54.69  Aligned_cols=51  Identities=25%  Similarity=0.389  Sum_probs=38.0

Q ss_pred             CcccccchhHHHHHHHhhc--C---------CCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          175 NQLVGVESRVKEIESLLGA--E---------SKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~--~---------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .++.|.+..++++.+.+..  .         -...+-+-++|..|+|||+||+++++.....
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~  244 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSAT  244 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCC
Confidence            5667888888888876642  1         1223456789999999999999999976543

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=96.23  E-value=0.0064  Score=56.84  Aligned_cols=49  Identities=24%  Similarity=0.418  Sum_probs=38.5

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....+++|+...+..+.+.+...  ....+.|+|.+|+||||||+.+++..
T Consensus       151 ~~~~~iiGqs~~~~~l~~~ia~~--~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       151 RAFSEIVGQERAIKALLAKVASP--FPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             CcHHhceeCcHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            34467899998888887766432  24468899999999999999998764

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.23  E-value=0.0087  Score=48.58  Aligned_cols=38  Identities=18%  Similarity=0.354  Sum_probs=27.2

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      +..+..+.. .....+.+-++|..|+|||+||+++++..
T Consensus        29 ~~~l~~~~~-~~~~~~~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         29 VARLRELAA-GPVADRFFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             HHHHHHHHh-ccCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            344444433 22345678899999999999999999874

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.22  E-value=0.01  Score=48.44  Aligned_cols=29  Identities=28%  Similarity=0.323  Sum_probs=24.7

Q ss_pred             CCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          195 SKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       195 ~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .....++||.|..|.|||||++.+.+.+.
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~l~   58 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEALLQ   58 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            34578999999999999999999887643

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.21  E-value=0.0092  Score=52.19  Aligned_cols=48  Identities=27%  Similarity=0.319  Sum_probs=38.8

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.+...+..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        15 ~~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~l   62 (363)
T PRK14961         15 FRDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKSL   62 (363)
T ss_pred             hhhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHHh
Confidence            4678999998988888886543 24556789999999999999998875

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=96.19  E-value=0.0071  Score=57.74  Aligned_cols=46  Identities=28%  Similarity=0.380  Sum_probs=37.8

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++||+.+++.+...|......  -+-++|.+|+|||+||+.+..++
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~~--n~lL~G~pG~GKT~l~~~la~~~  227 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKKN--NPLLVGEPGVGKTAIAEGLALRI  227 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCCC--ceEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999888754322  23488999999999999998875

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.18  E-value=0.0088  Score=44.69  Aligned_cols=40  Identities=15%  Similarity=0.243  Sum_probs=28.1

Q ss_pred             hHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          183 RVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      +..++-+.|...-....++.+.|.-|.||||+++.+.+.+
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3444444443222344589999999999999999998874

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.15  E-value=0.0089  Score=58.01  Aligned_cols=46  Identities=22%  Similarity=0.435  Sum_probs=37.6

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++||+.+++.+...|......  -+-++|.+|+|||+||+.+..++
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~~--n~lL~G~pGvGKT~l~~~la~~i  218 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTKN--NPVLIGEPGVGKTAIVEGLAQRI  218 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCCC--ceEEEcCCCCCHHHHHHHHHHHH
Confidence            56899999999999988765432  23478999999999999988875

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=96.14  E-value=0.0072  Score=56.41  Aligned_cols=53  Identities=26%  Similarity=0.349  Sum_probs=43.7

Q ss_pred             cCcccccchhHHHHHHHhh----cCCCCeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          174 KNQLVGVESRVKEIESLLG----AESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~----~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      ..+..|+++-++.+.+.|.    .++.+..+++.+|.+|+|||.+|+.|...+.-.|
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkF  466 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKF  466 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCce
Confidence            3577899888888888775    3456688999999999999999999999876554

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=96.13  E-value=0.0076  Score=53.90  Aligned_cols=45  Identities=27%  Similarity=0.286  Sum_probs=35.2

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .++++.+..++.+...|..    ...+-++|++|+|||++|+.+++.+.
T Consensus       175 ~d~~i~e~~le~l~~~L~~----~~~iil~GppGtGKT~lA~~la~~l~  219 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI----KKNIILQGPPGVGKTFVARRLAYLLT  219 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc----CCCEEEECCCCCCHHHHHHHHHHHhc
Confidence            4567777888888877763    23466799999999999999988754

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.04  E-value=0.0093  Score=56.48  Aligned_cols=48  Identities=27%  Similarity=0.321  Sum_probs=38.4

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|..++..+.-. ..+-++|..|+||||+|+.+.+.+
T Consensus        15 FdEVIGQe~Vv~~L~~aL~~gRL~-HAyLFtGPpGvGKTTlAriLAKaL   62 (830)
T PRK07003         15 FASLVGQEHVVRALTHALDGGRLH-HAYLFTGTRGVGKTTLSRIFAKAL   62 (830)
T ss_pred             HHHHcCcHHHHHHHHHHHhcCCCC-eEEEEECCCCCCHHHHHHHHHHHh
Confidence            467899999999999988755433 334489999999999999888764

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.01  E-value=0.011  Score=54.73  Aligned_cols=49  Identities=27%  Similarity=0.234  Sum_probs=39.0

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-.+++|.+.-++.+...+..+.- .+.+-++|..|+||||+|+.+.+.+
T Consensus        14 ~F~dIIGQe~iv~~L~~aI~~~rl-~hA~Lf~GP~GvGKTTlA~~lAk~L   62 (605)
T PRK05896         14 NFKQIIGQELIKKILVNAILNNKL-THAYIFSGPRGIGKTSIAKIFAKAI   62 (605)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCC-CceEEEECCCCCCHHHHHHHHHHHh
Confidence            346789999999998888864432 3556689999999999999998874

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.94  E-value=0.013  Score=54.70  Aligned_cols=48  Identities=31%  Similarity=0.330  Sum_probs=39.3

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|..++..+.- ...+-++|..|+||||+|+.+.+.+
T Consensus        14 FddVIGQe~vv~~L~~aI~~grl-~HAyLF~GPpGvGKTTlAriLAK~L   61 (702)
T PRK14960         14 FNELVGQNHVSRALSSALERGRL-HHAYLFTGTRGVGKTTIARILAKCL   61 (702)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCC-CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999998875532 3566789999999999999988764

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

Probab=95.93  E-value=0.011  Score=52.27  Aligned_cols=52  Identities=19%  Similarity=0.287  Sum_probs=38.7

Q ss_pred             cCcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          174 KNQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      -.++.|.+..++++.+.+..           +-...+-+-++|.+|+|||+||+++.+.....
T Consensus       144 ~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~  206 (398)
T PTZ00454        144 YSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAT  206 (398)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC
Confidence            35778888888888776531           11234667789999999999999999875443

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=95.91  E-value=0.014  Score=55.85  Aligned_cols=46  Identities=28%  Similarity=0.359  Sum_probs=37.4

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++||+.+++.+...|..... .. +-++|.+|+|||+||+.++.++
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~-~n-~LLvGppGvGKT~lae~la~~i  231 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRK-NN-PLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCC-CC-eEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999998876432 22 2479999999999999998774

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=95.90  E-value=0.011  Score=48.55  Aligned_cols=53  Identities=17%  Similarity=0.393  Sum_probs=38.7

Q ss_pred             CccCcccccchhHHHHHHHhhc--CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          172 NYKNQLVGVESRVKEIESLLGA--ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~--~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ....+++|.+.+++.|.+=...  ......-+=+||..|.|||+|++++.+....
T Consensus        24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~   78 (249)
T PF05673_consen   24 IRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYAD   78 (249)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhh
Confidence            3457899999999988663221  1223455667999999999999999887543

>PRK06893 DNA replication initiation factor; Validated

Probab=95.88  E-value=0.016  Score=47.34  Aligned_cols=25  Identities=24%  Similarity=0.380  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+-+||..|+|||+|++++.+..
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~   63 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHY   63 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3567899999999999999999874

>PLN02796 D-glycerate 3-kinase

Probab=95.82  E-value=0.024  Score=49.04  Aligned_cols=27  Identities=30%  Similarity=0.288  Sum_probs=23.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..-++||.|..|.|||||++.+...+.
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL~  125 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLFN  125 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHhc
Confidence            467899999999999999999887653

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.79  E-value=0.016  Score=52.46  Aligned_cols=48  Identities=29%  Similarity=0.286  Sum_probs=37.1

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-+..|...+..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        13 ~~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~l   60 (472)
T PRK14962         13 FSEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKSL   60 (472)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4678998887788877776442 23456789999999999999998764

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.77  E-value=0.014  Score=52.64  Aligned_cols=48  Identities=21%  Similarity=0.328  Sum_probs=38.3

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-+..|..++..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        17 f~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk~L   64 (484)
T PRK14956         17 FRDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAKRL   64 (484)
T ss_pred             HHHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4678999888888888887543 13456789999999999999998764

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.74  E-value=0.015  Score=53.05  Aligned_cols=48  Identities=27%  Similarity=0.231  Sum_probs=38.6

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|..++..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        13 ~~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l   60 (504)
T PRK14963         13 FDEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAV   60 (504)
T ss_pred             HHHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4578898888888888877543 24556789999999999999998875

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

Probab=95.73  E-value=0.0086  Score=49.00  Aligned_cols=24  Identities=46%  Similarity=0.524  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...++||+|..|.|||||++.+..
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhc
Confidence            355899999999999999998753

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.69  E-value=0.021  Score=49.38  Aligned_cols=38  Identities=26%  Similarity=0.351  Sum_probs=27.9

Q ss_pred             HHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          186 EIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       186 ~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+.+.+........+|+|.|.+|.|||||+..+...+.
T Consensus        44 ~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~   81 (332)
T PRK09435         44 ELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLI   81 (332)
T ss_pred             HHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34444433345678999999999999999998766543

>PRK05439 pantothenate kinase; Provisional

Probab=95.68  E-value=0.025  Score=48.41  Aligned_cols=27  Identities=33%  Similarity=0.475  Sum_probs=23.4

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....+|||.|..|+||||+|+.+...+
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999887654

>TIGR00602 rad24 checkpoint protein rad24

Probab=95.67  E-value=0.013  Score=54.83  Aligned_cols=53  Identities=23%  Similarity=0.292  Sum_probs=42.7

Q ss_pred             CCCccCcccccchhHHHHHHHhhcCC---CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          170 PRNYKNQLVGVESRVKEIESLLGAES---KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       170 ~~~~~~~~~g~~~~~~~~~~~l~~~~---~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .|....+++|.+..+++|..++....   ...+++.++|..|.||||+++.+.+.+
T Consensus        79 rP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        79 KPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            44556789999999999998886433   345789999999999999999988764

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>CHL00181 cbbX CbbX; Provisional

Probab=95.65  E-value=0.021  Score=48.31  Aligned_cols=22  Identities=36%  Similarity=0.442  Sum_probs=19.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHHH
Q 045657          200 TLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+-++|.+|+||||+|+.+++.
T Consensus        61 ~ill~G~pGtGKT~lAr~la~~   82 (287)
T CHL00181         61 HMSFTGSPGTGKTTVALKMADI   82 (287)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4678899999999999999765

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.63  E-value=0.015  Score=55.56  Aligned_cols=50  Identities=18%  Similarity=0.314  Sum_probs=37.4

Q ss_pred             CcccccchhHHHHHHHhhcC-----------CCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          175 NQLVGVESRVKEIESLLGAE-----------SKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~-----------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .++.|.+..++++.+++...           -...+-+-++|..|+|||+||+++.+....
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~  238 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGA  238 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCC
Confidence            45778988888887776321           122356779999999999999999887543

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.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.62  E-value=0.019  Score=52.76  Aligned_cols=48  Identities=19%  Similarity=0.266  Sum_probs=38.0

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-+..|...+..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        15 f~diiGq~~~v~~L~~~i~~~r-l~ha~Lf~Gp~GvGKTTlAr~lAk~L   62 (546)
T PRK14957         15 FAEVAGQQHALNSLVHALETQK-VHHAYLFTGTRGVGKTTLGRLLAKCL   62 (546)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4678899998888888886443 23445679999999999999998864

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.61  E-value=0.019  Score=52.51  Aligned_cols=48  Identities=23%  Similarity=0.316  Sum_probs=38.6

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|..++..+.- ...+=++|..|+||||+|+.+.+.+
T Consensus        15 f~divGq~~v~~~L~~~~~~~~l-~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (509)
T PRK14958         15 FQEVIGQAPVVRALSNALDQQYL-HHAYLFTGTRGVGKTTISRILAKCL   62 (509)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCCC-CeeEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999998875432 3345688999999999999988764

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

Probab=95.61  E-value=0.013  Score=50.55  Aligned_cols=51  Identities=22%  Similarity=0.414  Sum_probs=35.8

Q ss_pred             cccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          176 QLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      ++=|-++++++|.+.+..           +-....=|-++|.+|.|||-||++|.++-...|
T Consensus       152 dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtF  213 (406)
T COG1222         152 DIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATF  213 (406)
T ss_pred             hccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceE
Confidence            344678888888776532           112344566799999999999999999854433

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=95.60  E-value=0.014  Score=50.75  Aligned_cols=27  Identities=37%  Similarity=0.572  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ....+-+||.+|+||||||+.+...-+
T Consensus       161 ~ipSmIlWGppG~GKTtlArlia~tsk  187 (554)
T KOG2028|consen  161 RIPSMILWGPPGTGKTTLARLIASTSK  187 (554)
T ss_pred             CCCceEEecCCCCchHHHHHHHHhhcC
Confidence            456677899999999999999877533

>TIGR00763 lon ATP-dependent protease La

Probab=95.59  E-value=0.019  Score=55.16  Aligned_cols=51  Identities=20%  Similarity=0.272  Sum_probs=38.0

Q ss_pred             CcccccchhHHHHHHHhhc----CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          175 NQLVGVESRVKEIESLLGA----ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~----~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .++.|.+.-++.+.+++..    ......++.++|..|+|||++|+++.+.+..+
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~  374 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRK  374 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            4577888888887776531    22234578899999999999999999886543

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.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.57  E-value=0.023  Score=50.35  Aligned_cols=49  Identities=22%  Similarity=0.221  Sum_probs=38.6

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-.+++|.+.-++.|..++..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        14 ~~~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l   62 (397)
T PRK14955         14 KFADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAV   62 (397)
T ss_pred             cHhhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHh
Confidence            34678899888888888887543 23446689999999999999988875

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=95.56  E-value=0.024  Score=47.95  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=19.1

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHh
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -+-++|.+|+||||+|+++.+.+
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l   82 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQIL   82 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHH
Confidence            46688999999999998776653

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.

>PLN02318 phosphoribulokinase/uridine kinase

Probab=95.55  E-value=0.02  Score=52.96  Aligned_cols=32  Identities=22%  Similarity=0.431  Sum_probs=26.0

Q ss_pred             hhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          191 LGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       191 l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      +.....+..+|||.|..|.||||||+.+...+
T Consensus        58 L~~~~~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         58 LAQKNDGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             HHhcCCCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            33344568899999999999999999987653

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

Probab=95.49  E-value=0.014  Score=51.00  Aligned_cols=30  Identities=37%  Similarity=0.625  Sum_probs=26.2

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ...+.++|||..|+|||.+|+++++.+.-.
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~~  175 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGIE  175 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCCC
Confidence            457899999999999999999999986544

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.47  E-value=0.031  Score=46.99  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++.++|.+|+||||++..+...+
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l   96 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKL   96 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999998876654

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.46  E-value=0.028  Score=47.84  Aligned_cols=35  Identities=23%  Similarity=0.225  Sum_probs=26.5

Q ss_pred             HHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          187 IESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       187 ~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +.+-+........+++|.|.+|.|||||+..+...
T Consensus        23 ~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~   57 (300)
T TIGR00750        23 LLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGME   57 (300)
T ss_pred             HHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            33334334456889999999999999999987665

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>TIGR00767 rho transcription termination factor Rho

Probab=95.44  E-value=0.015  Score=51.31  Aligned_cols=30  Identities=27%  Similarity=0.077  Sum_probs=25.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhhcC-CC
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKISSN-FE  227 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~~~-f~  227 (227)
                      ...++|+|.+|.|||||++.+++.+..+ |+
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfd  198 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITRNHPE  198 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhcccCCc
Confidence            4568899999999999999999986554 53

Members of this family differ in the specificity of RNA binding.

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=95.39  E-value=0.03  Score=51.88  Aligned_cols=38  Identities=32%  Similarity=0.442  Sum_probs=28.3

Q ss_pred             HHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          186 EIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       186 ~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .|.++.........+|-+.|+.|.||||||+.+...+.
T Consensus       380 iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L~  417 (568)
T PRK05537        380 ELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKLM  417 (568)
T ss_pred             HHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHhh
Confidence            33443333444566888999999999999999988764

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=95.38  E-value=0.026  Score=51.54  Aligned_cols=49  Identities=29%  Similarity=0.275  Sum_probs=38.1

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-.+++|.+.-++.|...+..+. -...+-++|..|+||||+|+.+++.+
T Consensus        19 ~f~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~L   67 (507)
T PRK06645         19 NFAELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAV   67 (507)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            34678999988888887766443 23456689999999999999998874

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=95.36  E-value=0.0087  Score=44.77  Aligned_cols=44  Identities=27%  Similarity=0.315  Sum_probs=29.4

Q ss_pred             cccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          178 VGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       178 ~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ||.-..++++.+.+..-...-..|-|.|..|+||+++|+.+|..
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~   44 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRY   44 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhh
Confidence            35555666666655432223445678999999999999999886

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=95.36  E-value=0.016  Score=48.31  Aligned_cols=25  Identities=36%  Similarity=0.375  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..-+-++|.+|+||||+|+.+++.+
T Consensus        42 ~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881        42 VLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             cceEEEEcCCCCCHHHHHHHHHHHH
Confidence            4456789999999999999998763

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=95.34  E-value=0.023  Score=51.86  Aligned_cols=50  Identities=24%  Similarity=0.407  Sum_probs=37.2

Q ss_pred             CcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          175 NQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .++.|.+..++++...+..           +-...+-+-++|.+|+|||++|+++++.+..
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~  242 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQ  242 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhcc
Confidence            5667888888888776531           1122345778999999999999999998643

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.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.34  E-value=0.021  Score=48.41  Aligned_cols=26  Identities=35%  Similarity=0.423  Sum_probs=21.8

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....+|||.|..|.||||+|+.+-.-
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~l   85 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQAL   85 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999999876444

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=95.32  E-value=0.039  Score=48.34  Aligned_cols=50  Identities=20%  Similarity=0.386  Sum_probs=38.9

Q ss_pred             cCcccccchhHHHHHHHhhc---CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          174 KNQLVGVESRVKEIESLLGA---ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~---~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      +..+.+|+++++++...|..   +..... +-|+|..|+|||+.++.|.++++.
T Consensus        16 P~~l~~Re~ei~~l~~~l~~~~~~~~p~n-~~iyG~~GTGKT~~~~~v~~~l~~   68 (366)
T COG1474          16 PEELPHREEEINQLASFLAPALRGERPSN-IIIYGPTGTGKTATVKFVMEELEE   68 (366)
T ss_pred             cccccccHHHHHHHHHHHHHHhcCCCCcc-EEEECCCCCCHhHHHHHHHHHHHh
Confidence            44589999999999887653   222222 778899999999999999998654

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=95.32  E-value=0.023  Score=50.41  Aligned_cols=51  Identities=22%  Similarity=0.287  Sum_probs=35.2

Q ss_pred             CcccccchhHHHHHHHhhcC------------CCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          175 NQLVGVESRVKEIESLLGAE------------SKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~------------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ..++|++..++.+.-.+...            ....+-+-++|..|+|||+||+.+...+...
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~   74 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAP   74 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCe
Confidence            45778877777775444321            1112456789999999999999998876544

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=95.30  E-value=0.031  Score=49.71  Aligned_cols=52  Identities=19%  Similarity=0.277  Sum_probs=36.8

Q ss_pred             cCcccccchhHHHHHHHhhcC--------C----CCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          174 KNQLVGVESRVKEIESLLGAE--------S----KYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~--------~----~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ...++|.+..++.+...+...        .    ....-+-++|..|+|||+||+.+...+...
T Consensus        14 d~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~   77 (443)
T PRK05201         14 DKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAP   77 (443)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCCh
Confidence            356788888888887666320        0    112456789999999999999988875443

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=95.29  E-value=0.024  Score=51.67  Aligned_cols=52  Identities=19%  Similarity=0.281  Sum_probs=35.7

Q ss_pred             ccCcccccchhHHHHHHHhh---c-------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          173 YKNQLVGVESRVKEIESLLG---A-------ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~---~-------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .-.+++|.+..++++.+++.   .       +....+-+-++|.+|+|||+||+++.+....
T Consensus        53 ~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~  114 (495)
T TIGR01241        53 TFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGV  114 (495)
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCC
Confidence            34677888877776665443   1       1112334668999999999999999887543

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.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=95.27  E-value=0.027  Score=53.50  Aligned_cols=47  Identities=21%  Similarity=0.419  Sum_probs=37.8

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..++||+.+++.+...|....++-.+  ++|-+|+|||+++.-...++.
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNPv--LiGEpGVGKTAIvEGLA~rIv  216 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNPV--LVGEPGVGKTAIVEGLAQRIV  216 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCCe--EecCCCCCHHHHHHHHHHHHh
Confidence            56899999999999999876644222  359999999999998888743

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=95.27  E-value=0.032  Score=49.65  Aligned_cols=52  Identities=19%  Similarity=0.211  Sum_probs=34.0

Q ss_pred             CcccccchhHHHHHHHhh-------cC-----C--CCeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          175 NQLVGVESRVKEIESLLG-------AE-----S--KYVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~-------~~-----~--~~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      ..++|.+.-++.|...+.       ..     +  ....-+-++|..|+|||+||+.+...+...|
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf  136 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPF  136 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Confidence            346787777776643331       00     0  1124577899999999999999988754433

>PRK13531 regulatory ATPase RavA; Provisional

Probab=95.26  E-value=0.028  Score=50.81  Aligned_cols=45  Identities=18%  Similarity=0.100  Sum_probs=34.7

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|+++.++.+...+..+.    -+-+.|.+|+|||+||+.+....
T Consensus        19 ~~~i~gre~vI~lll~aalag~----hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         19 EKGLYERSHAIRLCLLAALSGE----SVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             hhhccCcHHHHHHHHHHHccCC----CEEEECCCChhHHHHHHHHHHHh
Confidence            3568899988888876664321    35678999999999999998864

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=95.23  E-value=0.025  Score=48.36  Aligned_cols=27  Identities=22%  Similarity=0.484  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ....|.++||.|.||||+++.+.+++.
T Consensus       132 ~~~~I~l~G~~GsGKStvg~~La~~Lg  158 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLGRMLAARLG  158 (309)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            456899999999999999999987754

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.19  E-value=0.016  Score=48.21  Aligned_cols=24  Identities=42%  Similarity=0.555  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...++|++|..|.|||||++.+..
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~   61 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILG   61 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHc
Confidence            456899999999999999998765

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.19  E-value=0.033  Score=52.03  Aligned_cols=49  Identities=22%  Similarity=0.231  Sum_probs=38.2

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-.+++|.+.-+..|...+..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        14 ~f~eivGQe~i~~~L~~~i~~~r-i~ha~Lf~Gp~GvGKttlA~~lAk~L   62 (620)
T PRK14954         14 KFADITAQEHITHTIQNSLRMDR-VGHGYIFSGLRGVGKTTAARVFAKAV   62 (620)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            34678999888888888886443 23446689999999999999988774

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=95.19  E-value=0.028  Score=52.88  Aligned_cols=48  Identities=33%  Similarity=0.407  Sum_probs=38.9

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|..++..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        15 FddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~L   62 (709)
T PRK08691         15 FADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKSL   62 (709)
T ss_pred             HHHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            4678999999999999887543 23566789999999999999987763

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

Probab=95.18  E-value=0.033  Score=43.02  Aligned_cols=35  Identities=26%  Similarity=0.460  Sum_probs=28.5

Q ss_pred             hhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          182 SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+++|.++|.    + +++.++|..|+|||||.+.+...
T Consensus        24 ~g~~~l~~~l~----~-k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   24 EGIEELKELLK----G-KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             TTHHHHHHHHT----T-SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCHHHHHHHhc----C-CEEEEECCCCCCHHHHHHHHHhh
Confidence            45777777776    2 57889999999999999988765

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.14  E-value=0.031  Score=53.99  Aligned_cols=48  Identities=23%  Similarity=0.297  Sum_probs=38.5

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++|.+.-++.|..++..+.- ...+-++|..|+||||+|+.+.+.+
T Consensus        15 FddIIGQe~Iv~~LknaI~~~rl-~HAyLFtGPpGtGKTTLARiLAk~L   62 (944)
T PRK14949         15 FEQMVGQSHVLHALTNALTQQRL-HHAYLFTGTRGVGKTSLARLFAKGL   62 (944)
T ss_pred             HHHhcCcHHHHHHHHHHHHhCCC-CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            46789999988888888865432 3445689999999999999999875

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.14  E-value=0.035  Score=51.93  Aligned_cols=48  Identities=27%  Similarity=0.349  Sum_probs=38.8

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++|.+.-++.|..++..+.- ...+-++|..|+||||+|+.+.+.+
T Consensus        15 FddVIGQe~vv~~L~~al~~gRL-pHA~LFtGP~GvGKTTLAriLAkaL   62 (700)
T PRK12323         15 FTTLVGQEHVVRALTHALEQQRL-HHAYLFTGTRGVGKTTLSRILAKSL   62 (700)
T ss_pred             HHHHcCcHHHHHHHHHHHHhCCC-ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999998875542 3455679999999999999988774

>CHL00176 ftsH cell division protein; Validated

Probab=95.12  E-value=0.021  Score=53.61  Aligned_cols=51  Identities=25%  Similarity=0.333  Sum_probs=35.9

Q ss_pred             cCcccccchhHHHHHHHhh---cC-------CCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          174 KNQLVGVESRVKEIESLLG---AE-------SKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~---~~-------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      -.++.|.++.++++.+++.   ..       ....+-+-++|.+|+|||+||+++.+....
T Consensus       182 f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~  242 (638)
T CHL00176        182 FRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEV  242 (638)
T ss_pred             HHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3578888877777766542   11       112345778999999999999999887543

>PRK08727 hypothetical protein; Validated

Probab=95.12  E-value=0.049  Score=44.61  Aligned_cols=26  Identities=31%  Similarity=0.253  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+.++|..|+|||+|++++.+...
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~~~~   66 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCAAAE   66 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            34589999999999999999987743

>PLN02348 phosphoribulokinase

Probab=95.10  E-value=0.04  Score=48.48  Aligned_cols=28  Identities=21%  Similarity=0.298  Sum_probs=25.0

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ....+|||.|-.|.||||+|+.+.+.+.
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~Lg   74 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVFG   74 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4578999999999999999999988764

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.07  E-value=0.042  Score=46.47  Aligned_cols=29  Identities=21%  Similarity=0.291  Sum_probs=25.3

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .++.+++|.|..|.|||||...+.+.+..
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l~~  130 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMRLKD  130 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            46889999999999999999998887543

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=95.05  E-value=0.066  Score=46.41  Aligned_cols=52  Identities=25%  Similarity=0.259  Sum_probs=41.7

Q ss_pred             ccCcccccchhHHH---HHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          173 YKNQLVGVESRVKE---IESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       173 ~~~~~~g~~~~~~~---~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ....+||..+..+.   +.+++..+.-..+.|-+.|.+|.|||+||-.+.+.+.+
T Consensus        37 ~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~   91 (450)
T COG1224          37 IGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGE   91 (450)
T ss_pred             cCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCC
Confidence            35789998765554   46777766666788899999999999999999998764

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=95.03  E-value=0.032  Score=53.60  Aligned_cols=52  Identities=21%  Similarity=0.250  Sum_probs=40.4

Q ss_pred             cCcccccchhHHHHHHHhhc----CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          174 KNQLVGVESRVKEIESLLGA----ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~----~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ..+..|.+.-++.+.++|..    ......++.++|..|+||||+++.+...+...
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~  376 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRK  376 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            45788999888888877752    12345689999999999999999998765433

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.02  E-value=0.038  Score=50.18  Aligned_cols=47  Identities=28%  Similarity=0.290  Sum_probs=37.1

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      -.+++|.+.-++.|...+..+.- ...+-++|..|+||||+|+.+...
T Consensus        12 f~dliGQe~vv~~L~~a~~~~ri-~ha~Lf~Gp~G~GKTT~ArilAk~   58 (491)
T PRK14964         12 FKDLVGQDVLVRILRNAFTLNKI-PQSILLVGASGVGKTTCARIISLC   58 (491)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCC-CceEEEECCCCccHHHHHHHHHHH
Confidence            46789999888888887765432 345668999999999999988765

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=95.01  E-value=0.044  Score=47.76  Aligned_cols=53  Identities=25%  Similarity=0.263  Sum_probs=37.2

Q ss_pred             ccCcccccchhHHHH---HHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          173 YKNQLVGVESRVKEI---ESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~---~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ....+||+....+..   .+++..+.-..+.+-+.|.+|.|||+||-++...+...
T Consensus        22 ~~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~   77 (398)
T PF06068_consen   22 IADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGED   77 (398)
T ss_dssp             EETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTT
T ss_pred             ccccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCC
Confidence            357899987766554   56666554446778899999999999999999987653

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>PRK08084 DNA replication initiation factor; Provisional

Probab=95.00  E-value=0.027  Score=46.19  Aligned_cols=26  Identities=19%  Similarity=0.392  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+.+-|+|..|+|||+|++++.+...
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~~~   70 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAELS   70 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            45788999999999999999888643

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=94.99  E-value=0.022  Score=50.50  Aligned_cols=27  Identities=26%  Similarity=0.358  Sum_probs=23.5

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-++.|+|+|..|.|||||++++.+..
T Consensus       217 ~~~~~IvI~G~~gsGKTTL~~~La~~~  243 (399)
T PRK08099        217 FFVRTVAILGGESSGKSTLVNKLANIF  243 (399)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHh
Confidence            347889999999999999999988763

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=94.99  E-value=0.025  Score=40.57  Aligned_cols=23  Identities=35%  Similarity=0.322  Sum_probs=19.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ....++|.|..|.|||||++.+.
T Consensus        14 ~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          14 GKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHhh
Confidence            34678999999999999999854

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=94.97  E-value=0.041  Score=46.52  Aligned_cols=37  Identities=27%  Similarity=0.365  Sum_probs=28.6

Q ss_pred             HHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          185 KEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .++...|........+|||.|.+|.||+||..++-..
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~   74 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRE   74 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHH
Confidence            3455555555667889999999999999999876554

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=94.97  E-value=0.052  Score=46.93  Aligned_cols=48  Identities=23%  Similarity=0.300  Sum_probs=38.6

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+..++.+...+..+. -...+=++|..|+||||+|+.+...+
T Consensus        13 ~~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~l   60 (355)
T TIGR02397        13 FEDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKAL   60 (355)
T ss_pred             HhhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4678999999999998886443 23456689999999999999988774

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=94.92  E-value=0.039  Score=51.41  Aligned_cols=49  Identities=24%  Similarity=0.388  Sum_probs=39.6

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|.+.-++.|...+..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        22 ~f~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~L   70 (598)
T PRK09111         22 TFDDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARAL   70 (598)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhh
Confidence            45789999999999999887543 23456679999999999999998874

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=94.90  E-value=0.043  Score=51.48  Aligned_cols=48  Identities=27%  Similarity=0.308  Sum_probs=38.1

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|...+..+.- ...+-++|..|+||||+|+.+.+.+
T Consensus        15 f~divGQe~vv~~L~~~l~~~rl-~hAyLf~Gp~GvGKTTlAr~lAk~L   62 (647)
T PRK07994         15 FAEVVGQEHVLTALANALDLGRL-HHAYLFSGTRGVGKTTIARLLAKGL   62 (647)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCC-CeEEEEECCCCCCHHHHHHHHHHhh
Confidence            46789999888888888875432 3445688999999999999988764

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=94.90  E-value=0.048  Score=52.13  Aligned_cols=50  Identities=22%  Similarity=0.369  Sum_probs=38.3

Q ss_pred             cCcccccchhHHHHHHHhhcC-------CCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEIESLLGAE-------SKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~-------~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...++|.+..++.+...+...       .....++-++|..|+|||+||+.+.+.+.
T Consensus       453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~  509 (731)
T TIGR02639       453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG  509 (731)
T ss_pred             hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc
Confidence            467889998888887776531       12244677899999999999999988754

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

Probab=94.85  E-value=0.03  Score=51.60  Aligned_cols=53  Identities=23%  Similarity=0.290  Sum_probs=40.3

Q ss_pred             cCcccccchhHHHHHHHhhcC----------CCCeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          174 KNQLVGVESRVKEIESLLGAE----------SKYVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~----------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      -.++=|.+..+.+|.+++..-          -...+=|-++|.+|+|||.||+++.+.++-.|
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf  251 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPF  251 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCce
Confidence            356668898888888876531          12345667899999999999999999876654

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.85  E-value=0.047  Score=51.02  Aligned_cols=48  Identities=25%  Similarity=0.369  Sum_probs=37.8

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|..++..+. -...+=++|..|+||||+|+.+.+.+
T Consensus        15 f~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk~L   62 (618)
T PRK14951         15 FSEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAKSL   62 (618)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4678998888888888887543 23456689999999999999987663

>PLN02200 adenylate kinase family protein

Probab=94.84  E-value=0.034  Score=45.62  Aligned_cols=26  Identities=23%  Similarity=0.245  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++.|.|++|.||||+|+.+.+.+
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35688999999999999999887653

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=94.82  E-value=0.057  Score=48.19  Aligned_cols=26  Identities=23%  Similarity=0.183  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+|.++|..|+||||++..+...+
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l  124 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYY  124 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999876554

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

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

Probab=94.78  E-value=0.028  Score=48.10  Aligned_cols=26  Identities=31%  Similarity=0.438  Sum_probs=22.9

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      -|+|-++|.+|.|||+|+++.+..+.
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLS  202 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLS  202 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhhe
Confidence            47888999999999999999998743

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=94.78  E-value=0.053  Score=51.90  Aligned_cols=51  Identities=18%  Similarity=0.251  Sum_probs=39.2

Q ss_pred             cCcccccchhHHHHHHHhhcC-------CCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          174 KNQLVGVESRVKEIESLLGAE-------SKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~-------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ...++|.+..++.|...+...       ......+-++|..|+|||+||+.+...+..
T Consensus       457 ~~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~  514 (758)
T PRK11034        457 KMLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI  514 (758)
T ss_pred             cceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            357899999999888877521       123456778999999999999998887643

>TIGR01817 nifA Nif-specific regulatory protein

Probab=94.76  E-value=0.037  Score=50.90  Aligned_cols=48  Identities=21%  Similarity=0.295  Sum_probs=38.1

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++|....++++.+.+..-...-..|-|+|..|+|||++|+.+|+.
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~  242 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYL  242 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHh
Confidence            467899999899888877643333335669999999999999999986

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>PRK06620 hypothetical protein; Validated

Probab=94.73  E-value=0.023  Score=45.99  Aligned_cols=23  Identities=30%  Similarity=0.305  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +.+-|||..|+|||+|++++.+.
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~   67 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNL   67 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhc
Confidence            56889999999999999987765

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.71  E-value=0.04  Score=47.38  Aligned_cols=26  Identities=27%  Similarity=0.415  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++++|.+|+||||++..+...+
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46799999999999999999887664

>PRK14974 cell division protein FtsY; Provisional

Probab=94.70  E-value=0.035  Score=48.05  Aligned_cols=27  Identities=22%  Similarity=0.210  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...++.++|+.|+||||++..+...+.
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~  165 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK  165 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            367999999999999998888776543

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=94.66  E-value=0.037  Score=46.69  Aligned_cols=26  Identities=23%  Similarity=0.281  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++++++|.+|+||||++..+...+
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~  218 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARF  218 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999876653

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.65  E-value=0.054  Score=49.79  Aligned_cols=48  Identities=29%  Similarity=0.380  Sum_probs=37.9

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.+..++..+.- ...+-++|..|+||||+|+.+...+
T Consensus        15 f~divGq~~v~~~L~~~i~~~~~-~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (527)
T PRK14969         15 FSELVGQEHVVRALTNALEQQRL-HHAYLFTGTRGVGKTTLARILAKSL   62 (527)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCC-CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            46788999889888888875432 3445679999999999999988764

>PRK09087 hypothetical protein; Validated

Probab=94.64  E-value=0.028  Score=45.87  Aligned_cols=25  Identities=28%  Similarity=0.161  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-..+.|||..|+|||+|+++..+.
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~   67 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREK   67 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHh
Confidence            3456899999999999999988765

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

Probab=94.64  E-value=0.045  Score=45.33  Aligned_cols=48  Identities=21%  Similarity=0.326  Sum_probs=34.5

Q ss_pred             cccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          176 QLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ++=|.+-+++++.+....           +-+..+-|-++|.+|.|||.||++|.++-.
T Consensus       156 diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~  214 (408)
T KOG0727|consen  156 DIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTT  214 (408)
T ss_pred             ccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccc
Confidence            444677777777665432           113456677899999999999999998733

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.63  E-value=0.058  Score=50.10  Aligned_cols=48  Identities=27%  Similarity=0.262  Sum_probs=38.5

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|..++..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        12 f~eivGq~~i~~~L~~~i~~~r-~~ha~Lf~Gp~G~GKTt~A~~lAk~l   59 (584)
T PRK14952         12 FAEVVGQEHVTEPLSSALDAGR-INHAYLFSGPRGCGKTSSARILARSL   59 (584)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4678999988999998887543 23456689999999999999988764

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=94.61  E-value=0.032  Score=49.59  Aligned_cols=52  Identities=17%  Similarity=0.181  Sum_probs=34.9

Q ss_pred             cCcccccchhHHHHHHHhh-------c---CC--CC----eEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          174 KNQLVGVESRVKEIESLLG-------A---ES--KY----VYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~-------~---~~--~~----~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ...++|.+.-++.+...+.       .   ..  .+    -..+-++|..|+|||+||+.+...+...
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~p  143 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVP  143 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCC
Confidence            3457888877777654331       1   01  11    2457789999999999999998775433

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=94.60  E-value=0.067  Score=47.99  Aligned_cols=27  Identities=30%  Similarity=0.293  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...++.++|..|+||||+|..+...+.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~  120 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFK  120 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            367899999999999999999877654

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.59  E-value=0.037  Score=48.93  Aligned_cols=25  Identities=32%  Similarity=0.393  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .++++++|.+|+||||++..+...+
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L  265 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQF  265 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHH
Confidence            5789999999999999999987654

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=94.57  E-value=0.05  Score=50.07  Aligned_cols=46  Identities=26%  Similarity=0.486  Sum_probs=35.5

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      -.+++|....++.+...+....  ..-+-|+|..|+|||++|+.+++.
T Consensus        64 f~~iiGqs~~i~~l~~al~~~~--~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        64 FDEIIGQEEGIKALKAALCGPN--PQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HHHeeCcHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence            3578999988888887664332  223458999999999999999874

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=94.55  E-value=0.097  Score=38.66  Aligned_cols=47  Identities=21%  Similarity=0.371  Sum_probs=33.9

Q ss_pred             CcccccchhHHHHHHHhh----cC-CCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLG----AE-SKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~----~~-~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .++.|..--++.+.+.|.    .. ....-|++.+|..|+|||-+++.+.+.
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            466777666666655553    22 234679999999999999988887666

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>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=94.52  E-value=0.066  Score=43.43  Aligned_cols=27  Identities=30%  Similarity=0.447  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ....+-|+|-.|+|||.|.+++++.+.
T Consensus        33 ~~~~l~l~G~~G~GKTHLL~Ai~~~~~   59 (219)
T PF00308_consen   33 RYNPLFLYGPSGLGKTHLLQAIANEAQ   59 (219)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            355678999999999999999999854

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.

>PRK07952 DNA replication protein DnaC; Validated

Probab=94.49  E-value=0.069  Score=44.15  Aligned_cols=26  Identities=27%  Similarity=0.381  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+-++|-+|+|||+||.++.+.+.
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~  124 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELL  124 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH
Confidence            34677899999999999999988753

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.49  E-value=0.075  Score=46.43  Aligned_cols=48  Identities=27%  Similarity=0.335  Sum_probs=38.6

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+..++.+...+..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        16 ~~~iig~~~~~~~l~~~i~~~~-~~~~~L~~G~~G~GKt~~a~~la~~l   63 (367)
T PRK14970         16 FDDVVGQSHITNTLLNAIENNH-LAQALLFCGPRGVGKTTCARILARKI   63 (367)
T ss_pred             HHhcCCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4678899999998988887542 23466789999999999999997775

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=94.48  E-value=0.083  Score=46.06  Aligned_cols=51  Identities=24%  Similarity=0.201  Sum_probs=40.2

Q ss_pred             CCccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          171 RNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       171 ~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      |.....++|.+.-.+.+...+..+.- ...+-++|..|+||||+|+.+.+.+
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~grl-~ha~L~~G~~G~GKttlA~~lA~~L   69 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREGKL-HHALLFEGPEGIGKATLAFHLANHI   69 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcCCC-CeeEeeECCCCCCHHHHHHHHHHHH
Confidence            34457899999999999888875532 3356679999999999999988774

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=94.44  E-value=0.047  Score=47.48  Aligned_cols=45  Identities=27%  Similarity=0.229  Sum_probs=33.3

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++|.+.-+..|...+...  ...-+-|.|-.|+||||+|+.+|+-
T Consensus        17 ~~ivGq~~~k~al~~~~~~p--~~~~vli~G~~GtGKs~~ar~~~~~   61 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDP--KIGGVMIMGDRGTGKSTTIRALVDL   61 (350)
T ss_pred             HHHhChHHHHHHHHHhccCC--CCCeEEEEcCCCCCHHHHHHHHHHH
Confidence            67889988777766544322  2333448999999999999999875

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=94.41  E-value=0.064  Score=51.79  Aligned_cols=48  Identities=21%  Similarity=0.236  Sum_probs=38.4

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|..++..+.- ...+-++|..|+||||+|+.+.+.+
T Consensus        14 f~eiiGqe~v~~~L~~~i~~~ri-~Ha~Lf~Gp~G~GKTt~A~~lAr~L   61 (824)
T PRK07764         14 FAEVIGQEHVTEPLSTALDSGRI-NHAYLFSGPRGCGKTSSARILARSL   61 (824)
T ss_pred             HHHhcCcHHHHHHHHHHHHhCCC-CceEEEECCCCCCHHHHHHHHHHHh
Confidence            35788998888889888875432 2455689999999999999998875

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=94.39  E-value=0.038  Score=44.80  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i~Gl   59 (228)
T PRK10584         35 RGETIALIGESGSGKSTLLAILAGL   59 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcC
Confidence            3568999999999999999998764

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=94.38  E-value=0.066  Score=47.48  Aligned_cols=26  Identities=38%  Similarity=0.420  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+-|+|..|+|||+|++++++.+.
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~  161 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEIL  161 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHH
Confidence            45678999999999999999999854

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).

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=94.37  E-value=0.06  Score=51.54  Aligned_cols=51  Identities=22%  Similarity=0.291  Sum_probs=36.3

Q ss_pred             CcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          175 NQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .++.|.+.-++.|.+.+..           +-...+-+-++|..|+|||+||+++.+....+
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~  514 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGAN  514 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC
Confidence            5667888777777665531           11223457789999999999999999875443

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.

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=94.36  E-value=0.042  Score=46.09  Aligned_cols=28  Identities=25%  Similarity=0.568  Sum_probs=24.8

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      .-++|.|-.|.|||||++.+++.++.+|
T Consensus        70 Qr~~If~~~G~GKTtLa~~i~~~i~~~~   97 (274)
T cd01133          70 GKIGLFGGAGVGKTVLIMELINNIAKAH   97 (274)
T ss_pred             CEEEEecCCCCChhHHHHHHHHHHHhcC
Confidence            4588999999999999999999987665

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=94.35  E-value=0.034  Score=50.75  Aligned_cols=24  Identities=42%  Similarity=0.501  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...++||+|-.|.||||||+.+..
T Consensus       316 ~GE~lglVGeSGsGKSTlar~i~g  339 (539)
T COG1123         316 EGETLGLVGESGSGKSTLARILAG  339 (539)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            356899999999999999998764

>PHA02244 ATPase-like protein

Probab=94.35  E-value=0.051  Score=47.54  Aligned_cols=25  Identities=28%  Similarity=0.328  Sum_probs=21.0

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      -|-|+|..|+|||+||+++...+..
T Consensus       121 PVLL~GppGtGKTtLA~aLA~~lg~  145 (383)
T PHA02244        121 PVFLKGGAGSGKNHIAEQIAEALDL  145 (383)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3567899999999999999887543

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.34  E-value=0.076  Score=49.50  Aligned_cols=48  Identities=25%  Similarity=0.329  Sum_probs=38.1

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|..++..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        15 ~~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l   62 (585)
T PRK14950         15 FAELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAV   62 (585)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4678999988888888886543 23455689999999999999998774

>PRK12377 putative replication protein; Provisional

Probab=94.33  E-value=0.056  Score=44.80  Aligned_cols=26  Identities=27%  Similarity=0.310  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+-++|..|+|||+||.++.+.+.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~  126 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLL  126 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            35678999999999999999998854

>PRK10536 hypothetical protein; Provisional

Probab=94.32  E-value=0.088  Score=43.79  Aligned_cols=43  Identities=16%  Similarity=0.086  Sum_probs=32.0

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+.++......+..+|..    ..++-+.|..|+|||+||.++.-+
T Consensus        55 ~~i~p~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHH
Confidence            3455666666666766653    238888999999999999997664

>PRK10865 protein disaggregation chaperone; Provisional

Probab=94.30  E-value=0.069  Score=51.95  Aligned_cols=49  Identities=16%  Similarity=0.380  Sum_probs=37.3

Q ss_pred             cCcccccchhHHHHHHHhhcC-------CCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAE-------SKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~-------~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|.+..++.|...+...       +....++-++|..|+|||+||+++++.+
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            357889998888887766421       1223577899999999999999998764

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=94.29  E-value=0.095  Score=45.95  Aligned_cols=50  Identities=20%  Similarity=0.135  Sum_probs=39.4

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....+++|.+.-++.+.+.+..+.- ...+-++|..|+||+|+|..+.+.+
T Consensus        16 ~~~~~iiGq~~~~~~L~~~~~~~rl-~HA~Lf~Gp~G~GK~~lA~~~A~~L   65 (365)
T PRK07471         16 RETTALFGHAAAEAALLDAYRSGRL-HHAWLIGGPQGIGKATLAYRMARFL   65 (365)
T ss_pred             CchhhccChHHHHHHHHHHHHcCCC-CceEEEECCCCCCHHHHHHHHHHHH
Confidence            4457899999888888888875532 3356688999999999999887763

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=94.28  E-value=0.057  Score=50.52  Aligned_cols=47  Identities=23%  Similarity=0.396  Sum_probs=36.0

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ..+++|.+.-++.+...+..+.    -+-++|+.|+||||||+++.+.+..
T Consensus        17 ~~~viG~~~a~~~l~~a~~~~~----~~ll~G~pG~GKT~la~~la~~l~~   63 (608)
T TIGR00764        17 IDQVIGQEEAVEIIKKAAKQKR----NVLLIGEPGVGKSMLAKAMAELLPD   63 (608)
T ss_pred             HhhccCHHHHHHHHHHHHHcCC----CEEEECCCCCCHHHHHHHHHHHcCc
Confidence            4677898888877777676432    3338999999999999999887543

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK05642 DNA replication initiation factor; Validated

Probab=94.27  E-value=0.049  Score=44.64  Aligned_cols=25  Identities=20%  Similarity=0.506  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .+.+-|+|..|+|||.|++++.+.+
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~   69 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRF   69 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4678899999999999999998764

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=94.24  E-value=0.087  Score=48.81  Aligned_cols=48  Identities=21%  Similarity=0.231  Sum_probs=38.3

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.+...+..+.. .+..=++|..|+||||+|+.+...+
T Consensus        15 f~~viGq~~v~~~L~~~i~~~~~-~hayLf~Gp~GtGKTt~Ak~lAkal   62 (559)
T PRK05563         15 FEDVVGQEHITKTLKNAIKQGKI-SHAYLFSGPRGTGKTSAAKIFAKAV   62 (559)
T ss_pred             HHhccCcHHHHHHHHHHHHcCCC-CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999998875442 3444579999999999999987764

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=94.23  E-value=0.066  Score=46.14  Aligned_cols=47  Identities=28%  Similarity=0.226  Sum_probs=33.1

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ..++|.++.+..+...+..+    +-+-+.|..|+|||+||+.+...+.-.
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~----~~vll~G~PG~gKT~la~~lA~~l~~~   70 (329)
T COG0714          24 KVVVGDEEVIELALLALLAG----GHVLLEGPPGVGKTLLARALARALGLP   70 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcC----CCEEEECCCCccHHHHHHHHHHHhCCC
Confidence            34788776666665544422    235678999999999999998876543

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=94.22  E-value=0.043  Score=44.70  Aligned_cols=25  Identities=24%  Similarity=0.199  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        34 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         34 EGEMMAIVGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            3558999999999999999998754

>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=94.18  E-value=0.044  Score=44.56  Aligned_cols=25  Identities=36%  Similarity=0.423  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~G~   54 (233)
T cd03258          30 KGEIFGIIGRSGAGKSTLIRCINGL   54 (233)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3458999999999999999988654

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.

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=94.17  E-value=0.05  Score=48.36  Aligned_cols=26  Identities=27%  Similarity=0.190  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..-+|||.|..|.|||||++.+..-+
T Consensus       211 ~PlIIGIsG~qGSGKSTLa~~L~~lL  236 (460)
T PLN03046        211 PPLVIGFSAPQGCGKTTLVFALDYLF  236 (460)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999986544

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=94.16  E-value=0.062  Score=49.18  Aligned_cols=48  Identities=21%  Similarity=0.371  Sum_probs=39.1

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++|....++++.+.+..-...-..|-|+|..|+|||++|+++|+.
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~  233 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAA  233 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHh
Confidence            467899999998888877654334446778999999999999999986

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=94.13  E-value=0.08  Score=43.50  Aligned_cols=53  Identities=21%  Similarity=0.384  Sum_probs=39.2

Q ss_pred             CccCcccccchhHHHHHHHhhc--CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          172 NYKNQLVGVESRVKEIESLLGA--ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~--~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .....++|.+.+++.|.+=...  .....+=|-+||..|.||+.|.+++++.+..
T Consensus        57 i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~  111 (287)
T COG2607          57 IDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYAD  111 (287)
T ss_pred             cCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHh
Confidence            4457889999998888652211  1233555678999999999999999998654

>cd01858 NGP_1 NGP-1

Probab=94.12  E-value=0.067  Score=40.74  Aligned_cols=43  Identities=23%  Similarity=0.399  Sum_probs=27.4

Q ss_pred             ccchhHHHHHHHhhcCC-CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          179 GVESRVKEIESLLGAES-KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       179 g~~~~~~~~~~~l~~~~-~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      |.+.-++.+.+++.... .....++++|++|+|||||.+.+..+
T Consensus        82 ~~~~L~~~l~~~~~~~~~~~~~~v~~~G~~nvGKStliN~l~~~  125 (157)
T cd01858          82 GKGSLIQLLRQFSKLHSDKKQISVGFIGYPNVGKSSIINTLRSK  125 (157)
T ss_pred             cHHHHHHHHHHHHhhhccccceEEEEEeCCCCChHHHHHHHhcC
Confidence            44444444444432111 12346789999999999999988764

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=94.11  E-value=0.047  Score=44.28  Aligned_cols=25  Identities=24%  Similarity=0.120  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G~   56 (225)
T PRK10247         32 AGEFKLITGPSGCGKSTLLKIVASL   56 (225)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4568999999999999999998764

>PLN02165 adenylate isopentenyltransferase

Probab=94.09  E-value=0.05  Score=46.91  Aligned_cols=25  Identities=20%  Similarity=0.287  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++.|+|+.|.||||||..+...+
T Consensus        43 g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         43 DKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHc
Confidence            4489999999999999999988774

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=94.08  E-value=0.048  Score=43.95  Aligned_cols=25  Identities=24%  Similarity=0.194  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+...
T Consensus        30 ~G~~~~i~G~nGsGKSTLl~~i~G~   54 (221)
T TIGR02211        30 KGEIVAIVGSSGSGKSTLLHLLGGL   54 (221)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3458999999999999999998754

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.06  E-value=0.09  Score=47.87  Aligned_cols=48  Identities=25%  Similarity=0.288  Sum_probs=38.2

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-+..+..++..+. -....-++|..|+||||+|+.+...+
T Consensus        15 f~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~L   62 (486)
T PRK14953         15 FKEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKVL   62 (486)
T ss_pred             HHHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4678899999999988887543 23445579999999999999988764

>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional

Probab=94.06  E-value=0.08  Score=46.39  Aligned_cols=28  Identities=29%  Similarity=0.520  Sum_probs=24.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ...+++|+|..|.|||||+..+...+..
T Consensus       204 ~~~~~~~~g~~~~GKtt~~~~l~~~l~~  231 (366)
T PRK14489        204 APPLLGVVGYSGTGKTTLLEKLIPELIA  231 (366)
T ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            4679999999999999999999888654

>PRK08116 hypothetical protein; Validated

Probab=94.06  E-value=0.053  Score=45.44  Aligned_cols=25  Identities=36%  Similarity=0.567  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+-++|-.|+|||.||.++++.+.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~  139 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELI  139 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH
Confidence            3577899999999999999999854

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=94.03  E-value=0.048  Score=44.08  Aligned_cols=25  Identities=48%  Similarity=0.577  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          30 KGETLGLVGESGSGKSTLARAILGL   54 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3458999999999999999987654

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.

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

Probab=94.00  E-value=0.065  Score=44.65  Aligned_cols=51  Identities=20%  Similarity=0.267  Sum_probs=37.9

Q ss_pred             cCcccccchhHHHH---HHHhhc----CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          174 KNQLVGVESRVKEI---ESLLGA----ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       174 ~~~~~g~~~~~~~~---~~~l~~----~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      -.+++|.+..+++-   .+.|..    +.+..+-|-.+|..|.|||.+|+++.+..+.
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kv  177 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKV  177 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCC
Confidence            36788988766653   444542    3466777888999999999999999887443

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=94.00  E-value=0.05  Score=45.06  Aligned_cols=25  Identities=32%  Similarity=0.258  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||++.+...
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~i~G~   54 (257)
T PRK10619         30 AGDVISIIGSSGSGKSTFLRCINFL   54 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4558999999999999999988764

>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=93.98  E-value=0.042  Score=43.12  Aligned_cols=26  Identities=38%  Similarity=0.478  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...|+||+|..|.|||||.+.+-.++
T Consensus        31 PGeVLgiVGESGSGKtTLL~~is~rl   56 (258)
T COG4107          31 PGEVLGIVGESGSGKTTLLKCISGRL   56 (258)
T ss_pred             CCcEEEEEecCCCcHHhHHHHHhccc
Confidence            45689999999999999999887653

>TIGR03238 dnd_assoc_3 dnd system-associated protein 3

Probab=93.97  E-value=0.046  Score=49.31  Aligned_cols=22  Identities=27%  Similarity=0.218  Sum_probs=19.4

Q ss_pred             CCeEEEEEEcCCCchHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARA  217 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~  217 (227)
                      ....+++|+|..|.|||||.+.
T Consensus        30 ~~GEiv~L~G~SGsGKSTLLr~   51 (504)
T TIGR03238        30 PSSSLLFLCGSSGDGKSEILAE   51 (504)
T ss_pred             cCCCEEEEECCCCCCHHHHHhc
Confidence            4567999999999999999883

cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.

>PRK09183 transposase/IS protein; Provisional

Probab=93.94  E-value=0.053  Score=45.19  Aligned_cols=23  Identities=30%  Similarity=0.371  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+.|+|..|+|||+||.++.+.
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~  125 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYE  125 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHH
Confidence            45779999999999999998665

>COG4240 Predicted kinase [General function prediction only]

Probab=93.90  E-value=0.059  Score=43.96  Aligned_cols=28  Identities=29%  Similarity=0.407  Sum_probs=24.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ..-++||.|..|.||||++-.+++.+..
T Consensus        49 rPli~gisGpQGSGKStls~~i~~~L~~   76 (300)
T COG4240          49 RPLIVGISGPQGSGKSTLSALIVRLLAA   76 (300)
T ss_pred             CceEEEeecCCCCchhhHHHHHHHHHHH
Confidence            3568999999999999999999987543

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.89  E-value=0.1  Score=46.75  Aligned_cols=25  Identities=24%  Similarity=0.279  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .+++.++|.+|+||||++..+...+
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~  245 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARY  245 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999988775543

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

Probab=93.89  E-value=0.055  Score=44.66  Aligned_cols=25  Identities=24%  Similarity=0.248  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (255)
T PRK11300         30 EQEIVSLIGPNGAGKTTVFNCLTGF   54 (255)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999987654

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=93.87  E-value=0.064  Score=45.59  Aligned_cols=26  Identities=27%  Similarity=0.392  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .-+|.|.|..|+||||+|+.+.+++.
T Consensus        92 p~iIlI~G~sgsGKStlA~~La~~l~  117 (301)
T PRK04220         92 PIIILIGGASGVGTSTIAFELASRLG  117 (301)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35788999999999999999998753

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=93.86  E-value=0.051  Score=46.85  Aligned_cols=26  Identities=35%  Similarity=0.365  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|+|..|.|||||++.+..-+
T Consensus        32 ~Ge~~~lvG~sGsGKSTL~~~l~Gll   57 (326)
T PRK11022         32 QGEVVGIVGESGSGKSVSSLAIMGLI   57 (326)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            35689999999999999999987643

>PRK06526 transposase; Provisional

Probab=93.85  E-value=0.059  Score=44.81  Aligned_cols=23  Identities=26%  Similarity=0.228  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-+-++|.+|+|||+||.++...
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~  121 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIR  121 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHH
Confidence            45789999999999999998766

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=93.82  E-value=0.099  Score=47.08  Aligned_cols=27  Identities=37%  Similarity=0.367  Sum_probs=23.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .+.+-|+|..|+|||+|++++.+.+..
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~  174 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILE  174 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence            466889999999999999999988643

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.80  E-value=0.11  Score=48.77  Aligned_cols=48  Identities=25%  Similarity=0.273  Sum_probs=37.8

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-+..|..++..+.- ...+=++|..|+||||+|+.+.+.+
T Consensus        15 f~~liGq~~i~~~L~~~l~~~rl-~~a~Lf~Gp~G~GKttlA~~lAk~L   62 (620)
T PRK14948         15 FDELVGQEAIATTLKNALISNRI-APAYLFTGPRGTGKTSSARILAKSL   62 (620)
T ss_pred             HhhccChHHHHHHHHHHHHcCCC-CceEEEECCCCCChHHHHHHHHHHh
Confidence            46788998888888888875432 2345578999999999999998874

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=93.80  E-value=0.058  Score=43.60  Aligned_cols=25  Identities=20%  Similarity=0.397  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        33 ~Ge~~~l~G~nGsGKSTLl~~i~G~   57 (224)
T TIGR02324        33 AGECVALSGPSGAGKSTLLKSLYAN   57 (224)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999988754

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.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=93.77  E-value=0.14  Score=44.11  Aligned_cols=45  Identities=18%  Similarity=0.209  Sum_probs=30.4

Q ss_pred             cccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          176 QLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ..+=..+-...+...+..+    +-|-|.|..|+||||+|+.+...+.-
T Consensus        46 ~y~f~~~~~~~vl~~l~~~----~~ilL~G~pGtGKTtla~~lA~~l~~   90 (327)
T TIGR01650        46 AYLFDKATTKAICAGFAYD----RRVMVQGYHGTGKSTHIEQIAARLNW   90 (327)
T ss_pred             CccCCHHHHHHHHHHHhcC----CcEEEEeCCCChHHHHHHHHHHHHCC
Confidence            3333334445555555432    34788999999999999999887543

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=93.76  E-value=0.06  Score=44.42  Aligned_cols=25  Identities=24%  Similarity=0.270  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        31 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         31 QNQVTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3558999999999999999998753

>PRK10867 signal recognition particle protein; Provisional

Probab=93.74  E-value=0.12  Score=46.39  Aligned_cols=26  Identities=27%  Similarity=0.293  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++.++|.+|+||||++..+...+
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l  124 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYL  124 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            36799999999999999888776553

>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=93.72  E-value=0.061  Score=43.23  Aligned_cols=24  Identities=33%  Similarity=0.361  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+++|.|..|.|||||.+.+..-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (218)
T cd03266          31 GEVTGLLGPNGAGKTTTLRMLAGL   54 (218)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999988654

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.

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

Probab=93.71  E-value=0.062  Score=42.47  Aligned_cols=24  Identities=25%  Similarity=0.239  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      .-.+++|.|..|.|||||.+.+..
T Consensus        32 ~Ge~~~l~G~nGsGKSTLl~~l~G   55 (192)
T cd03232          32 PGTLTALMGESGAGKTTLLDVLAG   55 (192)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            456899999999999999999875

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.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=93.71  E-value=0.054  Score=45.10  Aligned_cols=25  Identities=24%  Similarity=0.344  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||++.+..-
T Consensus        36 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   60 (265)
T PRK10575         36 AGKVTGLIGHNGSGKSTLLKMLGRH   60 (265)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCC
Confidence            3568999999999999999987653

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=93.70  E-value=0.064  Score=50.39  Aligned_cols=26  Identities=35%  Similarity=0.364  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..-++.-++|.+|+||||||.-|.++
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkq  349 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQ  349 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHh
Confidence            45678999999999999999988776

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=93.70  E-value=0.059  Score=46.50  Aligned_cols=25  Identities=36%  Similarity=0.352  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||++.+..-
T Consensus        32 ~Ge~~~ivG~sGsGKSTLl~~i~Gl   56 (330)
T PRK15093         32 EGEIRGLVGESGSGKSLIAKAICGV   56 (330)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcc
Confidence            3557999999999999999998764

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

Probab=93.67  E-value=0.062  Score=44.68  Aligned_cols=25  Identities=24%  Similarity=0.270  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        37 ~Ge~~~I~G~NGsGKSTLlk~l~Gl   61 (257)
T PRK11247         37 AGQFVAVVGRSGCGKSTLLRLLAGL   61 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3558999999999999999988754

>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=93.67  E-value=0.066  Score=41.33  Aligned_cols=25  Identities=32%  Similarity=0.252  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|.|..|.|||||++.+...
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3457999999999999999998764

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

>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=93.67  E-value=0.064  Score=45.67  Aligned_cols=25  Identities=40%  Similarity=0.486  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++||+|..|.||||+++++..-
T Consensus        30 ~GE~lgiVGESGsGKS~~~~aim~l   54 (316)
T COG0444          30 KGEILGIVGESGSGKSVLAKAIMGL   54 (316)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHhc
Confidence            4568999999999999999998764

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=93.66  E-value=2.4  Score=35.50  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++++|++|+|||||.+.+.+.
T Consensus       118 ~~~~~~vG~~nvGKSslin~l~~~  141 (276)
T TIGR03596       118 PIRAMIVGIPNVGKSTLINRLAGK  141 (276)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCC
Confidence            346889999999999999987653

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>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=93.66  E-value=0.063  Score=43.90  Aligned_cols=25  Identities=28%  Similarity=0.279  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||++.+..-
T Consensus        46 ~Ge~~~i~G~NGsGKSTLl~~i~Gl   70 (236)
T cd03267          46 KGEIVGFIGPNGAGKTTTLKILSGL   70 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999988753

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.

>PLN02199 shikimate kinase

Probab=93.65  E-value=0.067  Score=45.38  Aligned_cols=26  Identities=23%  Similarity=0.341  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+.|.++||.|.||||+++.+.+.+.
T Consensus       102 ~~~I~LIG~~GSGKSTVgr~LA~~Lg  127 (303)
T PLN02199        102 GRSMYLVGMMGSGKTTVGKLMSKVLG  127 (303)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34678899999999999999988653

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=93.64  E-value=0.11  Score=48.06  Aligned_cols=48  Identities=25%  Similarity=0.275  Sum_probs=39.2

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|...+..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        15 f~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~L   62 (563)
T PRK06647         15 FNSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARCL   62 (563)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            4678999999999999887543 24556789999999999999998874

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=93.64  E-value=0.073  Score=50.53  Aligned_cols=47  Identities=26%  Similarity=0.299  Sum_probs=36.4

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++|....++.+.+.+..-...-..|-|.|..|+|||++|+++|+.
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~  422 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNL  422 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence            46899988888887666532223345778999999999999999985

>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=93.62  E-value=0.068  Score=40.30  Aligned_cols=25  Identities=28%  Similarity=0.397  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|.|..|.|||||.+.+..-
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCC
Confidence            3568999999999999999987653

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.

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=93.61  E-value=0.066  Score=44.77  Aligned_cols=26  Identities=23%  Similarity=0.248  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|+|..|.|||||++.+..-+
T Consensus        49 ~Ge~~~I~G~nGsGKSTLl~~i~Gl~   74 (271)
T PRK14238         49 ENEVTAIIGPSGCGKSTYIKTLNRMV   74 (271)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            35689999999999999999987643

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.60  E-value=0.067  Score=44.60  Aligned_cols=24  Identities=29%  Similarity=0.315  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|.|..|.|||||.+.+..
T Consensus        46 ~Ge~~~i~G~nGsGKSTLl~~l~G   69 (268)
T PRK14248         46 KHAVTALIGPSGCGKSTFLRSINR   69 (268)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            456899999999999999999875

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=93.56  E-value=0.14  Score=46.25  Aligned_cols=48  Identities=23%  Similarity=0.324  Sum_probs=38.4

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-+..+...+..+.- ...+-++|..|+||||+|+.+.+.+
T Consensus        16 ~~diiGq~~~v~~L~~~i~~~~i-~ha~Lf~Gp~G~GKtt~A~~lAk~l   63 (451)
T PRK06305         16 FSEILGQDAVVAVLKNALRFNRA-AHAYLFSGIRGTGKTTLARIFAKAL   63 (451)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCC-ceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            46789999999988888875432 3456679999999999999988774

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

Probab=93.56  E-value=0.072  Score=40.99  Aligned_cols=25  Identities=20%  Similarity=0.236  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|.|..|.|||||.+.+...
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~   49 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGL   49 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3457999999999999999988754

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.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.56  E-value=0.068  Score=44.31  Aligned_cols=26  Identities=27%  Similarity=0.234  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|.|..|.|||||++.+...+
T Consensus        37 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   62 (259)
T PRK14274         37 ENEVTAIIGPSGCGKSTFIKTLNLMI   62 (259)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            35589999999999999999987643

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.55  E-value=0.072  Score=46.75  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++.++|..|+||||++.++...
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~  160 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAAR  160 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            468899999999999999998766

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=93.52  E-value=0.068  Score=44.27  Aligned_cols=25  Identities=40%  Similarity=0.432  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||++.+..-
T Consensus        31 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (258)
T PRK11701         31 PGEVLGIVGESGSGKTTLLNALSAR   55 (258)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4558999999999999999998764

>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional

Probab=93.50  E-value=0.063  Score=46.36  Aligned_cols=25  Identities=40%  Similarity=0.387  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||++.+..-
T Consensus        41 ~Ge~~~ivG~sGsGKSTL~~~l~Gl   65 (330)
T PRK09473         41 AGETLGIVGESGSGKSQTAFALMGL   65 (330)
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcC
Confidence            3568999999999999999998754

>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional

Probab=93.49  E-value=0.068  Score=46.12  Aligned_cols=25  Identities=36%  Similarity=0.360  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||++.+..-
T Consensus        40 ~Ge~~~IvG~sGsGKSTLl~~l~gl   64 (327)
T PRK11308         40 RGKTLAVVGESGCGKSTLARLLTMI   64 (327)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcC
Confidence            3468999999999999999998764

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=93.49  E-value=0.07  Score=44.43  Aligned_cols=24  Identities=29%  Similarity=0.278  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~l~G   58 (264)
T PRK14243         35 KNQITAFIGPSGCGKSTILRCFNR   58 (264)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            456899999999999999999875

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=93.48  E-value=0.11  Score=47.63  Aligned_cols=47  Identities=28%  Similarity=0.320  Sum_probs=35.4

Q ss_pred             cccccchhHHHHHHHhhc---CCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          176 QLVGVESRVKEIESLLGA---ESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~---~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ++.--.+-+++|..||..   +....+++-+.|.+|+||||..+.+.+.+
T Consensus        20 eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el   69 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL   69 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            334344567888888864   23346789999999999999999998874

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=93.47  E-value=0.068  Score=45.13  Aligned_cols=25  Identities=20%  Similarity=0.133  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        36 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   60 (289)
T PRK13645         36 KNKVTCVIGTTGSGKSTMIQLTNGL   60 (289)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3468999999999999999998654

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=93.47  E-value=0.07  Score=44.27  Aligned_cols=25  Identities=24%  Similarity=0.242  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        38 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   62 (260)
T PRK10744         38 KNQVTAFIGPSGCGKSTLLRTFNRM   62 (260)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3568999999999999999998754

>cd01855 YqeH YqeH

Probab=93.46  E-value=0.088  Score=41.40  Aligned_cols=40  Identities=28%  Similarity=0.356  Sum_probs=28.1

Q ss_pred             cccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          178 VGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       178 ~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .|.++-++.+.+.+.    ....+.++|+.|+|||||.+.+.+.
T Consensus       111 ~gi~eL~~~l~~~l~----~~~~~~~~G~~nvGKStliN~l~~~  150 (190)
T cd01855         111 WGVEELINAIKKLAK----KGGDVYVVGATNVGKSTLINALLKK  150 (190)
T ss_pred             CCHHHHHHHHHHHhh----cCCcEEEEcCCCCCHHHHHHHHHHh
Confidence            355554555555443    2246889999999999999998875

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=93.46  E-value=0.069  Score=43.95  Aligned_cols=24  Identities=29%  Similarity=0.299  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~G   53 (252)
T PRK14239         30 PNEITALIGPSGSGKSTLLRSINR   53 (252)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            345799999999999999999864

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=93.46  E-value=0.067  Score=44.05  Aligned_cols=24  Identities=29%  Similarity=0.324  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||++.+..
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~i~G   55 (252)
T CHL00131         32 KGEIHAIMGPNGSGKSTLSKVIAG   55 (252)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHcC
Confidence            456899999999999999998765

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=93.45  E-value=0.068  Score=44.87  Aligned_cols=25  Identities=24%  Similarity=0.186  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~l~G~nGsGKSTLl~~i~Gl   56 (280)
T PRK13649         32 DGSYTAFIGHTGSGKSTIMQLLNGL   56 (280)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3457999999999999999988654

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=93.43  E-value=0.071  Score=44.53  Aligned_cols=25  Identities=32%  Similarity=0.339  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        49 ~Ge~~~l~G~nGsGKSTLl~~L~Gl   73 (269)
T cd03294          49 EGEIFVIMGLSGSGKSTLLRCINRL   73 (269)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3468999999999999999988654

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.

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

Probab=93.41  E-value=0.076  Score=45.23  Aligned_cols=30  Identities=37%  Similarity=0.470  Sum_probs=25.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      ....++|||..|.|||-||++|+..+.-+|
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~mg~nf  194 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATMGVNF  194 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhcCCce
Confidence            345789999999999999999999876655

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

Probab=93.40  E-value=0.099  Score=44.68  Aligned_cols=30  Identities=27%  Similarity=0.457  Sum_probs=23.8

Q ss_pred             hcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          192 GAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       192 ~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+.....|.++|.+|+|||++.+.+..+
T Consensus        32 ~~~~~~~~rIllvGktGVGKSSliNsIlG~   61 (313)
T TIGR00991        32 KEEDVSSLTILVMGKGGVGKSSTVNSIIGE   61 (313)
T ss_pred             ccccccceEEEEECCCCCCHHHHHHHHhCC
Confidence            444444556789999999999999998865

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

Probab=93.39  E-value=0.11  Score=45.58  Aligned_cols=49  Identities=18%  Similarity=0.215  Sum_probs=34.5

Q ss_pred             CcccccchhHHHHHHHhhc----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          175 NQLVGVESRVKEIESLLGA----------ESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .++.|.++.++-|.+....          -....+-|-.+|.+|.|||.||++|+-.-+
T Consensus       212 ~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~  270 (491)
T KOG0738|consen  212 DDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECG  270 (491)
T ss_pred             HhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhhc
Confidence            4666776666666554321          123466777889999999999999997643

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=93.38  E-value=0.071  Score=44.51  Aligned_cols=25  Identities=40%  Similarity=0.381  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   56 (269)
T PRK11831         32 RGKITAIMGPSGIGKTTLLRLIGGQ   56 (269)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3458999999999999999988754

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=93.38  E-value=0.073  Score=43.18  Aligned_cols=25  Identities=28%  Similarity=0.393  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|.|..|.|||||.+.+..-
T Consensus        47 ~Ge~~~i~G~nGsGKSTLl~~l~G~   71 (224)
T cd03220          47 RGERIGLIGRNGAGKSTLLRLLAGI   71 (224)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999988753

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.

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

Probab=93.36  E-value=0.081  Score=40.95  Aligned_cols=25  Identities=24%  Similarity=0.295  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~   51 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRL   51 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcC
Confidence            3457899999999999999998764

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.

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

Probab=93.36  E-value=0.073  Score=42.47  Aligned_cols=25  Identities=20%  Similarity=0.223  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|+|..|.|||||.+.+...
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G~   56 (202)
T cd03233          32 PGEMVLVLGRPGSGCSTLLKALANR   56 (202)
T ss_pred             CCcEEEEECCCCCCHHHHHHHhccc
Confidence            4568999999999999999987654

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.

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=93.35  E-value=0.073  Score=44.51  Aligned_cols=25  Identities=24%  Similarity=0.298  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus        32 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   56 (272)
T PRK15056         32 GGSIAALVGVNGSGKSTLFKALMGF   56 (272)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999988654

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.34  E-value=0.075  Score=44.41  Aligned_cols=25  Identities=24%  Similarity=0.284  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|+|..|.|||||.+.+...
T Consensus        38 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   62 (269)
T PRK14259         38 RGKVTALIGPSGCGKSTVLRSLNRM   62 (269)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4568999999999999999998754

>cd01878 HflX HflX subfamily

Probab=93.33  E-value=0.073  Score=42.20  Aligned_cols=26  Identities=23%  Similarity=0.368  Sum_probs=22.3

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+...|+|+|.+|+|||||.+.+.+.
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcc
Confidence            34668999999999999999988765

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.29  E-value=0.081  Score=43.86  Aligned_cols=25  Identities=24%  Similarity=0.250  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   56 (259)
T PRK14260         32 RNKVTAIIGPSGCGKSTFIKTLNRI   56 (259)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4568999999999999999998764

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=93.27  E-value=0.082  Score=44.09  Aligned_cols=26  Identities=23%  Similarity=0.183  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-.+++|+|..|.|||||.+.+...+
T Consensus        45 ~Ge~~~I~G~nGsGKSTLl~~l~Gl~   70 (267)
T PRK14237         45 KNKITALIGPSGSGKSTYLRSLNRMN   70 (267)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            35689999999999999999987653

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.27  E-value=0.079  Score=43.65  Aligned_cols=24  Identities=25%  Similarity=0.256  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~G   53 (252)
T PRK14255         30 QNEITALIGPSGCGKSTYLRTLNR   53 (252)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345799999999999999999864

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=93.25  E-value=0.14  Score=48.67  Aligned_cols=48  Identities=19%  Similarity=0.347  Sum_probs=37.8

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|...+..+. -....=++|..|+||||+|+.+...+
T Consensus        17 f~dIiGQe~~v~~L~~aI~~~r-l~HAYLF~GP~GtGKTt~AriLAk~L   64 (725)
T PRK07133         17 FDDIVGQDHIVQTLKNIIKSNK-ISHAYLFSGPRGTGKTSVAKIFANAL   64 (725)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            4678899988988988887543 23445578999999999999987763

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.25  E-value=0.079  Score=43.71  Aligned_cols=24  Identities=25%  Similarity=0.293  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|.|..|.|||||++.+..
T Consensus        31 ~Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14261         31 KNRVTALIGPSGCGKSTLLRCFNR   54 (253)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            345799999999999999999874

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=93.24  E-value=0.13  Score=37.83  Aligned_cols=26  Identities=27%  Similarity=0.206  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+|.+.|-=|.||||++|.+...+
T Consensus        14 ~g~vi~L~GdLGaGKTtf~r~l~~~l   39 (123)
T PF02367_consen   14 PGDVILLSGDLGAGKTTFVRGLARAL   39 (123)
T ss_dssp             S-EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999998874

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PF13245 AAA_19: Part of AAA domain

Probab=93.24  E-value=0.1  Score=34.95  Aligned_cols=23  Identities=35%  Similarity=0.335  Sum_probs=16.0

Q ss_pred             EEEEEEcCCCchHH-HHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKT-TIARAIFDK  221 (227)
Q Consensus       199 ~~~~i~G~gG~GKT-tla~~v~~~  221 (227)
                      .+.-|.|.+|.||| |+++.+.+-
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            35667899999999 455444443

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.23  E-value=0.081  Score=43.66  Aligned_cols=25  Identities=24%  Similarity=0.255  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   56 (254)
T PRK14273         32 KNSITALIGPSGCGKSTFLRTLNRM   56 (254)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4568999999999999999998764

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=93.21  E-value=0.095  Score=48.13  Aligned_cols=47  Identities=23%  Similarity=0.222  Sum_probs=34.8

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+++|....++++.+.+..-...-..|-|+|-.|+||++||+++|..
T Consensus       204 ~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~  250 (520)
T PRK10820        204 SQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLR  250 (520)
T ss_pred             cceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHh
Confidence            57889888777777666432212234669999999999999999875

>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=93.21  E-value=0.088  Score=42.65  Aligned_cols=25  Identities=36%  Similarity=0.417  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|+|..|.|||||++.+...
T Consensus        32 ~Ge~~~l~G~nGsGKSTLlk~l~G~   56 (226)
T cd03234          32 SGQVMAILGSSGSGKTTLLDAISGR   56 (226)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCc
Confidence            4568999999999999999988654

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

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.19  E-value=0.084  Score=42.46  Aligned_cols=25  Identities=32%  Similarity=0.274  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+...
T Consensus        36 ~Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         36 AGEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            4558999999999999999998754

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=93.19  E-value=0.087  Score=43.93  Aligned_cols=26  Identities=23%  Similarity=0.192  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-.+++|.|..|.|||||.+.+..-+
T Consensus        44 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   69 (267)
T PRK14235         44 EKTVTAFIGPSGCGKSTFLRCLNRMN   69 (267)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            34689999999999999999987653

>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=93.19  E-value=0.085  Score=42.68  Aligned_cols=25  Identities=20%  Similarity=0.153  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        39 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   63 (226)
T cd03248          39 PGEVTALVGPSGSGKSTVVALLENF   63 (226)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999998764

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.

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=93.18  E-value=0.081  Score=44.22  Aligned_cols=25  Identities=28%  Similarity=0.349  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        34 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (271)
T PRK13632         34 EGEYVAILGHNGSGKSTISKILTGL   58 (271)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999988764

>PRK06921 hypothetical protein; Provisional

Probab=93.15  E-value=0.092  Score=43.95  Aligned_cols=26  Identities=23%  Similarity=0.367  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..-+-++|..|+|||.||.++.+.+.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~  142 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELM  142 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHh
Confidence            45688999999999999999998753

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=93.13  E-value=0.089  Score=41.98  Aligned_cols=25  Identities=36%  Similarity=0.441  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        33 ~G~~~~i~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          33 AGEKIGIVGRTGAGKSTLILALFRF   57 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4568999999999999999998654

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.

>PRK10646 ADP-binding protein; Provisional

Probab=93.10  E-value=0.18  Score=38.57  Aligned_cols=41  Identities=17%  Similarity=0.289  Sum_probs=28.7

Q ss_pred             hhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          182 SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ++..++-+.|...-....+|.+.|-=|.||||++|.+.+.+
T Consensus        12 ~~t~~l~~~la~~l~~g~vi~L~GdLGaGKTtf~rgl~~~L   52 (153)
T PRK10646         12 QATLDLGARVAKACDGATVIYLYGDLGAGKTTFSRGFLQAL   52 (153)
T ss_pred             HHHHHHHHHHHHhCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34444544443222334589999999999999999998874

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

Probab=93.09  E-value=0.12  Score=42.80  Aligned_cols=31  Identities=26%  Similarity=0.441  Sum_probs=24.1

Q ss_pred             hhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          191 LGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       191 l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +.......-.|.++|..|+|||||.+.+++.
T Consensus        24 ~~~~~~~~~~IllvG~tGvGKSSliNaLlg~   54 (249)
T cd01853          24 GKEELDFSLTILVLGKTGVGKSSTINSIFGE   54 (249)
T ss_pred             hhhhccCCeEEEEECCCCCcHHHHHHHHhCC
Confidence            3333344567888999999999999999875

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=93.06  E-value=0.088  Score=44.34  Aligned_cols=25  Identities=28%  Similarity=0.278  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~I~G~nGaGKSTLl~~l~G~   56 (282)
T PRK13640         32 RGSWTALIGHNGSGKSTISKLINGL   56 (282)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcc
Confidence            3458999999999999999998764

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.06  E-value=0.088  Score=44.13  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        45 ~Ge~~~IiG~nGsGKSTLl~~l~G   68 (274)
T PRK14265         45 AKKIIAFIGPSGCGKSTLLRCFNR   68 (274)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            355899999999999999999874

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=93.05  E-value=0.15  Score=49.77  Aligned_cols=49  Identities=20%  Similarity=0.401  Sum_probs=38.3

Q ss_pred             cCcccccchhHHHHHHHhhcCC-------CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAES-------KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~-------~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|.+..++.+...+....       ....++-+.|..|+|||++|+.+...+
T Consensus       564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l  619 (852)
T TIGR03346       564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL  619 (852)
T ss_pred             hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3578999999999888775321       224567789999999999999998764

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=93.05  E-value=0.097  Score=45.14  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+.|.|..|.|||||++.+.+.+
T Consensus       162 ~~~~~~~G~~~~gkstl~~~l~~~~  186 (325)
T TIGR01526       162 VKTVAILGGESTGKSTLVNKLAAVF  186 (325)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhh
Confidence            3478999999999999999987653

E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.

>PRK14244 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.03  E-value=0.092  Score=43.27  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+++|.|..|.|||||++.+..-
T Consensus        31 Ge~~~I~G~nGsGKSTLl~~i~G~   54 (251)
T PRK14244         31 REVTAFIGPSGCGKSTFLRCFNRM   54 (251)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            457999999999999999998754

>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional

Probab=93.03  E-value=0.088  Score=45.51  Aligned_cols=25  Identities=48%  Similarity=0.545  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||++.+..-
T Consensus        46 ~Ge~~~lvG~sGsGKSTLlk~i~Gl   70 (331)
T PRK15079         46 EGETLGVVGESGCGKSTFARAIIGL   70 (331)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4568999999999999999998753

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=93.01  E-value=0.1  Score=49.03  Aligned_cols=47  Identities=17%  Similarity=0.331  Sum_probs=34.7

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++|....+.++.+.+..-...-..|-|+|..|+||+++|+++|+.
T Consensus       325 ~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~  371 (638)
T PRK11388        325 DHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNE  371 (638)
T ss_pred             cceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHh
Confidence            45778777777776666532222334679999999999999999986

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=92.98  E-value=0.11  Score=47.66  Aligned_cols=47  Identities=26%  Similarity=0.396  Sum_probs=36.9

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+++|....++.+.+.+..-...-..|-|.|..|+||+++|+.+|+.
T Consensus       212 ~~iiG~S~~m~~~~~~i~~~A~~~~pVLI~GE~GTGKe~lA~~IH~~  258 (526)
T TIGR02329       212 DDLLGASAPMEQVRALVRLYARSDATVLILGESGTGKELVAQAIHQL  258 (526)
T ss_pred             hheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCcCHHHHHHHHHHh
Confidence            45899988888888877533323346778999999999999999975

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=92.98  E-value=0.1  Score=47.36  Aligned_cols=25  Identities=24%  Similarity=0.321  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++++|..|+||||++..+...+
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~  280 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARC  280 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHH
Confidence            4799999999999999999987653

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=92.93  E-value=0.091  Score=42.85  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~G   53 (237)
T PRK11614         30 QGEIVTLIGANGAGKTTLLGTLCG   53 (237)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHcC
Confidence            455899999999999999998764

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=92.92  E-value=0.12  Score=47.57  Aligned_cols=47  Identities=21%  Similarity=0.285  Sum_probs=37.1

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+++|....++++.+.+..-...-..|-|.|..|+||+++|+.+|+.
T Consensus       219 ~~iiG~S~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~A~~IH~~  265 (538)
T PRK15424        219 GDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHRE  265 (538)
T ss_pred             hheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHHHh
Confidence            45899988888888877543323346778999999999999999986

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.92  E-value=0.11  Score=46.21  Aligned_cols=24  Identities=29%  Similarity=0.169  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++.++|.+|+||||++..+...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~  246 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAK  246 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988654

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=92.89  E-value=0.093  Score=45.55  Aligned_cols=25  Identities=32%  Similarity=0.367  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        30 ~Gei~~iiG~nGsGKSTLlk~L~Gl   54 (343)
T PRK11153         30 AGEIFGVIGASGAGKSTLIRCINLL   54 (343)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3458999999999999999987654

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

Probab=92.89  E-value=0.094  Score=45.58  Aligned_cols=25  Identities=28%  Similarity=0.341  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        30 ~Gei~gIiG~sGaGKSTLlr~I~gl   54 (343)
T TIGR02314        30 AGQIYGVIGASGAGKSTLIRCVNLL   54 (343)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3458999999999999999988653

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

>PRK14271 phosphate ABC transporter ATP-binding protein; Provisional

Probab=92.87  E-value=0.098  Score=43.92  Aligned_cols=25  Identities=28%  Similarity=0.254  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        46 ~Ge~~~I~G~nGsGKSTLl~~l~Gl   70 (276)
T PRK14271         46 ARAVTSLMGPTGSGKTTFLRTLNRM   70 (276)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcc
Confidence            4568999999999999999998754

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=92.85  E-value=0.096  Score=43.73  Aligned_cols=25  Identities=28%  Similarity=0.399  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+...
T Consensus        49 ~Ge~~~liG~NGsGKSTLlk~L~Gl   73 (264)
T PRK13546         49 EGDVIGLVGINGSGKSTLSNIIGGS   73 (264)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3558999999999999999998764

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=92.85  E-value=0.12  Score=42.37  Aligned_cols=48  Identities=25%  Similarity=0.274  Sum_probs=34.1

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+.||.++-++.|.-....+  +..-+-|-||+|+||||-+....+.+
T Consensus        25 ~l~dIVGNe~tv~rl~via~~g--nmP~liisGpPG~GKTTsi~~LAr~L   72 (333)
T KOG0991|consen   25 VLQDIVGNEDTVERLSVIAKEG--NMPNLIISGPPGTGKTTSILCLAREL   72 (333)
T ss_pred             HHHHhhCCHHHHHHHHHHHHcC--CCCceEeeCCCCCchhhHHHHHHHHH
Confidence            3467889888777766554443  33334577999999999888777763

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=92.82  E-value=0.1  Score=43.92  Aligned_cols=25  Identities=36%  Similarity=0.287  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   56 (279)
T PRK13650         32 QGEWLSIIGHNGSGKSTTVRLIDGL   56 (279)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999998754

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

Probab=92.81  E-value=0.11  Score=42.43  Aligned_cols=23  Identities=26%  Similarity=0.196  Sum_probs=19.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ....++|+|..|.|||||...+.
T Consensus        30 ~Ge~vaI~GpSGSGKSTLLniig   52 (226)
T COG1136          30 AGEFVAIVGPSGSGKSTLLNLLG   52 (226)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            44589999999999999998764

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=92.81  E-value=0.1  Score=43.59  Aligned_cols=25  Identities=32%  Similarity=0.332  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        34 ~Ge~~~I~G~nGsGKSTLl~~i~Gl   58 (269)
T PRK13648         34 KGQWTSIVGHNGSGKSTIAKLMIGI   58 (269)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4558999999999999999998754

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=92.79  E-value=0.11  Score=46.83  Aligned_cols=26  Identities=23%  Similarity=0.395  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+.+-|+|..|+|||+|++++.+.+.
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~  166 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALR  166 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46678999999999999999998753

>PRK14236 phosphate transporter ATP-binding protein; Provisional

Probab=92.78  E-value=0.1  Score=43.63  Aligned_cols=25  Identities=24%  Similarity=0.239  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||++.+...
T Consensus        50 ~Ge~~~I~G~nGsGKSTLl~~laGl   74 (272)
T PRK14236         50 KNRVTAFIGPSGCGKSTLLRCFNRM   74 (272)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            3568999999999999999998654

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=92.75  E-value=0.13  Score=40.42  Aligned_cols=23  Identities=39%  Similarity=0.495  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-+-++|..|+|||.||.++.+.
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~   70 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANE   70 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHH
Confidence            45788999999999999998876

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.

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=92.74  E-value=0.1  Score=43.44  Aligned_cols=25  Identities=36%  Similarity=0.520  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        36 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   60 (265)
T TIGR02769        36 EGETVGLLGRSGCGKSTLARLLLGL   60 (265)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999987654

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=92.72  E-value=0.23  Score=48.19  Aligned_cols=49  Identities=16%  Similarity=0.352  Sum_probs=37.1

Q ss_pred             cCcccccchhHHHHHHHhhcC-------CCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAE-------SKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~-------~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|.+.-++.+...+...       +......-++|..|+|||+||+.+.+.+
T Consensus       508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l  563 (821)
T CHL00095        508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF  563 (821)
T ss_pred             cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            467899999999987766421       1223455689999999999999988764

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=92.71  E-value=0.21  Score=45.93  Aligned_cols=48  Identities=27%  Similarity=0.322  Sum_probs=38.3

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|...+..+. -....=++|..|+||||+|+.+.+.+
T Consensus        13 fdeiiGqe~v~~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk~L   60 (535)
T PRK08451         13 FDELIGQESVSKTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFARAL   60 (535)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHh
Confidence            4678999888888888886543 23455689999999999999988774

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=92.70  E-value=0.18  Score=48.20  Aligned_cols=72  Identities=19%  Similarity=0.353  Sum_probs=47.4

Q ss_pred             HhhhcCCcccccccccc--C---CCCccCcccccchhHHHHHHHhhcCC-------CCeEEEEEEcCCCchHHHHHHHHH
Q 045657          152 AASFSGFDSQNFRLAEM--S---PRNYKNQLVGVESRVKEIESLLGAES-------KYVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       152 i~~~~g~~~~~~~e~~~--l---~~~~~~~~~g~~~~~~~~~~~l~~~~-------~~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ++.+.|.+.....+.+.  +   .-.....++|.+..+..+.+.+....       ....+--..|..|+|||.||+++.
T Consensus       463 v~~~TgIPv~~l~~~e~~kll~le~~L~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA  542 (786)
T COG0542         463 VARWTGIPVAKLLEDEKEKLLNLERRLKKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALA  542 (786)
T ss_pred             HHHHHCCChhhhchhhHHHHHHHHHHHhcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHH
Confidence            44556665554433222  1   22234789999999999888775322       234455557999999999999988


Q ss_pred             HHhh
Q 045657          220 DKIS  223 (227)
Q Consensus       220 ~~~~  223 (227)
                      +.+-
T Consensus       543 ~~Lf  546 (786)
T COG0542         543 EALF  546 (786)
T ss_pred             HHhc
Confidence            7643

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=92.70  E-value=0.2  Score=44.04  Aligned_cols=39  Identities=26%  Similarity=0.358  Sum_probs=29.4

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++.++|..+=....++-|.|.+|+|||||+.++...+
T Consensus        68 i~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~  106 (372)
T cd01121          68 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARL  106 (372)
T ss_pred             CHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            445556665444456789999999999999999887653

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.

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=92.68  E-value=0.1  Score=43.72  Aligned_cols=25  Identities=20%  Similarity=0.170  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|.|..|.|||||.+.+..-
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (274)
T PRK13647         30 EGSKTALLGPNGAGKSTLLLHLNGI   54 (274)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3458999999999999999988654

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=92.66  E-value=0.098  Score=43.54  Aligned_cols=25  Identities=28%  Similarity=0.240  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~i~G~   56 (265)
T PRK10253         32 DGHFTAIIGPNGCGKSTLLRTLSRL   56 (265)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCC
Confidence            3568999999999999999988764

>cd03291 ABCC_CFTR1 The CFTR subfamily domain 1

Probab=92.65  E-value=0.11  Score=43.89  Aligned_cols=25  Identities=32%  Similarity=0.316  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||++.+...
T Consensus        62 ~Ge~~~liG~NGsGKSTLl~~I~Gl   86 (282)
T cd03291          62 KGEMLAITGSTGSGKTSLLMLILGE   86 (282)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999998764

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.

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=92.65  E-value=0.21  Score=46.51  Aligned_cols=48  Identities=21%  Similarity=0.319  Sum_probs=37.9

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|...+..+. -...+-++|..|+||||+|+.+.+.+
T Consensus        15 f~~iiGq~~v~~~L~~~i~~~~-~~hayLf~Gp~G~GKtt~A~~lak~l   62 (576)
T PRK14965         15 FSDLTGQEHVSRTLQNAIDTGR-VAHAFLFTGARGVGKTSTARILAKAL   62 (576)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            4678999988888888887543 23445678999999999999988774

>PRK12337 2-phosphoglycerate kinase; Provisional

Probab=92.62  E-value=0.12  Score=46.43  Aligned_cols=26  Identities=27%  Similarity=0.414  Sum_probs=23.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+|-+.|.+|+||||+|.++.+++
T Consensus       254 ~p~vil~~G~~G~GKSt~a~~LA~~l  279 (475)
T PRK12337        254 RPLHVLIGGVSGVGKSVLASALAYRL  279 (475)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            46899999999999999999998874

>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=92.60  E-value=0.12  Score=39.28  Aligned_cols=24  Identities=33%  Similarity=0.364  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      -.+++|.|..|.|||||.+.+...
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~   48 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGL   48 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999998764

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.

>PRK13477 bifunctional pantoate ligase/cytidylate kinase; Provisional

Probab=92.60  E-value=0.12  Score=47.33  Aligned_cols=25  Identities=36%  Similarity=0.506  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+|+|.|..|.||||+|+.+.+.+
T Consensus       284 ~~ii~i~G~sgsGKst~a~~la~~l  308 (512)
T PRK13477        284 QPIIAIDGPAGAGKSTVTRAVAKKL  308 (512)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998875

>PRK14258 phosphate ABC transporter ATP-binding protein; Provisional

Probab=92.59  E-value=0.11  Score=43.08  Aligned_cols=25  Identities=24%  Similarity=0.270  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~I~G~nGsGKSTLl~~l~Gl   56 (261)
T PRK14258         32 QSKVTAIIGPSGCGKSTFLKCLNRM   56 (261)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcc
Confidence            4568999999999999999998764

>PRK14275 phosphate ABC transporter ATP-binding protein; Provisional

Probab=92.59  E-value=0.11  Score=43.84  Aligned_cols=25  Identities=40%  Similarity=0.457  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        64 ~Ge~~~l~G~nGsGKSTLl~~L~Gl   88 (286)
T PRK14275         64 SKYVTAIIGPSGCGKSTFLRAINRM   88 (286)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3468999999999999999998753

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=92.59  E-value=0.12  Score=46.06  Aligned_cols=25  Identities=24%  Similarity=0.276  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++++|..|+||||+.+.+...
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~  214 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAAR  214 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999977554

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

Probab=92.58  E-value=0.096  Score=48.41  Aligned_cols=27  Identities=33%  Similarity=0.517  Sum_probs=22.9

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      =|-+||.+|+|||-||++|.|.-+-+|
T Consensus       547 GvLL~GPPGCGKTLlAKAVANEag~NF  573 (802)
T KOG0733|consen  547 GVLLCGPPGCGKTLLAKAVANEAGANF  573 (802)
T ss_pred             ceEEeCCCCccHHHHHHHHhhhccCce
Confidence            355799999999999999999866655

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=92.58  E-value=0.15  Score=45.91  Aligned_cols=47  Identities=21%  Similarity=0.391  Sum_probs=36.0

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++|....+..+...+..-...-..+-|.|-.|+|||++|+.+++.
T Consensus       138 ~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~  184 (469)
T PRK10923        138 TDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRH  184 (469)
T ss_pred             ccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhc
Confidence            46888887777777766543333445779999999999999999886

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=92.58  E-value=0.11  Score=43.38  Aligned_cols=25  Identities=32%  Similarity=0.424  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||++.+..-
T Consensus        37 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   61 (268)
T PRK10419         37 SGETVALLGRSGCGKSTLARLLVGL   61 (268)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3458999999999999999988653

>PRK14252 phosphate ABC transporter ATP-binding protein; Provisional

Probab=92.56  E-value=0.11  Score=43.11  Aligned_cols=25  Identities=24%  Similarity=0.239  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus        41 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   65 (265)
T PRK14252         41 EKQVTALIGPSGCGKSTFLRCFNRM   65 (265)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcc
Confidence            4568999999999999999998754

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=92.55  E-value=0.11  Score=43.24  Aligned_cols=25  Identities=36%  Similarity=0.396  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        38 ~Ge~~~i~G~NGsGKSTLl~~l~Gl   62 (267)
T PRK15112         38 EGQTLAIIGENGSGKSTLAKMLAGM   62 (267)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            3558999999999999999988654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=92.53  E-value=0.24  Score=48.27  Aligned_cols=49  Identities=20%  Similarity=0.323  Sum_probs=38.0

Q ss_pred             cCcccccchhHHHHHHHhhc-------CCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGA-------ESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~-------~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|.+..++.+.+.+..       ......++-++|..|+|||.||+++.+.+
T Consensus       565 ~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l  620 (852)
T TIGR03345       565 AERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELL  620 (852)
T ss_pred             cCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            36889999999988877642       12234567789999999999999887764

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.53  E-value=0.14  Score=45.16  Aligned_cols=25  Identities=24%  Similarity=0.207  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .+++.++|..|+||||.+..+...+
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~  198 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIY  198 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999887664

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=92.52  E-value=0.12  Score=42.91  Aligned_cols=25  Identities=24%  Similarity=0.267  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        37 ~Ge~~~i~G~nGsGKSTLl~~i~Gl   61 (258)
T PRK14268         37 KNSVTALIGPSGCGKSTFIRCLNRM   61 (258)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3468999999999999999998753

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=92.52  E-value=0.12  Score=46.41  Aligned_cols=26  Identities=31%  Similarity=0.376  Sum_probs=22.9

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+-|+|..|+|||+|++++.+.+.
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~  155 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVV  155 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Confidence            45688999999999999999999854

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

Probab=92.52  E-value=0.14  Score=46.74  Aligned_cols=49  Identities=29%  Similarity=0.369  Sum_probs=33.1

Q ss_pred             cCcccccchhHHHHH---HHhhcCC-------CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIE---SLLGAES-------KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~---~~l~~~~-------~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.++-|.++.+.+|+   +.|....       .=.+=|-++|.+|.|||-|||+|...-
T Consensus       303 F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  303 FEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             cccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            466778877555554   4554221       113445678999999999999998763

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=92.51  E-value=0.12  Score=43.70  Aligned_cols=25  Identities=28%  Similarity=0.217  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~L~Gl   56 (286)
T PRK13646         32 QGKYYAIVGQTGSGKSTLIQNINAL   56 (286)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3558999999999999999998754

>PF13271 DUF4062: Domain of unknown function (DUF4062)

Probab=92.50  E-value=0.53  Score=31.95  Aligned_cols=65  Identities=15%  Similarity=0.179  Sum_probs=47.9

Q ss_pred             EEEccccccCCccHHHHHHHHHhhCCCeeEEeCCCC-CCCcchHHHHHHHHhcccEEEEeecCcccc
Q 045657           19 VFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLN-RGDEISQSLVYAIENSAISLIIFSEGYASS   84 (227)
Q Consensus        19 vFISy~~~D~~~~~~~~L~~~L~~~g~~~~~d~~~~-~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S   84 (227)
                      ||||=.-.|... .-+.|...+.+.|..+..-+.+. .+....+.+.+.|.+|++.|.++...|-..
T Consensus         2 VFiSSt~~Dl~~-eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~   67 (83)
T PF13271_consen    2 VFISSTFRDLKE-ERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSV   67 (83)
T ss_pred             EEEecChhhHHH-HHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCC
Confidence            899977777543 56788888888887754433121 245555788899999999999999998543

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.47  E-value=0.16  Score=44.76  Aligned_cols=26  Identities=23%  Similarity=0.236  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++.++|..|+||||++..+...+
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l  230 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQL  230 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999876553

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.47  E-value=0.12  Score=47.27  Aligned_cols=24  Identities=25%  Similarity=0.282  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+++++|.+|+||||++..+...
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~  373 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQR  373 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            579999999999999999887654

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=92.46  E-value=0.12  Score=43.94  Aligned_cols=24  Identities=38%  Similarity=0.529  Sum_probs=20.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHhh
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+-|.|..|.||||+++++.+.+.
T Consensus       134 ~ilI~G~tGSGKTTll~al~~~i~  157 (299)
T TIGR02782       134 NILVVGGTGSGKTTLANALLAEIA  157 (299)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhh
Confidence            456999999999999999987753

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=92.45  E-value=0.12  Score=41.03  Aligned_cols=25  Identities=24%  Similarity=0.286  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|.|..|.|||||.+.+..-
T Consensus        30 ~G~~~~i~G~nG~GKSTLl~~i~G~   54 (204)
T cd03250          30 KGELVAIVGPVGSGKSSLLSALLGE   54 (204)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCc
Confidence            4458999999999999999987654

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.

>PRK06835 DNA replication protein DnaC; Validated

Probab=92.39  E-value=0.14  Score=44.31  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHh
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-+-++|..|+|||.||.++.+.+
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l  207 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKEL  207 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHH
Confidence            568899999999999999998874

>KOG0062 consensus ATPase component of ABC transporters with duplicated ATPase domains/Translation elongation factor EF-3b [Amino acid transport and metabolism; Translation, ribosomal structure and biogenesis]

Probab=92.30  E-value=0.094  Score=47.43  Aligned_cols=24  Identities=42%  Similarity=0.573  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .|--|+||-.|+|||||.|++.+.
T Consensus       106 GrRYGLvGrNG~GKsTLLRaia~~  129 (582)
T KOG0062|consen  106 GRRYGLVGRNGIGKSTLLRAIANG  129 (582)
T ss_pred             ccccceeCCCCCcHHHHHHHHHhc
Confidence            456799999999999999999883

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=92.29  E-value=0.13  Score=43.36  Aligned_cols=25  Identities=24%  Similarity=0.205  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        31 ~Ge~~~i~G~nGaGKSTLl~~i~Gl   55 (283)
T PRK13636         31 KGEVTAILGGNGAGKSTLFQNLNGI   55 (283)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3558999999999999999998754

>TIGR00416 sms DNA repair protein RadA

Probab=92.29  E-value=0.25  Score=44.58  Aligned_cols=41  Identities=27%  Similarity=0.266  Sum_probs=31.0

Q ss_pred             hhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          182 SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .....+..+|..+=....++-|.|.+|+|||||+..+...+
T Consensus        78 TGi~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~  118 (454)
T TIGR00416        78 SGFGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQL  118 (454)
T ss_pred             cCcHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34556666676555567788999999999999999886553

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)).

>TIGR00959 ffh signal recognition particle protein

Probab=92.28  E-value=0.29  Score=43.79  Aligned_cols=25  Identities=24%  Similarity=0.251  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++.++|.+|+||||+|..+...+
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l  123 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYL  123 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHH
Confidence            5789999999999999988776553

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>CHL00195 ycf46 Ycf46; Provisional

Probab=92.28  E-value=0.23  Score=45.30  Aligned_cols=50  Identities=18%  Similarity=0.161  Sum_probs=32.8

Q ss_pred             CcccccchhHHHHHHHhh---c-----CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          175 NQLVGVESRVKEIESLLG---A-----ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~---~-----~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .++-|.+.-++.+.....   .     +-...+-+-++|..|+|||.+|+++.+...-
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~  285 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQL  285 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC
Confidence            466677665555543211   0     1123455778999999999999999887543

>PRK13651 cobalt transporter ATP-binding subunit; Provisional

Probab=92.25  E-value=0.13  Score=43.92  Aligned_cols=25  Identities=28%  Similarity=0.205  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||++.+..-
T Consensus        32 ~Ge~v~iiG~nGsGKSTLl~~L~Gl   56 (305)
T PRK13651         32 QGEFIAIIGQTGSGKTTFIEHLNAL   56 (305)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3558999999999999999987653

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=92.23  E-value=0.13  Score=43.39  Aligned_cols=25  Identities=24%  Similarity=0.306  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~i~G~nGaGKSTLl~~l~Gl   56 (287)
T PRK13637         32 DGEFVGLIGHTGSGKSTLIQHLNGL   56 (287)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3558999999999999999998754

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

Probab=92.23  E-value=0.13  Score=44.75  Aligned_cols=24  Identities=33%  Similarity=0.327  Sum_probs=20.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....+.+.|..|+|||||.|.+..
T Consensus        30 ~Gef~~lLGPSGcGKTTlLR~IAG   53 (352)
T COG3842          30 KGEFVTLLGPSGCGKTTLLRMIAG   53 (352)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            345789999999999999998753

>PRK14254 phosphate ABC transporter ATP-binding protein; Provisional

Probab=92.20  E-value=0.13  Score=43.33  Aligned_cols=25  Identities=28%  Similarity=0.268  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        64 ~Ge~~~I~G~nGsGKSTLl~~l~Gl   88 (285)
T PRK14254         64 ENQVTAMIGPSGCGKSTFLRCINRM   88 (285)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4568999999999999999998754

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=92.18  E-value=0.13  Score=43.31  Aligned_cols=25  Identities=20%  Similarity=0.198  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|.|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~iiG~NGaGKSTLl~~l~Gl   56 (287)
T PRK13641         32 EGSFVALVGHTGSGKSTLMQHFNAL   56 (287)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3457999999999999999998754

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

Probab=92.18  E-value=0.17  Score=42.89  Aligned_cols=49  Identities=29%  Similarity=0.407  Sum_probs=33.3

Q ss_pred             cccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          176 QLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      +.=|-+++.+++.+....           +-....=|-++|.+|.|||-||++|.|.-+.
T Consensus       186 diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSA  245 (440)
T KOG0726|consen  186 DIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSA  245 (440)
T ss_pred             ccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccch
Confidence            344567777777665432           1123344557999999999999999997433

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

Probab=92.17  E-value=0.23  Score=46.16  Aligned_cols=52  Identities=23%  Similarity=0.348  Sum_probs=35.9

Q ss_pred             CcccccchhHHHHHHHhh-----------cCCCCeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          175 NQLVGVESRVKEIESLLG-----------AESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~-----------~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      .+.=|.++-++++...+.           .+-...+=|=.+|.+|.|||++|+++.+.-+-+|
T Consensus       434 ~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nF  496 (693)
T KOG0730|consen  434 DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNF  496 (693)
T ss_pred             hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCe
Confidence            344457777777765543           1223445566799999999999999999855544

>cd01854 YjeQ_engC YjeQ/EngC

Probab=92.14  E-value=0.18  Score=42.59  Aligned_cols=33  Identities=27%  Similarity=0.457  Sum_probs=25.7

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +++|...|..     ..+++.|..|+|||||.+.+...
T Consensus       152 i~~L~~~L~~-----k~~~~~G~sg~GKSTlin~l~~~  184 (287)
T cd01854         152 LDELREYLKG-----KTSVLVGQSGVGKSTLINALLPD  184 (287)
T ss_pred             HHHHHhhhcc-----ceEEEECCCCCCHHHHHHHHhch
Confidence            4555555642     57899999999999999987664

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>TIGR02012 tigrfam_recA protein RecA

Probab=92.12  E-value=0.3  Score=42.00  Aligned_cols=38  Identities=24%  Similarity=0.249  Sum_probs=27.8

Q ss_pred             HHHHHHHhh-cCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLG-AESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~-~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...|..+|. .+=...+++-|+|..|+||||||-.+...
T Consensus        40 i~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~   78 (321)
T TIGR02012        40 SLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAE   78 (321)
T ss_pred             CHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            344555564 34455789999999999999999876554

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.

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=92.12  E-value=0.14  Score=43.26  Aligned_cols=25  Identities=20%  Similarity=0.202  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        31 ~Ge~v~i~G~nGsGKSTLl~~l~Gl   55 (288)
T PRK13643         31 KGSYTALIGHTGSGKSTLLQHLNGL   55 (288)
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcC
Confidence            3458999999999999999998754

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=92.11  E-value=0.14  Score=44.08  Aligned_cols=25  Identities=24%  Similarity=0.139  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        51 ~Ge~~~I~G~nGsGKSTLl~~L~Gl   75 (320)
T PRK13631         51 KNKIYFIIGNSGSGKSTLVTHFNGL   75 (320)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999998754

>PRK14264 phosphate ABC transporter ATP-binding protein; Provisional

Probab=92.11  E-value=0.14  Score=43.68  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus        70 ~Ge~~~IvG~nGsGKSTLl~~L~Gl   94 (305)
T PRK14264         70 EKSVTALIGPSGCGKSTFLRCLNRM   94 (305)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4568999999999999999998764

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=92.07  E-value=0.15  Score=41.15  Aligned_cols=24  Identities=29%  Similarity=0.138  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+++|.|..|.|||||.+.+..-
T Consensus        31 G~~~~I~G~nGsGKStLl~~l~G~   54 (220)
T TIGR02982        31 GEIVILTGPSGSGKTTLLTLIGGL   54 (220)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999987653

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.

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=92.07  E-value=0.14  Score=43.02  Aligned_cols=25  Identities=28%  Similarity=0.287  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+...
T Consensus        32 ~Ge~~~i~G~nGaGKSTLl~~i~G~   56 (279)
T PRK13635         32 EGEWVAIVGHNGSGKSTLAKLLNGL   56 (279)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3457999999999999999998754

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=92.05  E-value=0.13  Score=48.29  Aligned_cols=25  Identities=36%  Similarity=0.319  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||++.+..-
T Consensus        41 ~Ge~~~lvG~nGsGKSTLl~~l~Gl   65 (623)
T PRK10261         41 RGETLAIVGESGSGKSVTALALMRL   65 (623)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcC
Confidence            4568999999999999999998764

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=92.04  E-value=0.22  Score=41.08  Aligned_cols=33  Identities=24%  Similarity=0.298  Sum_probs=25.5

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ++++.+.|..     ..+.+.|+.|+|||||.+++..+
T Consensus       111 i~eLf~~l~~-----~~~~~~G~sgvGKStLiN~L~~~  143 (245)
T TIGR00157       111 LKELIEALQN-----RISVFAGQSGVGKSSLINALDPS  143 (245)
T ss_pred             HHHHHhhhcC-----CEEEEECCCCCCHHHHHHHHhhh
Confidence            5555555542     36789999999999999998775

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

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=91.95  E-value=0.23  Score=46.67  Aligned_cols=47  Identities=23%  Similarity=0.358  Sum_probs=37.0

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..-.+++|.+..+..|...+..+    +-+-++|..|+||||+|+.+.+.+
T Consensus        28 ~~~~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l   74 (637)
T PRK13765         28 RLIDQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELL   74 (637)
T ss_pred             ccHHHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHc
Confidence            34567889888888887767643    357789999999999999987764

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=91.91  E-value=0.19  Score=41.80  Aligned_cols=38  Identities=32%  Similarity=0.393  Sum_probs=27.3

Q ss_pred             HHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          185 KEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      +.+.++|...-.....+-|.|..|.||||+.+++.+.+
T Consensus       114 ~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i  151 (270)
T PF00437_consen  114 EEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEI  151 (270)
T ss_dssp             HHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             HHHHHHHhhccccceEEEEECCCccccchHHHHHhhhc
Confidence            44455554322235678899999999999999988764

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>PRK08181 transposase; Validated

Probab=91.88  E-value=0.17  Score=42.52  Aligned_cols=24  Identities=33%  Similarity=0.318  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHh
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-+-++|..|+|||.||.++.+..
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a  130 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLAL  130 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHH
Confidence            347899999999999999988763

>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]

Probab=91.87  E-value=0.14  Score=45.86  Aligned_cols=26  Identities=38%  Similarity=0.488  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|+.|..|+||||+++.+..-+
T Consensus       366 ~gEvigilGpNgiGKTTFvk~LAG~i  391 (591)
T COG1245         366 DGEVIGILGPNGIGKTTFVKLLAGVI  391 (591)
T ss_pred             cceEEEEECCCCcchHHHHHHHhccc
Confidence            46799999999999999999877543

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=91.86  E-value=0.14  Score=47.01  Aligned_cols=25  Identities=32%  Similarity=0.302  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||++.+..-
T Consensus        34 ~Ge~~~iiG~nGsGKSTLl~~i~G~   58 (529)
T PRK15134         34 AGETLALVGESGSGKSVTALSILRL   58 (529)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            4568999999999999999988654

>PTZ00035 Rad51 protein; Provisional

Probab=91.86  E-value=0.25  Score=42.81  Aligned_cols=37  Identities=19%  Similarity=0.258  Sum_probs=28.6

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...|.++|..+=....++-|+|..|.|||||+..+.-
T Consensus       104 ~~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~  140 (337)
T PTZ00035        104 STQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCV  140 (337)
T ss_pred             cHHHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHH
Confidence            4455666665555678999999999999999987653

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

Probab=91.85  E-value=0.16  Score=40.25  Aligned_cols=25  Identities=28%  Similarity=0.298  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        34 ~Ge~~~l~G~nGsGKStLl~~i~Gl   58 (194)
T cd03213          34 PGELTAIMGPSGAGKSTLLNALAGR   58 (194)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999987653

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.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=91.80  E-value=0.31  Score=44.00  Aligned_cols=26  Identities=35%  Similarity=0.457  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+.+-|+|-.|+|||+|++++.+.+.
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~  166 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIE  166 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHH
Confidence            45678999999999999999988643

>PRK14263 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.76  E-value=0.16  Score=42.17  Aligned_cols=25  Identities=28%  Similarity=0.336  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   57 (261)
T PRK14263         33 KNEITGFIGPSGCGKSTVLRSLNRM   57 (261)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcc
Confidence            4568999999999999999988653

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

Probab=91.74  E-value=0.22  Score=47.36  Aligned_cols=49  Identities=27%  Similarity=0.324  Sum_probs=35.1

Q ss_pred             cCcccccchhHHHHHHH---hhc-------CCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESL---LGA-------ESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~---l~~-------~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.++.|.++-+++|.+.   |..       +..-.+=+=++|.+|+|||-||++++..-
T Consensus       310 FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA  368 (774)
T KOG0731|consen  310 FKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA  368 (774)
T ss_pred             cccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc
Confidence            36788988777766654   432       12234556688999999999999998763

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=91.71  E-value=0.22  Score=32.01  Aligned_cols=20  Identities=40%  Similarity=0.363  Sum_probs=17.6

Q ss_pred             EEEEEcCCCchHHHHHHHHH
Q 045657          200 TLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~  219 (227)
                      +..|.|..|.|||||.-++.
T Consensus        25 ~tli~G~nGsGKSTllDAi~   44 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQ   44 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            68889999999999998754

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=91.68  E-value=0.14  Score=48.66  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=21.1

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..-..++|+|-.|.|||||+|.+-.
T Consensus       497 ~~Ge~vaIvG~SGsGKSTL~KLL~g  521 (709)
T COG2274         497 PPGEKVAIVGRSGSGKSTLLKLLLG  521 (709)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhc
Confidence            3456899999999999999998654

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=91.67  E-value=0.16  Score=42.63  Aligned_cols=25  Identities=36%  Similarity=0.287  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        35 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   59 (280)
T PRK13633         35 KGEFLVILGRNGSGKSTIAKHMNAL   59 (280)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3558999999999999999998654

>PRK00098 GTPase RsgA; Reviewed

Probab=91.64  E-value=0.21  Score=42.50  Aligned_cols=33  Identities=27%  Similarity=0.410  Sum_probs=25.4

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +++|...|.     -.+++++|.+|+|||||.+.+...
T Consensus       155 i~~L~~~l~-----gk~~~~~G~sgvGKStlin~l~~~  187 (298)
T PRK00098        155 LDELKPLLA-----GKVTVLAGQSGVGKSTLLNALAPD  187 (298)
T ss_pred             HHHHHhhcc-----CceEEEECCCCCCHHHHHHHHhCC
Confidence            455666554     247889999999999999988654

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=91.61  E-value=0.16  Score=46.53  Aligned_cols=25  Identities=24%  Similarity=0.236  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        36 ~Ge~~~liG~NGsGKSTLl~~l~Gl   60 (510)
T PRK15439         36 AGEVHALLGGNGAGKSTLMKIIAGI   60 (510)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999998754

>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=91.61  E-value=0.17  Score=42.43  Aligned_cols=25  Identities=36%  Similarity=0.250  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~I~G~nGsGKSTLl~~l~Gl   56 (277)
T PRK13642         32 KGEWVSIIGQNGSGKSTTARLIDGL   56 (277)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3457999999999999999988754

>COG1072 CoaA Panthothenate kinase [Coenzyme metabolism]

Probab=91.60  E-value=0.43  Score=39.98  Aligned_cols=29  Identities=31%  Similarity=0.442  Sum_probs=24.2

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ...-+|||.|..|+||+|+|+..-.-++.
T Consensus        80 ~~pfIIgiaGsvavGKST~ar~L~~ll~~  108 (283)
T COG1072          80 QRPFIIGIAGSVAVGKSTTARILQALLSR  108 (283)
T ss_pred             CCCEEEEeccCccccHHHHHHHHHHHHhh
Confidence            45789999999999999999987665443

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=91.58  E-value=0.3  Score=41.61  Aligned_cols=37  Identities=30%  Similarity=0.384  Sum_probs=27.2

Q ss_pred             HHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          185 KEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+..+|..+=....++-|+|.+|+|||+++-.+.-.
T Consensus        82 ~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~  118 (310)
T TIGR02236        82 KELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVN  118 (310)
T ss_pred             HHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3444555544345778899999999999999987544

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.

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.53  E-value=0.16  Score=43.85  Aligned_cols=26  Identities=23%  Similarity=0.190  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....++|+|..|.|||||.+.++...
T Consensus       107 ~Ge~v~IvG~~GsGKSTLl~~L~g~~  132 (329)
T PRK14257        107 RNKVTAFIGPSGCGKSTFLRNLNQLN  132 (329)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            34689999999999999999988653

>cd03288 ABCC_SUR2 The SUR domain 2

Probab=91.52  E-value=0.18  Score=41.82  Aligned_cols=25  Identities=32%  Similarity=0.450  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|.|..|.|||||.+.+...
T Consensus        46 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   70 (257)
T cd03288          46 PGQKVGICGRTGSGKSSLSLAFFRM   70 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcc
Confidence            3458999999999999999998764

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.

>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=91.48  E-value=0.18  Score=42.66  Aligned_cols=25  Identities=24%  Similarity=0.262  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|.|..|.|||||.+.+..-
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   56 (290)
T PRK13634         32 SGSYVAIIGHTGSGKSTLLQHLNGL   56 (290)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3568999999999999999998654

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

Probab=91.45  E-value=0.16  Score=46.19  Aligned_cols=30  Identities=30%  Similarity=0.337  Sum_probs=24.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      ....+-++|.+|.|||.||+++.+....+|
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~~~~f  304 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALESRSRF  304 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhCCCeE
Confidence            455777899999999999999999654443

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.44  E-value=0.3  Score=45.72  Aligned_cols=48  Identities=23%  Similarity=0.232  Sum_probs=36.9

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-+..|...+..+. -...+=++|..|+||||+|+.+.+.+
T Consensus        15 f~dIiGQe~v~~~L~~ai~~~r-i~ha~Lf~GPpG~GKTtiArilAk~L   62 (624)
T PRK14959         15 FAEVAGQETVKAILSRAAQENR-VAPAYLFSGTRGVGKTTIARIFAKAL   62 (624)
T ss_pred             HHHhcCCHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhc
Confidence            4577898888888888776442 23455678999999999999988774

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=91.42  E-value=5.9  Score=33.39  Aligned_cols=24  Identities=25%  Similarity=0.355  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.++++|++++|||||.+++.+.
T Consensus       121 ~~~~~~~G~pnvGKSsliN~l~~~  144 (287)
T PRK09563        121 AIRAMIIGIPNVGKSTLINRLAGK  144 (287)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            346889999999999999988654

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=91.41  E-value=0.17  Score=47.56  Aligned_cols=76  Identities=16%  Similarity=0.097  Sum_probs=46.7

Q ss_pred             HHHHHhhCCCee---EEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhh-hccceeeeE
Q 045657           36 LYSALSLKSIQT---FIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKR-EYAQIVIPV  108 (227)
Q Consensus        36 L~~~L~~~g~~~---~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~-~~~~~iipi  108 (227)
                      +.+.|+.-|+.-   .++.   ++..|+.-.-.|..++-..-..+++==|.-.-.+.-..++...+.... +.+..||-|
T Consensus       146 ~~~~l~~~gL~~~~~~~~~~~~~LSgGq~QRv~iA~AL~~~P~lLllDEPt~~LD~~~~~~l~~ll~~l~~~~g~tvi~i  225 (623)
T PRK10261        146 AKRMLDQVRIPEAQTILSRYPHQLSGGMRQRVMIAMALSCRPAVLIADEPTTALDVTIQAQILQLIKVLQKEMSMGVIFI  225 (623)
T ss_pred             HHHHHHHCCCCChhhHHhCCCccCCHHHHHHHHHHHHHhCCCCEEEEeCCCCccCHHHHHHHHHHHHHHHHhcCCEEEEE
Confidence            444566667732   1232   566777766678888776666666666666666666667777666553 334556666


Q ss_pred             Eee
Q 045657          109 FYR  111 (227)
Q Consensus       109 f~~  111 (227)
                      -++
T Consensus       226 tHd  228 (623)
T PRK10261        226 THD  228 (623)
T ss_pred             cCC
Confidence            554

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=91.37  E-value=0.2  Score=42.82  Aligned_cols=26  Identities=35%  Similarity=0.383  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....+.|.|..|.|||||++++...+
T Consensus       143 ~~~~ili~G~tGsGKTTll~al~~~~  168 (308)
T TIGR02788       143 SRKNIIISGGTGSGKTTFLKSLVDEI  168 (308)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHccC
Confidence            34678999999999999999887653

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=91.33  E-value=0.18  Score=46.02  Aligned_cols=25  Identities=20%  Similarity=0.284  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (506)
T PRK13549         30 AGEIVSLCGENGAGKSTLMKVLSGV   54 (506)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999988654

>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional

Probab=91.31  E-value=0.18  Score=44.73  Aligned_cols=25  Identities=28%  Similarity=0.314  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        53 ~Gei~~LvG~NGsGKSTLLr~I~Gl   77 (400)
T PRK10070         53 EGEIFVIMGLSGSGKSTMVRLLNRL   77 (400)
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcC
Confidence            3458999999999999999998764

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=91.31  E-value=0.17  Score=46.43  Aligned_cols=25  Identities=24%  Similarity=0.207  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+..-
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999987643

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.

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=91.29  E-value=0.17  Score=46.26  Aligned_cols=77  Identities=13%  Similarity=0.050  Sum_probs=50.0

Q ss_pred             HHHHHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           35 HLYSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        35 ~L~~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      .+...|+.-|+.-..+.   ++..|+.-.-.+..++-.....+++==|...-.+....++...+......+..||-+-++
T Consensus       123 ~~~~~l~~~~l~~~~~~~~~~LSgGqkqrv~la~al~~~p~lllLDEPt~~LD~~~~~~l~~~l~~l~~~~~tvi~~tH~  202 (506)
T PRK13549        123 RAQKLLAQLKLDINPATPVGNLGLGQQQLVEIAKALNKQARLLILDEPTASLTESETAVLLDIIRDLKAHGIACIYISHK  202 (506)
T ss_pred             HHHHHHHHcCCCCCcccchhhCCHHHHHHHHHHHHHhcCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEeCc
Confidence            45566777777544443   567777766678888776666666666776667777777777766553334456656554

>PRK13409 putative ATPase RIL; Provisional

Probab=91.29  E-value=0.18  Score=47.15  Aligned_cols=75  Identities=12%  Similarity=0.061  Sum_probs=44.9

Q ss_pred             HHHHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           36 LYSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        36 L~~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      +.+.|+.-|+.-..|.   ++..|+...-.|..++-.-.-.+++==|...-...-..++...+..... +..|+-|-++
T Consensus       193 ~~~~l~~l~l~~~~~~~~~~LSgGe~qrv~ia~al~~~p~lllLDEPts~LD~~~~~~l~~~i~~l~~-g~tvIivsHd  270 (590)
T PRK13409        193 LDEVVERLGLENILDRDISELSGGELQRVAIAAALLRDADFYFFDEPTSYLDIRQRLNVARLIRELAE-GKYVLVVEHD  270 (590)
T ss_pred             HHHHHHHcCCchhhcCChhhCCHHHHHHHHHHHHHhcCCCEEEEECCCCCCCHHHHHHHHHHHHHHHC-CCEEEEEeCC
Confidence            3445566676654454   5666776666777776655555555556665556666666666665544 5556655544

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=91.27  E-value=0.16  Score=46.36  Aligned_cols=25  Identities=20%  Similarity=0.223  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        30 ~Ge~~~liG~nGsGKSTLl~~i~Gl   54 (510)
T PRK09700         30 PGEIHALLGENGAGKSTLMKVLSGI   54 (510)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHcCC
Confidence            4568999999999999999987653

>PRK13409 putative ATPase RIL; Provisional

Probab=91.27  E-value=0.17  Score=47.19  Aligned_cols=25  Identities=36%  Similarity=0.423  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++||+|..|.|||||.+.+...
T Consensus        98 ~Gev~gLvG~NGaGKSTLlkiL~G~  122 (590)
T PRK13409         98 EGKVTGILGPNGIGKTTAVKILSGE  122 (590)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999999987654

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=91.26  E-value=0.17  Score=45.84  Aligned_cols=24  Identities=42%  Similarity=0.538  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||||.+-.
T Consensus       361 ~G~~lgIIGPSgSGKSTLaR~lvG  384 (580)
T COG4618         361 AGEALGIIGPSGSGKSTLARLLVG  384 (580)
T ss_pred             CCceEEEECCCCccHHHHHHHHHc
Confidence            456899999999999999998654

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=91.26  E-value=0.19  Score=43.79  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+..-
T Consensus        31 ~Ge~~~llGpsGsGKSTLLr~IaGl   55 (351)
T PRK11432         31 QGTMVTLLGPSGCGKTTVLRLVAGL   55 (351)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCC
Confidence            3458999999999999999988653

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=91.24  E-value=0.21  Score=41.08  Aligned_cols=25  Identities=32%  Similarity=0.422  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +...+||+|..|.|||||.+.+..-
T Consensus        52 ~Ge~vGiiG~NGaGKSTLlkliaGi   76 (249)
T COG1134          52 KGERVGIIGHNGAGKSTLLKLIAGI   76 (249)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCc
Confidence            3457999999999999999987654

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

Probab=91.22  E-value=0.15  Score=47.17  Aligned_cols=53  Identities=23%  Similarity=0.261  Sum_probs=38.2

Q ss_pred             CccCcccccchhHHHHHHHhhc---CC-------CCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          172 NYKNQLVGVESRVKEIESLLGA---ES-------KYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~---~~-------~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      +...++.|.++.++++.+.++.   ..       .-.+=+.++|.+|.|||.||+++...-..
T Consensus       147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~V  209 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGV  209 (596)
T ss_pred             cChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCC
Confidence            3457788988888777776542   11       12455778899999999999999876443

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=91.21  E-value=0.16  Score=46.19  Aligned_cols=77  Identities=10%  Similarity=0.005  Sum_probs=47.0

Q ss_pred             HHHHHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           35 HLYSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        35 ~L~~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      .+.+.|+.-|+....+.   ++..|+.-.-.+..++-.-...+++-=|...-...-..++...+......+..|+-+-++
T Consensus       114 ~~~~~l~~~~l~~~~~~~~~~LSgGq~qrv~lA~al~~~p~lllLDEPt~~LD~~~~~~l~~~l~~l~~~g~tvii~tH~  193 (491)
T PRK10982        114 DTKAIFDELDIDIDPRAKVATLSVSQMQMIEIAKAFSYNAKIVIMDEPTSSLTEKEVNHLFTIIRKLKERGCGIVYISHK  193 (491)
T ss_pred             HHHHHHHHcCCCCCccCchhhCCHHHHHHHHHHHHHHhCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhCCCEEEEEecC
Confidence            34555666677644443   566777766677888776666666665665555666666766665543334456656554

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=91.19  E-value=0.2  Score=42.78  Aligned_cols=25  Identities=32%  Similarity=0.417  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++++.|..|.|||||.+.+..-
T Consensus        32 ~Gei~gllGpNGaGKSTLl~~l~Gl   56 (306)
T PRK13537         32 RGECFGLLGPNGAGKTTTLRMLLGL   56 (306)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            3458999999999999999988654

>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]

Probab=91.18  E-value=0.16  Score=45.53  Aligned_cols=29  Identities=31%  Similarity=0.456  Sum_probs=24.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ...|+||.|..|+||||.++.+...+..+
T Consensus        99 ~G~V~GilG~NGiGKsTalkILaGel~PN  127 (591)
T COG1245          99 PGKVVGILGPNGIGKSTALKILAGELKPN  127 (591)
T ss_pred             CCcEEEEEcCCCccHHHHHHHHhCccccC
Confidence            46799999999999999999877665544

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=91.17  E-value=0.17  Score=46.16  Aligned_cols=78  Identities=12%  Similarity=0.060  Sum_probs=50.3

Q ss_pred             HHHHHHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEe
Q 045657           34 SHLYSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFY  110 (227)
Q Consensus        34 ~~L~~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~  110 (227)
                      ..+...|+..|+.-..+.   ++..|+.-.-.|..++-.-.-.+++==|...-......++...+......+..||-+-+
T Consensus       124 ~~~~~~l~~~gl~~~~~~~~~~LSgG~~qrv~ia~al~~~p~lllLDEPt~~LD~~~~~~l~~~l~~l~~~g~tiiivsH  203 (510)
T PRK09700        124 VRAAMMLLRVGLKVDLDEKVANLSISHKQMLEIAKTLMLDAKVIIMDEPTSSLTNKEVDYLFLIMNQLRKEGTAIVYISH  203 (510)
T ss_pred             HHHHHHHHHcCCCCCcccchhhCCHHHHHHHHHHHHHhcCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhCCCEEEEEeC
Confidence            345566777777644443   56677776667788877666666666676666677777777776665433445666655


Q ss_pred             e
Q 045657          111 R  111 (227)
Q Consensus       111 ~  111 (227)
                      +
T Consensus       204 d  204 (510)
T PRK09700        204 K  204 (510)
T ss_pred             C
Confidence            4

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=91.16  E-value=0.17  Score=46.26  Aligned_cols=26  Identities=38%  Similarity=0.424  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++||+|..|.||||+|..+..-
T Consensus        33 ~~GE~lgIvGESGsGKSt~a~~i~gl   58 (539)
T COG1123          33 EPGEILGIVGESGSGKSTLALALMGL   58 (539)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHhcc
Confidence            34678999999999999999998753

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=91.13  E-value=0.18  Score=46.26  Aligned_cols=79  Identities=15%  Similarity=0.141  Sum_probs=48.5

Q ss_pred             HHHHHHHhhCCCee---EEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhh-hccceee
Q 045657           34 SHLYSALSLKSIQT---FIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKR-EYAQIVI  106 (227)
Q Consensus        34 ~~L~~~L~~~g~~~---~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~-~~~~~ii  106 (227)
                      ..+.+.|+.-|+.-   +.+.   ++..|+.-.-.|..++-.-..++++==|...-.+.-..++...+.... ..+..||
T Consensus       132 ~~~~~~l~~~gl~~~~~~~~~~~~~LSgGe~qrv~iAraL~~~p~llllDEPt~~LD~~~~~~l~~~l~~l~~~~g~tvi  211 (529)
T PRK15134        132 GEILNCLDRVGIRQAAKRLTDYPHQLSGGERQRVMIAMALLTRPELLIADEPTTALDVSVQAQILQLLRELQQELNMGLL  211 (529)
T ss_pred             HHHHHHHHHCCCCChHHHHhhCCcccCHHHHHHHHHHHHHhcCCCEEEEcCCCCccCHHHHHHHHHHHHHHHHhcCCeEE
Confidence            34455666667642   1232   566777666678888776666667666777666666777776666542 2245566


Q ss_pred             eEEeec
Q 045657          107 PVFYRV  112 (227)
Q Consensus       107 pif~~v  112 (227)
                      -|-++.
T Consensus       212 ~vtHd~  217 (529)
T PRK15134        212 FITHNL  217 (529)
T ss_pred             EEcCcH
Confidence            665553

>PRK08939 primosomal protein DnaI; Reviewed

Probab=91.10  E-value=0.23  Score=42.48  Aligned_cols=26  Identities=31%  Similarity=0.456  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..-+-++|..|+|||.||.++.+.+.
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~  181 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELA  181 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            44577899999999999999998853

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=91.05  E-value=0.37  Score=41.84  Aligned_cols=49  Identities=16%  Similarity=0.295  Sum_probs=40.2

Q ss_pred             CcccccchhHHHHHHHhhcCC----CCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          175 NQLVGVESRVKEIESLLGAES----KYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~----~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+.|+++.++++.+.+....    ..-+++-+.|.-|.|||||++.+-+-++
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le  113 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLE  113 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhh
Confidence            478999999999999886432    3478999999999999999998766543

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

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

Probab=91.02  E-value=0.21  Score=41.02  Aligned_cols=29  Identities=31%  Similarity=0.332  Sum_probs=23.4

Q ss_pred             cCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          193 AESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       193 ~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..-....+.+|.|-.|+|||||.|.+-.-
T Consensus        29 l~V~~Gei~~iiGgSGsGKStlLr~I~Gl   57 (263)
T COG1127          29 LDVPRGEILAILGGSGSGKSTLLRLILGL   57 (263)
T ss_pred             eeecCCcEEEEECCCCcCHHHHHHHHhcc
Confidence            33345679999999999999999987654

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=91.00  E-value=0.19  Score=46.46  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus        32 ~Ge~~~iiG~NGsGKSTLlk~i~G~   56 (556)
T PRK11819         32 PGAKIGVLGLNGAGKSTLLRIMAGV   56 (556)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4557999999999999999998764

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=90.93  E-value=0.29  Score=42.02  Aligned_cols=36  Identities=17%  Similarity=0.330  Sum_probs=27.3

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ...|.++|..+=....++-|+|..|+|||+|+-.+.
T Consensus        82 ~~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla  117 (313)
T TIGR02238        82 SQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLC  117 (313)
T ss_pred             CHHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHH
Confidence            345556666554567889999999999999997653

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.

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=90.91  E-value=0.2  Score=46.43  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus       349 ~Ge~~~l~G~NGsGKSTLl~~i~G~  373 (556)
T PRK11819        349 PGGIVGIIGPNGAGKSTLFKMITGQ  373 (556)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999998754

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=90.89  E-value=0.21  Score=43.36  Aligned_cols=25  Identities=40%  Similarity=0.537  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++++.|..|.|||||.+.+..-
T Consensus        66 ~Gei~gLlGpNGaGKSTLl~~L~Gl   90 (340)
T PRK13536         66 SGECFGLLGPNGAGKSTIARMILGM   90 (340)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcC
Confidence            4568999999999999999988654

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=90.88  E-value=0.18  Score=46.06  Aligned_cols=78  Identities=10%  Similarity=0.021  Sum_probs=47.7

Q ss_pred             HHHHHHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEe
Q 045657           34 SHLYSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFY  110 (227)
Q Consensus        34 ~~L~~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~  110 (227)
                      +.+...|+.-|+.-+.+.   ++..|+.-.-.|..++-.-...+++==|...-.+....++...+......+..||-+-+
T Consensus       119 ~~~~~~l~~~~l~~~~~~~~~~LSgG~~qrv~la~aL~~~p~lllLDEPt~~LD~~~~~~l~~~l~~~~~~g~tiiivtH  198 (510)
T PRK15439        119 QKMKQLLAALGCQLDLDSSAGSLEVADRQIVEILRGLMRDSRILILDEPTASLTPAETERLFSRIRELLAQGVGIVFISH  198 (510)
T ss_pred             HHHHHHHHHcCCCccccCChhhCCHHHHHHHHHHHHHHcCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEeC
Confidence            344556777777655554   56667776667788877665555555565555566666676666554333445665655


Q ss_pred             e
Q 045657          111 R  111 (227)
Q Consensus       111 ~  111 (227)
                      +
T Consensus       199 d  199 (510)
T PRK15439        199 K  199 (510)
T ss_pred             C
Confidence            4

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=90.88  E-value=0.39  Score=40.88  Aligned_cols=49  Identities=24%  Similarity=0.278  Sum_probs=38.6

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....+++|.+.-+..|.+.+..  .+....-.+|.+|.|||+-|.+....+
T Consensus        33 kt~de~~gQe~vV~~L~~a~~~--~~lp~~LFyGPpGTGKTStalafar~L   81 (346)
T KOG0989|consen   33 KTFDELAGQEHVVQVLKNALLR--RILPHYLFYGPPGTGKTSTALAFARAL   81 (346)
T ss_pred             CcHHhhcchHHHHHHHHHHHhh--cCCceEEeeCCCCCcHhHHHHHHHHHh
Confidence            3456788999888888888775  345566689999999999999877763

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=90.87  E-value=0.3  Score=41.97  Aligned_cols=38  Identities=26%  Similarity=0.284  Sum_probs=29.2

Q ss_pred             hHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHH
Q 045657          183 RVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....|.++|..+-....++-|+|..|.|||||+..+..
T Consensus        81 g~~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~  118 (316)
T TIGR02239        81 GSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAV  118 (316)
T ss_pred             CCHHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHH
Confidence            34556666665555678999999999999999987654

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).

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

Probab=90.83  E-value=0.48  Score=40.86  Aligned_cols=38  Identities=24%  Similarity=0.251  Sum_probs=27.5

Q ss_pred             HHHHHHHhh-cCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLG-AESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~-~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...|..+|. .+=...+++-|+|.+|.||||||-.+.-.
T Consensus        40 i~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~   78 (325)
T cd00983          40 SLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAE   78 (325)
T ss_pred             CHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            344555555 33345778889999999999999986543

RecA couples ATP hydrolysis to DNA strand exchange.

>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]

Probab=90.83  E-value=0.28  Score=40.41  Aligned_cols=82  Identities=16%  Similarity=0.098  Sum_probs=58.4

Q ss_pred             CCCCcccEEEccccccCCccHHHHHHHHHhh--CCCeeEEeCC---CCCCCcchHHHHHH-HHhcccEEEEeecCcccch
Q 045657           12 RNINKYDVFLSFRGEDTRDNFTSHLYSALSL--KSIQTFIDDQ---LNRGDEISQSLVYA-IENSAISLIIFSEGYASSR   85 (227)
Q Consensus        12 ~~~~~~dvFISy~~~D~~~~~~~~L~~~L~~--~g~~~~~d~~---~~~g~~~~~~i~~~-i~~s~~~i~v~S~~~~~S~   85 (227)
                      ..++.||+=|||.|+-  .++++....+++.  ..+..|+|-+   ...-.++..-+... =..|++.+|.+..+|....
T Consensus       173 ~~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~sL~~~L~~~Y~~rC~~~~VF~~~~Y~~K~  250 (329)
T COG4916         173 SSEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGSLVSTLDPGYDIRCVVTTVFNTGSYICKS  250 (329)
T ss_pred             ccccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCccHHHhcccccCceEEEEEEEeCCceEEee
Confidence            5678999999999975  3599999999994  4455777752   11112222222222 2478889999999999999


Q ss_pred             hhHHHHHHHH
Q 045657           86 WCLDELVKIL   95 (227)
Q Consensus        86 wc~~El~~~~   95 (227)
                      ||.-|....-
T Consensus       251 ~c~~E~~~~r  260 (329)
T COG4916         251 TCHIEGLEGR  260 (329)
T ss_pred             eeccchhhcc
Confidence            9999977654

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=90.82  E-value=0.2  Score=45.98  Aligned_cols=25  Identities=36%  Similarity=0.494  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus       344 ~Ge~~~l~G~NGsGKSTLl~~i~G~  368 (530)
T PRK15064        344 AGERLAIIGENGVGKTTLLRTLVGE  368 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999998753

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=90.79  E-value=0.26  Score=40.98  Aligned_cols=27  Identities=33%  Similarity=0.329  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...-+.++|-.|+|||.||.++-+++.
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~  130 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL  130 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH
Confidence            445577899999999999999988854

>PRK11823 DNA repair protein RadA; Provisional

Probab=90.78  E-value=0.45  Score=42.88  Aligned_cols=40  Identities=25%  Similarity=0.313  Sum_probs=30.2

Q ss_pred             hHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          183 RVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....+.++|..+=....++-|.|.+|+|||||+.++....
T Consensus        65 Gi~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~  104 (446)
T PRK11823         65 GIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARL  104 (446)
T ss_pred             CcHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3455666665544456788999999999999999987654

>PRK12608 transcription termination factor Rho; Provisional

Probab=90.77  E-value=0.25  Score=43.30  Aligned_cols=25  Identities=20%  Similarity=0.098  Sum_probs=21.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      -..|+|-.|+|||||++.+.+.+..
T Consensus       135 R~LIvG~pGtGKTTLl~~la~~i~~  159 (380)
T PRK12608        135 RGLIVAPPRAGKTVLLQQIAAAVAA  159 (380)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3589999999999999999887543

>PRK14246 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.76  E-value=0.22  Score=41.27  Aligned_cols=25  Identities=28%  Similarity=0.388  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-..++|.|..|.|||||.+.+...
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~iaG~   59 (257)
T PRK14246         35 NNSIFGIMGPSGSGKSTLLKVLNRL   59 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3458999999999999999988754

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=90.74  E-value=0.22  Score=37.14  Aligned_cols=22  Identities=32%  Similarity=0.749  Sum_probs=19.0

Q ss_pred             EEEEEcCCCchHHHHHHHHHHH
Q 045657          200 TLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+.++|..|+|||||.+.+..+
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~  106 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGK  106 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6889999999999999887653

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=90.74  E-value=0.23  Score=42.14  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+.|+.|..|.|||||.+.+...
T Consensus        30 ~Gei~gllG~NGAGKTTllk~l~gl   54 (293)
T COG1131          30 PGEIFGLLGPNGAGKTTLLKILAGL   54 (293)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999987664

>COG4167 SapF ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=90.74  E-value=0.22  Score=39.46  Aligned_cols=23  Identities=39%  Similarity=0.489  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      -..++|.|-.|.||+|||+.+..
T Consensus        39 ~QTlaiIG~NGSGKSTLakMlaG   61 (267)
T COG4167          39 GQTLAIIGENGSGKSTLAKMLAG   61 (267)
T ss_pred             CcEEEEEccCCCcHhHHHHHHhc
Confidence            45789999999999999998754

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=90.73  E-value=0.078  Score=46.21  Aligned_cols=75  Identities=16%  Similarity=0.220  Sum_probs=43.4

Q ss_pred             HHHHHHHHhhCCCeeEE---eC------CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHh-hhcc
Q 045657           33 TSHLYSALSLKSIQTFI---DD------QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCK-REYA  102 (227)
Q Consensus        33 ~~~L~~~L~~~g~~~~~---d~------~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~-~~~~  102 (227)
                      .+.|..-.+..|+.|.-   ..      ..-.|.--..++.+.++....-++||-...  |+--...|..++... -++.
T Consensus        19 ~~E~~~L~~~~~~~v~~~~~~~~~~~~~~~~~g~gk~~e~~~~~~~~~~~~vi~~~~l--~p~q~~nl~~~~~~~v~Dr~   96 (351)
T TIGR03156        19 LEELAELAETAGAEVVGTVTQKRSRPDPATYIGKGKVEEIAELVEELEADLVIFDHEL--SPSQERNLEKALGCRVIDRT   96 (351)
T ss_pred             HHHHHHHHHHCCCEEEEEEEEecCCCCCCeEecccHHHHHHHHHHhcCCCEEEECCCC--CHHHHHHHHHHhCCcccchH
Confidence            44555555667877532   11      112233334778888888888888887544  444555666666554 3334


Q ss_pred             ceeeeEE
Q 045657          103 QIVIPVF  109 (227)
Q Consensus       103 ~~iipif  109 (227)
                      ..|+-||
T Consensus        97 ~lil~iF  103 (351)
T TIGR03156        97 GLILDIF  103 (351)
T ss_pred             HHHHHHH
Confidence            5666666

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=90.71  E-value=0.22  Score=45.67  Aligned_cols=76  Identities=7%  Similarity=0.009  Sum_probs=48.0

Q ss_pred             HHHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHh-hhccceeeeEEeec
Q 045657           37 YSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCK-REYAQIVIPVFYRV  112 (227)
Q Consensus        37 ~~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~-~~~~~~iipif~~v  112 (227)
                      .+.|+.-|+.-..+.   ++..|+.-.-.|..++-.....+++==|...-.+....++...+... +..+..||-|-++.
T Consensus       150 ~~~l~~~gl~~~~~~~~~~LSgGq~qrv~iA~al~~~p~lllLDEPt~~LD~~~~~~l~~~l~~l~~~~g~tviivtHd~  229 (520)
T TIGR03269       150 VDLIEMVQLSHRITHIARDLSGGEKQRVVLARQLAKEPFLFLADEPTGTLDPQTAKLVHNALEEAVKASGISMVLTSHWP  229 (520)
T ss_pred             HHHHHHcCChhhhhcCcccCCHHHHHHHHHHHHHhcCCCEEEeeCCcccCCHHHHHHHHHHHHHHHHhcCcEEEEEeCCH
Confidence            344566666544443   56677776667888877766667776677666667677776666654 33345666666553

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.

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=90.70  E-value=0.23  Score=43.71  Aligned_cols=25  Identities=36%  Similarity=0.306  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-.+++|.|..|.|||||.+.+..-
T Consensus        39 ~Ge~~~LlGpsGsGKSTLLr~IaGl   63 (375)
T PRK09452         39 NGEFLTLLGPSGCGKTTVLRLIAGF   63 (375)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3458999999999999999998753

>PLN02674 adenylate kinase

Probab=90.68  E-value=0.47  Score=39.21  Aligned_cols=23  Identities=35%  Similarity=0.284  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..|-|.|++|.||||+|+.+..+
T Consensus        32 ~~i~l~G~PGsGKgT~a~~La~~   54 (244)
T PLN02674         32 KRLILIGPPGSGKGTQSPIIKDE   54 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            34668899999999999988775

>PRK09866 hypothetical protein; Provisional

Probab=90.67  E-value=0.3  Score=45.80  Aligned_cols=42  Identities=26%  Similarity=0.259  Sum_probs=31.0

Q ss_pred             cchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          180 VESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++..|.+.|..-....-+++|+|..|.|||||.+++...
T Consensus        51 i~~ri~~L~~~L~Kv~~~~~~valvG~sgaGKSTLiNaL~G~   92 (741)
T PRK09866         51 IAERHAMLNNELRKISRLEMVLAIVGTMKAGKSTTINAIVGT   92 (741)
T ss_pred             HHHHHHHHHHHHHHHhccceEEEEECCCCCCHHHHHHHHhCC
Confidence            345566666666543334578999999999999999998753

>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]

Probab=90.66  E-value=0.19  Score=44.47  Aligned_cols=26  Identities=38%  Similarity=0.489  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....+||+|..|.|||||.+++.+=+
T Consensus       312 ~gqTlGlVGESGSGKsTlG~allrL~  337 (534)
T COG4172         312 RGQTLGLVGESGSGKSTLGLALLRLI  337 (534)
T ss_pred             CCCeEEEEecCCCCcchHHHHHHhhc
Confidence            34689999999999999999987653

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=90.63  E-value=0.21  Score=45.54  Aligned_cols=76  Identities=11%  Similarity=0.089  Sum_probs=49.0

Q ss_pred             HHHHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           36 LYSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        36 L~~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      +.+.|+.-|+.-..+.   ++..|+.-.-.|..++-.-...+++==|...-.+....++...+......+..|+-+-++
T Consensus       122 ~~~~l~~~~l~~~~~~~~~~LSgG~~qrv~la~al~~~p~lllLDEPt~~LD~~~~~~l~~~l~~l~~~~~tvii~sHd  200 (501)
T PRK10762        122 ADKLLARLNLRFSSDKLVGELSIGEQQMVEIAKVLSFESKVIIMDEPTDALTDTETESLFRVIRELKSQGRGIVYISHR  200 (501)
T ss_pred             HHHHHHHcCCCCCccCchhhCCHHHHHHHHHHHHHhcCCCEEEEeCCcCCCCHHHHHHHHHHHHHHHHCCCEEEEEeCC
Confidence            4455666677544443   667777776678888776666666666766666677777776666554334456666554

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=90.62  E-value=0.38  Score=41.22  Aligned_cols=37  Identities=30%  Similarity=0.372  Sum_probs=27.0

Q ss_pred             HHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          185 KEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+.++|..+=....++-|+|.+|.|||++|-.+.-.
T Consensus        89 ~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~  125 (317)
T PRK04301         89 KELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVN  125 (317)
T ss_pred             HHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHH
Confidence            3444555444445778899999999999999987543

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=90.60  E-value=0.19  Score=43.45  Aligned_cols=25  Identities=32%  Similarity=0.282  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+.|+|..|.||||+.+++.+.+
T Consensus       160 ~~nili~G~tgSGKTTll~aL~~~i  184 (332)
T PRK13900        160 KKNIIISGGTSTGKTTFTNAALREI  184 (332)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHhhC
Confidence            4467889999999999999987754

>PRK12288 GTPase RsgA; Reviewed

Probab=90.60  E-value=0.3  Score=42.56  Aligned_cols=33  Identities=24%  Similarity=0.431  Sum_probs=24.9

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +++|.+.|..     .++.++|..|+|||||.+++..+
T Consensus       196 ideL~~~L~~-----ki~~~vG~sgVGKSTLiN~Ll~~  228 (347)
T PRK12288        196 LEELEAALTG-----RISIFVGQSGVGKSSLINALLPE  228 (347)
T ss_pred             HHHHHHHHhh-----CCEEEECCCCCCHHHHHHHhccc
Confidence            5566666642     24788999999999999988654

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=90.56  E-value=0.44  Score=39.80  Aligned_cols=37  Identities=22%  Similarity=0.197  Sum_probs=25.8

Q ss_pred             hHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          183 RVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+.+..++..   ...++.|.|..|.||||+.+++.+.+
T Consensus        68 ~~~~l~~~~~~---~~GlilisG~tGSGKTT~l~all~~i  104 (264)
T cd01129          68 NLEIFRKLLEK---PHGIILVTGPTGSGKTTTLYSALSEL  104 (264)
T ss_pred             HHHHHHHHHhc---CCCEEEEECCCCCcHHHHHHHHHhhh
Confidence            33444444432   23468899999999999999886654

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=90.54  E-value=0.24  Score=43.61  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      -.+++|.|..|.|||||.+.+..
T Consensus        45 Ge~~~llGpsGsGKSTLLr~IaG   67 (377)
T PRK11607         45 GEIFALLGASGCGKSTLLRMLAG   67 (377)
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999998864

>PLN03073 ABC transporter F family; Provisional

Probab=90.51  E-value=0.2  Score=47.83  Aligned_cols=24  Identities=33%  Similarity=0.426  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....+||+|..|.|||||.+.+..
T Consensus       202 ~Ge~~gLvG~NGsGKSTLLr~l~g  225 (718)
T PLN03073        202 FGRHYGLVGRNGTGKTTFLRYMAM  225 (718)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcC
Confidence            456899999999999999999864

>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed

Probab=90.49  E-value=0.3  Score=42.14  Aligned_cols=29  Identities=24%  Similarity=0.387  Sum_probs=23.6

Q ss_pred             CCeEEEEE--EcCCCchHHHHHHHHHHHhhc
Q 045657          196 KYVYTLGI--WGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       196 ~~~~~~~i--~G~gG~GKTtla~~v~~~~~~  224 (227)
                      -++.||+|  .+.||.|||+++..+.+.++.
T Consensus        47 ~~~pvIsVGNi~vGGtGKTP~v~~L~~~l~~   77 (325)
T PRK00652         47 APVPVIVVGNITVGGTGKTPVVIALAEQLQA   77 (325)
T ss_pred             CCCCEEEEcCeeCCCCChHHHHHHHHHHHHH
Confidence            34667777  899999999999999887543

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=90.45  E-value=0.23  Score=46.81  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus       344 ~Ge~~~l~G~NGsGKSTLlk~l~G~  368 (635)
T PRK11147        344 RGDKIALIGPNGCGKTTLLKLMLGQ  368 (635)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3458999999999999999998764

>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring

Probab=90.45  E-value=0.36  Score=41.69  Aligned_cols=25  Identities=28%  Similarity=0.397  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++|.|.|-||+||||++..+...
T Consensus        30 ~~~ii~v~gkgG~GKSt~a~nLa~~   54 (329)
T cd02033          30 KTQIIAIYGKGGIGKSFTLANLSYM   54 (329)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999988876544

This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=90.44  E-value=0.21  Score=46.16  Aligned_cols=25  Identities=32%  Similarity=0.393  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|.|..|.|||||.+.+...
T Consensus       347 ~Ge~~~l~G~NGsGKSTLl~~l~G~  371 (552)
T TIGR03719       347 PGGIVGVIGPNGAGKSTLFRMITGQ  371 (552)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCC
Confidence            3568999999999999999998754

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.

>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]

Probab=90.39  E-value=0.24  Score=39.21  Aligned_cols=25  Identities=32%  Similarity=0.371  Sum_probs=21.1

Q ss_pred             CCCeEEEEEEcCCCchHHHHHHHHH
Q 045657          195 SKYVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       195 ~~~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ....-||+|.|-.|.||+|+.|.+.
T Consensus        29 A~~GdVisIIGsSGSGKSTfLRCiN   53 (256)
T COG4598          29 ANAGDVISIIGSSGSGKSTFLRCIN   53 (256)
T ss_pred             cCCCCEEEEecCCCCchhHHHHHHH
Confidence            3456689999999999999999863

>PRK04841 transcriptional regulator MalT; Provisional

Probab=90.33  E-value=0.38  Score=46.85  Aligned_cols=47  Identities=17%  Similarity=0.037  Sum_probs=32.6

Q ss_pred             CCCccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          170 PRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       170 ~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +|....+++-|..-+    +.|.. ..+.+++-|.|.+|.||||++....++
T Consensus         9 ~p~~~~~~~~R~rl~----~~l~~-~~~~~~~~v~apaG~GKTtl~~~~~~~   55 (903)
T PRK04841          9 RPVRLHNTVVRERLL----AKLSG-ANNYRLVLVTSPAGYGKTTLISQWAAG   55 (903)
T ss_pred             CCCCccccCcchHHH----HHHhc-ccCCCeEEEECCCCCCHHHHHHHHHHh
Confidence            444456666665433    33432 235788999999999999999987654

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=90.29  E-value=0.31  Score=42.59  Aligned_cols=25  Identities=32%  Similarity=0.328  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+.|+|..|.||||+.+++.+.+
T Consensus       134 ~glilI~GpTGSGKTTtL~aLl~~i  158 (358)
T TIGR02524       134 EGIVFITGATGSGKSTLLAAIIREL  158 (358)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999987765

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=90.23  E-value=0.24  Score=45.04  Aligned_cols=78  Identities=15%  Similarity=0.105  Sum_probs=48.1

Q ss_pred             HHHHHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           35 HLYSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        35 ~L~~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      .+.+.|+.-|+.-..+.   ++..|+.-.-.+..++-.-...+++==|...-.+.-..++...+......+..||-+-++
T Consensus       115 ~~~~~l~~~~l~~~~~~~~~~LSgG~~qrv~la~al~~~p~lllLDEPt~~LD~~~~~~l~~~l~~~~~~g~tvii~tH~  194 (490)
T PRK10938        115 RCEQLAQQFGITALLDRRFKYLSTGETRKTLLCQALMSEPDLLILDEPFDGLDVASRQQLAELLASLHQSGITLVLVLNR  194 (490)
T ss_pred             HHHHHHHHcCCHhhhhCCcccCCHHHHHHHHHHHHHHcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHhcCCeEEEEeCC
Confidence            34456677777544443   667777776678888776555666655666666666667777666553334456656554


Q ss_pred             c
Q 045657          112 V  112 (227)
Q Consensus       112 v  112 (227)
                      .
T Consensus       195 ~  195 (490)
T PRK10938        195 F  195 (490)
T ss_pred             H
Confidence            3

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=90.21  E-value=0.25  Score=45.67  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus        30 ~Ge~~~liG~NGsGKSTLl~~i~G~   54 (552)
T TIGR03719        30 PGAKIGVLGLNGAGKSTLLRIMAGV   54 (552)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4457999999999999999998764

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.

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=90.20  E-value=0.25  Score=46.62  Aligned_cols=25  Identities=24%  Similarity=0.424  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus       337 ~Ge~~~l~G~NGsGKSTLlk~l~G~  361 (638)
T PRK10636        337 PGSRIGLLGRNGAGKSTLIKLLAGE  361 (638)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999998764

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=90.18  E-value=0.24  Score=45.19  Aligned_cols=77  Identities=14%  Similarity=0.131  Sum_probs=47.8

Q ss_pred             HHHHHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           35 HLYSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        35 ~L~~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      .+...|+.-|+.-..+.   ++..|+.-.-.+..++-.-...+++==|...-.+....++...+......+..||-+-++
T Consensus       120 ~~~~~l~~~~l~~~~~~~~~~LSgGq~qrv~laral~~~p~lllLDEPt~~LD~~~~~~l~~~l~~~~~~g~tiiiitHd  199 (501)
T PRK11288        120 EAREQLEHLGVDIDPDTPLKYLSIGQRQMVEIAKALARNARVIAFDEPTSSLSAREIEQLFRVIRELRAEGRVILYVSHR  199 (501)
T ss_pred             HHHHHHHHcCCCCCcCCchhhCCHHHHHHHHHHHHHHhCCCEEEEcCCCCCCCHHHHHHHHHHHHHHHhCCCEEEEEeCC
Confidence            45556666677533333   566677666677777766665666666666666666777777666553334566666655

>PRK09354 recA recombinase A; Provisional

Probab=90.16  E-value=0.59  Score=40.70  Aligned_cols=38  Identities=24%  Similarity=0.241  Sum_probs=28.2

Q ss_pred             HHHHHHHhh-cCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLG-AESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~-~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...|..+|. .+=...+++-|+|..|.||||||-.+.-.
T Consensus        45 i~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~   83 (349)
T PRK09354         45 SLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAE   83 (349)
T ss_pred             cHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            445556665 44455789999999999999999976543

>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase

Probab=90.15  E-value=0.47  Score=37.90  Aligned_cols=26  Identities=15%  Similarity=0.068  Sum_probs=20.6

Q ss_pred             CeEEEEEE-cCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIW-GFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~-G~gG~GKTtla~~v~~~~  222 (227)
                      ..++|+|. +.||+||||+|..+...+
T Consensus        34 ~~~vi~v~s~kgG~GkSt~a~nLA~~l   60 (207)
T TIGR03018        34 NNNLIMVTSSLPGEGKSFTAINLAISL   60 (207)
T ss_pred             CCeEEEEECCCCCCCHHHHHHHHHHHH
Confidence            46789998 579999999988766543

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.

>cd01859 MJ1464 MJ1464

Probab=90.14  E-value=0.56  Score=35.43  Aligned_cols=42  Identities=24%  Similarity=0.410  Sum_probs=27.9

Q ss_pred             cccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHH
Q 045657          178 VGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       178 ~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      .|.+.-++.+.+.+.......+ +.++|..|+|||||.+...+
T Consensus        82 ~gi~~L~~~l~~~~~~~~~~~~-~~~ig~~~~Gkssl~~~l~~  123 (156)
T cd01859          82 LGTKILRRTIKELAKIDGKEGK-VGVVGYPNVGKSSIINALKG  123 (156)
T ss_pred             ccHHHHHHHHHHHHhhcCCCcE-EEEECCCCCCHHHHHHHHhC
Confidence            3555545555555543333344 48999999999999998764

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=90.08  E-value=0.42  Score=36.21  Aligned_cols=25  Identities=28%  Similarity=0.667  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++++|..|+|||||.+.+.+.
T Consensus        99 ~~~~~~~~G~~~~GKstlin~l~~~  123 (155)
T cd01849          99 KSITVGVIGYPNVGKSSVINALLNK  123 (155)
T ss_pred             cCcEEEEEccCCCCHHHHHHHHHcc
Confidence            3456889999999999999988764

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=90.08  E-value=0.25  Score=45.49  Aligned_cols=25  Identities=24%  Similarity=0.387  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.-|+|+|..|+|||||.+.+...+
T Consensus       348 g~riaiiG~NG~GKSTLlk~l~g~~  372 (530)
T COG0488         348 GDRIAIVGPNGAGKSTLLKLLAGEL  372 (530)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhhc
Confidence            3468999999999999999986653

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=90.07  E-value=0.25  Score=45.00  Aligned_cols=77  Identities=10%  Similarity=0.042  Sum_probs=49.1

Q ss_pred             HHHHHHhhCCCeeEE-eC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEe
Q 045657           35 HLYSALSLKSIQTFI-DD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFY  110 (227)
Q Consensus        35 ~L~~~L~~~g~~~~~-d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~  110 (227)
                      .+.+.|+.-|+.-.. +.   ++..|+.-.-.+..++-.....+++==|...-.+....++...+......+..|+-+-+
T Consensus       120 ~~~~~l~~~~l~~~~~~~~~~~LSgG~~qrv~iA~al~~~p~lllLDEPt~~LD~~~~~~l~~~l~~l~~~g~tviiitH  199 (500)
T TIGR02633       120 RAKNLLRELQLDADNVTRPVGDYGGGQQQLVEIAKALNKQARLLILDEPSSSLTEKETEILLDIIRDLKAHGVACVYISH  199 (500)
T ss_pred             HHHHHHHHcCCCCCcccCchhhCCHHHHHHHHHHHHHhhCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhCCCEEEEEeC
Confidence            345566677775432 22   56777776667888877666666666677667777777777776655434445666655


Q ss_pred             e
Q 045657          111 R  111 (227)
Q Consensus       111 ~  111 (227)
                      +
T Consensus       200 d  200 (500)
T TIGR02633       200 K  200 (500)
T ss_pred             c
Confidence            4

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).

>PRK01889 GTPase RsgA; Reviewed

Probab=90.06  E-value=0.44  Score=41.62  Aligned_cols=35  Identities=23%  Similarity=0.462  Sum_probs=27.8

Q ss_pred             hHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          183 RVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+++|..+|..    ...++++|..|+|||||.+.+...
T Consensus       184 gl~~L~~~L~~----g~~~~lvG~sgvGKStLin~L~g~  218 (356)
T PRK01889        184 GLDVLAAWLSG----GKTVALLGSSGVGKSTLVNALLGE  218 (356)
T ss_pred             cHHHHHHHhhc----CCEEEEECCCCccHHHHHHHHHHh
Confidence            36677777752    347899999999999999988764

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=90.05  E-value=0.57  Score=39.83  Aligned_cols=48  Identities=23%  Similarity=0.232  Sum_probs=32.3

Q ss_pred             cCcccccc---hhHHHHHHHhhcCC-CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          174 KNQLVGVE---SRVKEIESLLGAES-KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       174 ~~~~~g~~---~~~~~~~~~l~~~~-~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+..||-.   .-++.+.+++.... .-...+-|+|-.|.|||+|++...+.
T Consensus        33 ~~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~   84 (302)
T PF05621_consen   33 ADRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRL   84 (302)
T ss_pred             cCCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHH
Confidence            34555532   34555566665332 22456889999999999999998876

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=90.04  E-value=0.23  Score=41.36  Aligned_cols=25  Identities=16%  Similarity=0.177  Sum_probs=20.7

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++-|.|.+|.|||++|.++..
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~   58 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAV   58 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3467888999999999999998643

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

>PRK11860 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional

Probab=90.01  E-value=0.43  Score=45.23  Aligned_cols=26  Identities=27%  Similarity=0.285  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+|.|-|+.|.||||+|+.+.+++.
T Consensus       442 ~~~i~i~g~~~~gks~~~~~l~~~~~  467 (661)
T PRK11860        442 VPVICIDGPTASGKGTVAARVAEALG  467 (661)
T ss_pred             cceEEeeCCCCCCHHHHHHHHHHHhC
Confidence            55899999999999999999988754

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=89.93  E-value=0.28  Score=45.52  Aligned_cols=25  Identities=32%  Similarity=0.299  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+..-
T Consensus       368 ~G~~~aIvG~sGsGKSTLl~ll~gl  392 (582)
T PRK11176        368 AGKTVALVGRSGSGKSTIANLLTRF  392 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            3467999999999999999988664

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=89.92  E-value=0.45  Score=41.39  Aligned_cols=36  Identities=22%  Similarity=0.289  Sum_probs=26.9

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ...|.++|..+=....+.-|+|..|+|||+|+-.+.
T Consensus       112 ~~~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqla  147 (344)
T PLN03187        112 SQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLC  147 (344)
T ss_pred             cHhHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHH
Confidence            344555665444557788899999999999998763

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=89.89  E-value=0.26  Score=45.64  Aligned_cols=24  Identities=25%  Similarity=0.342  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||++.+.+
T Consensus       354 ~Ge~vaiVG~sGsGKSTl~~LL~r  377 (567)
T COG1132         354 PGEKVAIVGPSGSGKSTLIKLLLR  377 (567)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            456789999999999999998754

>PHA02624 large T antigen; Provisional

Probab=89.85  E-value=0.64  Score=43.30  Aligned_cols=38  Identities=26%  Similarity=0.160  Sum_probs=29.4

Q ss_pred             HHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          186 EIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       186 ~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+.+.+..+-...+++.++|..|.||||++.++.+-++
T Consensus       419 ~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L~  456 (647)
T PHA02624        419 DILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLCG  456 (647)
T ss_pred             HHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            33444444556688999999999999999999988753

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=89.82  E-value=0.23  Score=43.14  Aligned_cols=25  Identities=32%  Similarity=0.491  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+.|.|..|.||||+++++.+.+
T Consensus       162 ~~nilI~G~tGSGKTTll~aLl~~i  186 (344)
T PRK13851        162 RLTMLLCGPTGSGKTTMSKTLISAI  186 (344)
T ss_pred             CCeEEEECCCCccHHHHHHHHHccc
Confidence            4467889999999999999987653

>PRK11058 GTPase HflX; Provisional

Probab=89.80  E-value=2.2  Score=38.29  Aligned_cols=75  Identities=13%  Similarity=0.293  Sum_probs=45.3

Q ss_pred             HHHHHHHHhhCCCeeEE---eC------CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHh-hhcc
Q 045657           33 TSHLYSALSLKSIQTFI---DD------QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCK-REYA  102 (227)
Q Consensus        33 ~~~L~~~L~~~g~~~~~---d~------~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~-~~~~  102 (227)
                      .+.|..-.+..|+.|.-   -.      ..-.|.--..++.+.++....-++||-..  -|+--...|..++... -++.
T Consensus        27 ~~El~~L~~~~g~~v~~~~~q~~~~~~~~~~~g~gk~~e~~~~~~~~~~~~vi~~~~--lsp~q~~nle~~~~~~v~DR~  104 (426)
T PRK11058         27 LQEFESLVSSAGVEALQVITGSRKAPHPKYFVGEGKAVEIAEAVKATGASVVLFDHA--LSPAQERNLERLCECRVIDRT  104 (426)
T ss_pred             HHHHHHHHHHCCCEEEEEEEEecCCCCCCeeecccHHHHHHHHHHhcCCCEEEECCC--CCHHHHHHHHHHHCCeEecch
Confidence            56666666778887532   11      12233434477888888888888888754  3455556677766544 3334


Q ss_pred             ceeeeEE
Q 045657          103 QIVIPVF  109 (227)
Q Consensus       103 ~~iipif  109 (227)
                      ..|+-||
T Consensus       105 ~lil~IF  111 (426)
T PRK11058        105 GLILDIF  111 (426)
T ss_pred             hHHHHHH
Confidence            5566665

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=89.77  E-value=0.31  Score=42.71  Aligned_cols=23  Identities=43%  Similarity=0.475  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      -.+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~llGpsGsGKSTLLr~iaG   53 (362)
T TIGR03258        31 GELLALIGKSGCGKTTLLRAIAG   53 (362)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45799999999999999998764

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.

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=89.74  E-value=0.48  Score=42.73  Aligned_cols=49  Identities=27%  Similarity=0.364  Sum_probs=38.2

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+-..++++...+..-...-.-|-|.|..|+||-.+|+++++.
T Consensus       139 ~~~~liG~S~am~~l~~~i~kvA~s~a~VLI~GESGtGKElvAr~IH~~  187 (464)
T COG2204         139 LGGELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELVARAIHQA  187 (464)
T ss_pred             ccCCceecCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHhh
Confidence            3578999999999998887642222224568999999999999999985

>PRK03003 GTP-binding protein Der; Reviewed

Probab=89.69  E-value=0.42  Score=43.37  Aligned_cols=24  Identities=21%  Similarity=0.365  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....|+|+|.+|+|||||.+.+..
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl~~   60 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRILG   60 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhC
Confidence            456799999999999999988764

>PRK12289 GTPase RsgA; Reviewed

Probab=89.68  E-value=0.4  Score=41.84  Aligned_cols=33  Identities=15%  Similarity=0.279  Sum_probs=25.0

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +++|.+.|..     .++.++|+.|+|||||.+.+..+
T Consensus       163 I~eL~~~L~~-----ki~v~iG~SgVGKSSLIN~L~~~  195 (352)
T PRK12289        163 LEALLEQLRN-----KITVVAGPSGVGKSSLINRLIPD  195 (352)
T ss_pred             HHHHhhhhcc-----ceEEEEeCCCCCHHHHHHHHcCc
Confidence            5556665542     25789999999999999988754

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=89.67  E-value=0.7  Score=39.60  Aligned_cols=27  Identities=26%  Similarity=0.314  Sum_probs=21.6

Q ss_pred             CCeEEEEEEc-CCCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIWG-FGGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~G-~gG~GKTtla~~v~~~~  222 (227)
                      ...++|+|+| -||+||||+|-.+...+
T Consensus        91 ~~~~vIav~~~KGGvGkTT~a~nLA~~l  118 (322)
T TIGR03815        91 ARGVVVAVIGGRGGAGASTLAAALALAA  118 (322)
T ss_pred             CCceEEEEEcCCCCCcHHHHHHHHHHHH
Confidence            3478999985 79999999998876553

Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=89.65  E-value=0.33  Score=44.61  Aligned_cols=27  Identities=22%  Similarity=0.456  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...-+++|+|.+|.|||||.+.+-+++
T Consensus        67 PPPfIvavvGPpGtGKsTLirSlVrr~   93 (1077)
T COG5192          67 PPPFIVAVVGPPGTGKSTLIRSLVRRF   93 (1077)
T ss_pred             CCCeEEEeecCCCCChhHHHHHHHHHH
Confidence            346688899999999999999887764

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=89.62  E-value=0.63  Score=43.70  Aligned_cols=48  Identities=25%  Similarity=0.335  Sum_probs=38.1

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.+++|.+.-++.|...+..+. -...+=++|..|+||||+|+.+...+
T Consensus        16 f~~viGq~~~~~~L~~~i~~~~-l~hayLf~Gp~G~GKtt~A~~lAk~l   63 (614)
T PRK14971         16 FESVVGQEALTTTLKNAIATNK-LAHAYLFCGPRGVGKTTCARIFAKTI   63 (614)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            4678999988999988887543 23456689999999999999887764

>PRK06851 hypothetical protein; Provisional

Probab=89.57  E-value=0.42  Score=41.88  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -+++-|-|..|+|||||.+.++...
T Consensus       214 ~~~~~i~G~pG~GKstl~~~i~~~a  238 (367)
T PRK06851        214 KNRYFLKGRPGTGKSTMLKKIAKAA  238 (367)
T ss_pred             ceEEEEeCCCCCcHHHHHHHHHHHH
Confidence            4678899999999999999999874

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=89.55  E-value=0.56  Score=41.43  Aligned_cols=22  Identities=27%  Similarity=0.372  Sum_probs=17.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAI  218 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v  218 (227)
                      +-+++.++|..|+||||-....
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKL  223 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKL  223 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHH
Confidence            3789999999999998754443

>TIGR03415 ABC_choXWV_ATP choline ABC transporter, ATP-binding protein

Probab=89.51  E-value=0.31  Score=42.97  Aligned_cols=24  Identities=25%  Similarity=0.331  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+++|.|..|.|||||.+.+..-
T Consensus        50 Gei~~I~G~nGsGKSTLlr~L~Gl   73 (382)
T TIGR03415        50 GEICVLMGLSGSGKSSLLRAVNGL   73 (382)
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            458999999999999999988654

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.

>PLN03073 ABC transporter F family; Provisional

Probab=89.49  E-value=0.3  Score=46.68  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+++|+|..|.|||||.+.+...
T Consensus       535 Ge~i~LvG~NGsGKSTLLk~L~Gl  558 (718)
T PLN03073        535 DSRIAMVGPNGIGKSTILKLISGE  558 (718)
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            458999999999999999998754

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

Probab=89.48  E-value=0.37  Score=40.06  Aligned_cols=36  Identities=28%  Similarity=0.291  Sum_probs=26.1

Q ss_pred             HHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHH
Q 045657          185 KEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..|.++|..+=....+.-|+|.+|+|||.||-.+.=
T Consensus        25 ~~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~   60 (256)
T PF08423_consen   25 KSLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAV   60 (256)
T ss_dssp             HHHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             HHHHHhhCCCCCCCcEEEEEEecccccchHHHHHHH
Confidence            455556644334456899999999999999987653

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 ....

>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase

Probab=89.36  E-value=0.45  Score=43.74  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....+|-++|..|.||||+|+.++..
T Consensus       367 ~~p~LVil~G~pGSGKST~A~~l~~~  392 (526)
T TIGR01663       367 APCEMVIAVGFPGAGKSHFCKKFFQP  392 (526)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999998764

Note that the EC number for the kinase function is: 2.7.1.78

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=89.35  E-value=0.65  Score=42.32  Aligned_cols=40  Identities=20%  Similarity=0.219  Sum_probs=31.1

Q ss_pred             hhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          182 SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+..+.++|..+=....++-|.|.+|+|||||+.++...
T Consensus       247 tGi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~  286 (484)
T TIGR02655       247 SGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLEN  286 (484)
T ss_pred             CChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3456677777665556778889999999999999987554

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.

>cd01882 BMS1 Bms1

Probab=89.31  E-value=0.38  Score=39.08  Aligned_cols=25  Identities=24%  Similarity=0.449  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+|+|+|..|.|||||.+.+...
T Consensus        38 ~~~~i~ivG~~~~GKstl~~~l~~~   62 (225)
T cd01882          38 PPLVVAVVGPPGVGKTTLIKSLVKN   62 (225)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4678999999999999999887654

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=89.29  E-value=0.73  Score=39.22  Aligned_cols=52  Identities=25%  Similarity=0.273  Sum_probs=38.2

Q ss_pred             ccCcccccchhHHH---HHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          173 YKNQLVGVESRVKE---IESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       173 ~~~~~~g~~~~~~~---~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .+..++|.+...+.   +.+++....-..|.+-+-|..|.|||+||-++-..+..
T Consensus        36 ~~~g~vGQ~~AReAagiivdlik~KkmaGravLlaGppgtGKTAlAlaisqELG~   90 (456)
T KOG1942|consen   36 VAAGFVGQENAREAAGIIVDLIKSKKMAGRAVLLAGPPGTGKTALALAISQELGP   90 (456)
T ss_pred             cccccccchhhhhhhhHHHHHHHhhhccCcEEEEecCCCCchhHHHHHHHHHhCC
Confidence            46788998765543   35555544444677788899999999999999888654

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=89.29  E-value=0.33  Score=44.57  Aligned_cols=25  Identities=32%  Similarity=0.428  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+...
T Consensus        49 ~GEivgIiGpNGSGKSTLLkiLaGL   73 (549)
T PRK13545         49 EGEIVGIIGLNGSGKSTLSNLIAGV   73 (549)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            3568999999999999999998764

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=89.23  E-value=0.32  Score=46.20  Aligned_cols=24  Identities=29%  Similarity=0.338  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||++.+..
T Consensus       478 ~Ge~vaIvG~sGsGKSTLlklL~g  501 (686)
T TIGR03797       478 PGEFVAIVGPSGSGKSTLLRLLLG  501 (686)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            456899999999999999998754

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

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=89.18  E-value=0.39  Score=41.34  Aligned_cols=24  Identities=33%  Similarity=0.422  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+.|.|..|.||||+++++...
T Consensus       148 ~~~ilI~G~tGSGKTTll~aL~~~  171 (319)
T PRK13894        148 HRNILVIGGTGSGKTTLVNAIINE  171 (319)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh
Confidence            346778899999999999998765

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.16  E-value=0.44  Score=41.84  Aligned_cols=27  Identities=22%  Similarity=0.167  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...||-++|..|.||||.+..+...++
T Consensus       100 kpsVimfVGLqG~GKTTtc~KlA~y~k  126 (483)
T KOG0780|consen  100 KPSVIMFVGLQGSGKTTTCTKLAYYYK  126 (483)
T ss_pred             CCcEEEEEeccCCCcceeHHHHHHHHH
Confidence            468999999999999999987655443

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=89.16  E-value=0.64  Score=41.78  Aligned_cols=52  Identities=23%  Similarity=0.291  Sum_probs=42.2

Q ss_pred             CccCcccccchhHHHHHHHhhc--CCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          172 NYKNQLVGVESRVKEIESLLGA--ESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~--~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+..+.||+.++..+.+++..  +.+....+-|.|.+|.|||.+...++.+..
T Consensus       147 ~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~  200 (529)
T KOG2227|consen  147 APPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLS  200 (529)
T ss_pred             CCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhh
Confidence            3467899999999999998863  234466778889999999999999998754

>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=89.13  E-value=0.35  Score=41.21  Aligned_cols=23  Identities=39%  Similarity=0.577  Sum_probs=19.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ...+.||+|..|-|||||.|.+-
T Consensus        31 ~GeI~GIIG~SGAGKSTLiR~iN   53 (339)
T COG1135          31 KGEIFGIIGYSGAGKSTLLRLIN   53 (339)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHh
Confidence            45589999999999999999763

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=89.12  E-value=0.41  Score=45.83  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++++|..|+||||++..+...+
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~  209 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC  209 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH
Confidence            4799999999999999998876553

>PRK15115 response regulator GlrR; Provisional

Probab=89.08  E-value=0.6  Score=41.72  Aligned_cols=46  Identities=20%  Similarity=0.185  Sum_probs=30.9

Q ss_pred             cccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          176 QLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .++|....+..+.+....-...-..+-|.|..|+|||++|+.+++.
T Consensus       135 ~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~  180 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNA  180 (444)
T ss_pred             cccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHh
Confidence            4677666665555544322222234568999999999999999876

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=89.03  E-value=0.35  Score=45.70  Aligned_cols=25  Identities=32%  Similarity=0.348  Sum_probs=21.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      -+.++|..|.|||++|+.+.+....
T Consensus       187 gill~G~~G~GKt~~~~~~a~~~~~  211 (644)
T PRK10733        187 GVLMVGPPGTGKTLLAKAIAGEAKV  211 (644)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHcCC
Confidence            3788999999999999999887543

>smart00350 MCM minichromosome maintenance proteins

Probab=89.00  E-value=0.73  Score=42.28  Aligned_cols=48  Identities=19%  Similarity=0.138  Sum_probs=33.4

Q ss_pred             cCcccccchhHHHHHHHhhcCC-----CCeE-----EEEEEcCCCchHHHHHHHHHHH
Q 045657          174 KNQLVGVESRVKEIESLLGAES-----KYVY-----TLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~-----~~~~-----~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+.+.|.+..+..+.-.|..+.     ++.+     -|-++|-.|+|||+||+.+++-
T Consensus       202 ~p~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~  259 (509)
T smart00350      202 APSIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKT  259 (509)
T ss_pred             CccccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHH
Confidence            5678888876666655554332     1111     3668899999999999999874

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=88.95  E-value=0.6  Score=36.36  Aligned_cols=24  Identities=25%  Similarity=0.566  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++++|++++|||||.+.+.+.
T Consensus       117 ~~~~~~vG~pnvGKSslin~l~~~  140 (172)
T cd04178         117 SITVGVVGFPNVGKSSLINSLKRS  140 (172)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCc
Confidence            346889999999999999988764

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=88.95  E-value=0.36  Score=39.78  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=18.2

Q ss_pred             EEEEEcCCCchHHHHHHHHHHH
Q 045657          200 TLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      =..|+|..|.|||||.+.+...
T Consensus        59 ~W~I~G~NGsGKTTLL~ll~~~   80 (257)
T COG1119          59 HWAIVGPNGAGKTTLLSLLTGE   80 (257)
T ss_pred             cEEEECCCCCCHHHHHHHHhcc
Confidence            4678899999999999987543

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=88.93  E-value=0.42  Score=44.99  Aligned_cols=27  Identities=30%  Similarity=0.359  Sum_probs=23.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...++-+.|+.|.||||+|+++.+.+.
T Consensus       459 ~~~~i~~~G~~gsGKst~a~~l~~~l~  485 (632)
T PRK05506        459 KPATVWFTGLSGSGKSTIANLVERRLH  485 (632)
T ss_pred             CcEEEEecCCCCchHHHHHHHHHHHHH
Confidence            367889999999999999999988753

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=88.90  E-value=0.52  Score=40.94  Aligned_cols=26  Identities=27%  Similarity=0.267  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+.|.|..|.||||+.+++.+.+.
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~  147 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYIN  147 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhC
Confidence            35688999999999999999887653

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>COG4778 PhnL ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=88.82  E-value=0.45  Score=37.35  Aligned_cols=26  Identities=23%  Similarity=0.369  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++.+.|..|.||+||.+..|..+
T Consensus        36 aGECvvL~G~SG~GKStllr~LYaNY   61 (235)
T COG4778          36 AGECVVLHGPSGSGKSTLLRSLYANY   61 (235)
T ss_pred             CccEEEeeCCCCCcHHHHHHHHHhcc
Confidence            45688899999999999999999863

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=88.67  E-value=0.36  Score=46.02  Aligned_cols=25  Identities=28%  Similarity=0.380  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+..-
T Consensus       499 ~G~~vaIvG~SGsGKSTLlklL~gl  523 (708)
T TIGR01193       499 MNSKTTIVGMSGSGKSTLAKLLVGF  523 (708)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3468999999999999999987553

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.

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=88.67  E-value=0.39  Score=45.87  Aligned_cols=26  Identities=23%  Similarity=0.256  Sum_probs=22.2

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .....++|+|..|.|||||++.+.+-
T Consensus       505 ~~Ge~vaIvG~SGsGKSTLl~lL~gl  530 (711)
T TIGR00958       505 HPGEVVALVGPSGSGKSTVAALLQNL  530 (711)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            34568999999999999999988664

>COG1162 Predicted GTPases [General function prediction only]

Probab=88.64  E-value=0.58  Score=39.74  Aligned_cols=35  Identities=26%  Similarity=0.485  Sum_probs=26.6

Q ss_pred             hhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          182 SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+++|..+|..     ++..+.|-.|+|||||.+++-..
T Consensus       153 ~~~~~l~~~l~~-----~~svl~GqSGVGKSSLiN~L~p~  187 (301)
T COG1162         153 DGLEELAELLAG-----KITVLLGQSGVGKSTLINALLPE  187 (301)
T ss_pred             ccHHHHHHHhcC-----CeEEEECCCCCcHHHHHHhhCch
Confidence            346777777752     26777899999999999987643

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=88.58  E-value=0.9  Score=41.60  Aligned_cols=39  Identities=15%  Similarity=0.133  Sum_probs=28.7

Q ss_pred             hhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHH
Q 045657          182 SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+..|.++|..+=...+++-|.|-+|.|||+||..+..
T Consensus        15 TGI~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~qf~~   53 (509)
T PRK09302         15 TGIEGFDDITHGGLPKGRPTLVSGTAGTGKTLFALQFLV   53 (509)
T ss_pred             CCchhHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHH
Confidence            334555566654545577899999999999999998643

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=88.54  E-value=0.32  Score=44.47  Aligned_cols=47  Identities=32%  Similarity=0.352  Sum_probs=34.9

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      -.+++|.+.-+..|...+..+.- ..---..|..|+||||+||.+...
T Consensus        15 F~evvGQe~v~~~L~nal~~~ri-~hAYlfsG~RGvGKTt~Ari~Aka   61 (515)
T COG2812          15 FDDVVGQEHVVKTLSNALENGRI-AHAYLFSGPRGVGKTTIARILAKA   61 (515)
T ss_pred             HHHhcccHHHHHHHHHHHHhCcc-hhhhhhcCCCCcCchhHHHHHHHH
Confidence            46779999888888888875431 122234599999999999988765

>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family

Probab=88.49  E-value=0.4  Score=44.18  Aligned_cols=25  Identities=40%  Similarity=0.424  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+...
T Consensus       343 ~G~~~~ivG~sGsGKSTL~~ll~g~  367 (544)
T TIGR01842       343 AGEALAIIGPSGSGKSTLARLIVGI  367 (544)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999988654

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.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=88.46  E-value=0.61  Score=40.53  Aligned_cols=38  Identities=18%  Similarity=0.260  Sum_probs=28.3

Q ss_pred             hhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHH
Q 045657          182 SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      .....|.++|..+-....++-|+|.+|+|||+||-.+.
T Consensus       107 tG~~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~  144 (342)
T PLN03186        107 TGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLC  144 (342)
T ss_pred             CCCHHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHH
Confidence            33455666666544557788899999999999998655

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=88.45  E-value=0.38  Score=45.83  Aligned_cols=25  Identities=28%  Similarity=0.286  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+..-
T Consensus       504 ~Ge~vaIvG~sGsGKSTLlklL~gl  528 (710)
T TIGR03796       504 PGQRVALVGGSGSGKSTIAKLVAGL  528 (710)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999987543

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=88.44  E-value=0.7  Score=38.03  Aligned_cols=25  Identities=16%  Similarity=-0.041  Sum_probs=20.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++-|.|.+|.|||+++-.+...
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~   87 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVE   87 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            4557778899999999999986443

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=88.38  E-value=0.8  Score=42.80  Aligned_cols=26  Identities=35%  Similarity=0.382  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+.+-|+|-.|+|||.|++++.+.+.
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~~a~  339 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGHYAR  339 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHH
Confidence            45688999999999999999998753

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=88.26  E-value=0.57  Score=41.89  Aligned_cols=46  Identities=20%  Similarity=0.274  Sum_probs=32.8

Q ss_pred             CcccccchhHHHHHHHhhcC-CCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAE-SKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~-~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++|....++++...+..- ..+.. +-|.|-.|+||+++|+.++..
T Consensus       139 ~~lig~s~~~~~l~~~i~~~a~~~~~-vli~Ge~GtGK~~lA~~ih~~  185 (445)
T TIGR02915       139 RGLITSSPGMQKICRTIEKIAPSDIT-VLLLGESGTGKEVLARALHQL  185 (445)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCC-EEEECCCCcCHHHHHHHHHHh
Confidence            35677777777776665432 22333 448999999999999999875

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK13705 plasmid-partitioning protein SopA; Provisional

Probab=88.20  E-value=1.1  Score=39.70  Aligned_cols=26  Identities=19%  Similarity=0.410  Sum_probs=20.4

Q ss_pred             CeEEEEEEc-CCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWG-FGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G-~gG~GKTtla~~v~~~~  222 (227)
                      ..++|+|.. =||+||||+|-.+...+
T Consensus       105 ~~~vIai~n~KGGVGKTT~a~nLA~~L  131 (388)
T PRK13705        105 FPPVIGVAAHKGGVYKTSVSVHLAQDL  131 (388)
T ss_pred             CCeEEEEECCCCCchHHHHHHHHHHHH
Confidence            468888884 49999999998776543

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=88.13  E-value=0.53  Score=38.23  Aligned_cols=24  Identities=25%  Similarity=0.310  Sum_probs=20.4

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ..-.|.++.|..|+||||+.|.+-
T Consensus        31 ~~~~VTAlIGPSGcGKST~LR~lN   54 (253)
T COG1117          31 PKNKVTALIGPSGCGKSTLLRCLN   54 (253)
T ss_pred             cCCceEEEECCCCcCHHHHHHHHH
Confidence            456789999999999999999753

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

Probab=88.08  E-value=0.51  Score=37.86  Aligned_cols=21  Identities=33%  Similarity=0.408  Sum_probs=17.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHH
Q 045657          200 TLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~  220 (227)
                      .+.+.|..|+|||||.+.+..
T Consensus        33 ~vv~lGpSGcGKTTLLnl~AG   53 (259)
T COG4525          33 LVVVLGPSGCGKTTLLNLIAG   53 (259)
T ss_pred             EEEEEcCCCccHHHHHHHHhc
Confidence            567789999999999987653

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=88.07  E-value=0.42  Score=44.46  Aligned_cols=25  Identities=28%  Similarity=0.251  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+..-
T Consensus       360 ~G~~v~IvG~sGsGKSTLl~lL~gl  384 (588)
T PRK13657        360 PGQTVAIVGPTGAGKSTLINLLQRV  384 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4467999999999999999987543

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=88.05  E-value=0.42  Score=44.40  Aligned_cols=24  Identities=25%  Similarity=0.392  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||++.+..
T Consensus       375 ~G~~vaIvG~SGsGKSTL~~lL~g  398 (588)
T PRK11174        375 AGQRIALVGPSGAGKTSLLNALLG  398 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            456899999999999999998754

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

Probab=87.98  E-value=0.64  Score=36.31  Aligned_cols=23  Identities=35%  Similarity=0.286  Sum_probs=19.6

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHh
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      +.-|.|.+|+||||++-.+.-.+
T Consensus        34 l~~i~g~~g~GKT~~~~~l~~~~   56 (193)
T PF13481_consen   34 LTLIAGPPGSGKTTLALQLAAAL   56 (193)
T ss_dssp             EEEEEECSTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            67788999999999999876663

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=87.91  E-value=1.1  Score=34.17  Aligned_cols=42  Identities=24%  Similarity=0.180  Sum_probs=29.5

Q ss_pred             hhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          182 SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+..++-+.|...-..--||-+-|-=|.|||||+|.+...+.
T Consensus         9 ~~t~~lg~~l~~~l~~g~Vv~L~GdLGAGKTtf~rgi~~~Lg   50 (149)
T COG0802           9 EATLALGERLAEALKAGDVVLLSGDLGAGKTTLVRGIAKGLG   50 (149)
T ss_pred             HHHHHHHHHHHhhCCCCCEEEEEcCCcCChHHHHHHHHHHcC
Confidence            344445444543333456888999999999999999887643

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=87.89  E-value=0.44  Score=43.66  Aligned_cols=24  Identities=21%  Similarity=0.302  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||++.+..
T Consensus       347 ~G~~~~ivG~sGsGKSTL~~ll~g  370 (529)
T TIGR02857       347 PGERVALVGPSGAGKSTLLNLLLG  370 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            456899999999999999998765

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

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

Probab=87.85  E-value=0.79  Score=38.65  Aligned_cols=36  Identities=25%  Similarity=0.300  Sum_probs=27.0

Q ss_pred             HHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          186 EIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       186 ~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .|.++|..+-...+++-|+|..|.||||||-++.-.
T Consensus        48 ~LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~   83 (279)
T COG0468          48 ALDEALGGGLPRGRITEIYGPESSGKTTLALQLVAN   83 (279)
T ss_pred             hHHHHhcCCcccceEEEEecCCCcchhhHHHHHHHH
Confidence            344555544455789999999999999999876543

>TIGR03453 partition_RepA plasmid partitioning protein RepA

Probab=87.72  E-value=1.2  Score=39.25  Aligned_cols=26  Identities=27%  Similarity=0.271  Sum_probs=20.4

Q ss_pred             CeEEEEEE-cCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIW-GFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~-G~gG~GKTtla~~v~~~~  222 (227)
                      ..++|+|. .-||+||||+|-.+...+
T Consensus       103 ~~~vI~v~n~KGGvGKTT~a~nLA~~L  129 (387)
T TIGR03453       103 HLQVIAVTNFKGGSGKTTTAAHLAQYL  129 (387)
T ss_pred             CceEEEEEccCCCcCHHHHHHHHHHHH
Confidence            35788887 679999999998876543

Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.

>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional

Probab=87.68  E-value=0.48  Score=43.70  Aligned_cols=25  Identities=28%  Similarity=0.162  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+..-
T Consensus       348 ~G~~~aivG~sGsGKSTL~~ll~g~  372 (547)
T PRK10522        348 RGELLFLIGGNGSGKSTLAMLLTGL  372 (547)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999987653

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=87.67  E-value=0.86  Score=38.27  Aligned_cols=27  Identities=30%  Similarity=0.192  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      +..-++|.|..|.|||||.+.+...+.
T Consensus       110 ~~~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       110 RVLNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             CeeEEEEEcCCCCCHHHHHHHHhCccC
Confidence            456789999999999999999876543

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.

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=87.63  E-value=0.44  Score=44.26  Aligned_cols=25  Identities=20%  Similarity=0.264  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+..-
T Consensus       365 ~G~~~aivG~sGsGKSTL~~ll~g~  389 (574)
T PRK11160        365 AGEKVALLGRTGCGKSTLLQLLTRA  389 (574)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999987654

>PLN02772 guanylate kinase

Probab=87.62  E-value=0.62  Score=41.17  Aligned_cols=26  Identities=23%  Similarity=0.340  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++-|.|..|+||+||++.+..+.
T Consensus       134 ~~k~iVlsGPSGvGKsTL~~~L~~~~  159 (398)
T PLN02772        134 AEKPIVISGPSGVGKGTLISMLMKEF  159 (398)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhhhc
Confidence            46789999999999999999987653

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=87.58  E-value=0.47  Score=45.12  Aligned_cols=24  Identities=25%  Similarity=0.293  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||++.+..
T Consensus       490 ~G~~iaIvG~sGsGKSTLlklL~g  513 (694)
T TIGR03375       490 PGEKVAIIGRIGSGKSTLLKLLLG  513 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999998754

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.

>PRK15494 era GTPase Era; Provisional

Probab=87.58  E-value=0.45  Score=41.23  Aligned_cols=24  Identities=25%  Similarity=0.338  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..-|.|+|.+|+|||||...+...
T Consensus        52 ~~kV~ivG~~nvGKSTLin~l~~~   75 (339)
T PRK15494         52 TVSVCIIGRPNSGKSTLLNRIIGE   75 (339)
T ss_pred             eeEEEEEcCCCCCHHHHHHHHhCC
Confidence            446889999999999999987543

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=87.54  E-value=0.83  Score=39.31  Aligned_cols=28  Identities=25%  Similarity=0.385  Sum_probs=23.2

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ....|+-++|..|+||||-...+.+.++
T Consensus       137 ~~p~Vil~vGVNG~GKTTTIaKLA~~l~  164 (340)
T COG0552         137 KKPFVILFVGVNGVGKTTTIAKLAKYLK  164 (340)
T ss_pred             CCcEEEEEEecCCCchHhHHHHHHHHHH
Confidence            3478999999999999998887777643

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=87.51  E-value=1.1  Score=39.92  Aligned_cols=28  Identities=25%  Similarity=0.252  Sum_probs=23.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ...+|-.+|.-|.||||-|..+.+.+++
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~lkk  126 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYLKK  126 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHHHH
Confidence            3578999999999999999988776543

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=87.47  E-value=0.85  Score=43.83  Aligned_cols=24  Identities=25%  Similarity=0.268  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHh
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ++..|.|.+|.||||+.+.+...+
T Consensus       369 ~~~il~G~aGTGKTtll~~i~~~~  392 (744)
T TIGR02768       369 DIAVVVGRAGTGKSTMLKAAREAW  392 (744)
T ss_pred             CEEEEEecCCCCHHHHHHHHHHHH
Confidence            467799999999999999987654

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=87.47  E-value=0.52  Score=43.56  Aligned_cols=25  Identities=28%  Similarity=0.227  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+...
T Consensus       357 ~G~~v~IvG~sGsGKSTLl~lL~gl  381 (571)
T TIGR02203       357 PGETVALVGRSGSGKSTLVNLIPRF  381 (571)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            3567899999999999999987654

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.

>PHA02519 plasmid partition protein SopA; Reviewed

Probab=87.46  E-value=1.3  Score=39.10  Aligned_cols=40  Identities=20%  Similarity=0.254  Sum_probs=26.6

Q ss_pred             hHHHHHHHhhcC-----CCCeEEEEEE-cCCCchHHHHHHHHHHHh
Q 045657          183 RVKEIESLLGAE-----SKYVYTLGIW-GFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       183 ~~~~~~~~l~~~-----~~~~~~~~i~-G~gG~GKTtla~~v~~~~  222 (227)
                      ++.++.+.+...     .....+|+|. .-||+||||++-.+...+
T Consensus        86 eI~~lr~~~~~~~~r~~~~~~~vIav~n~KGGVGKTTta~nLA~~L  131 (387)
T PHA02519         86 QISHMRDHFGNPNQRPDDKNPVVLAVMSHKGGVYKTSSAVHTAQWL  131 (387)
T ss_pred             HHHHHHHHhhccccCcCCCCceEEEEecCCCCCcHHHHHHHHHHHH
Confidence            445555555321     1336888887 559999999998876553

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=87.44  E-value=0.84  Score=39.92  Aligned_cols=37  Identities=24%  Similarity=0.209  Sum_probs=26.0

Q ss_pred             ccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHH
Q 045657          179 GVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARA  217 (227)
Q Consensus       179 g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~  217 (227)
                      +|..+..-..++|.  ++++..|.+.|.+|.|||-||-+
T Consensus       228 prn~eQ~~ALdlLl--d~dI~lV~L~G~AGtGKTlLALa  264 (436)
T COG1875         228 PRNAEQRVALDLLL--DDDIDLVSLGGKAGTGKTLLALA  264 (436)
T ss_pred             cccHHHHHHHHHhc--CCCCCeEEeeccCCccHhHHHHH
Confidence            34444444445554  34688899999999999998864

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=87.40  E-value=0.47  Score=44.01  Aligned_cols=25  Identities=36%  Similarity=0.363  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+..-
T Consensus       340 ~G~~~~ivG~sGsGKSTLl~ll~g~  364 (569)
T PRK10789        340 PGQMLGICGPTGSGKSTLLSLIQRH  364 (569)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3568999999999999999987654

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=87.35  E-value=0.62  Score=40.14  Aligned_cols=22  Identities=45%  Similarity=0.561  Sum_probs=19.3

Q ss_pred             EEEEcCCCchHHHHHHHHHHHh
Q 045657          201 LGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       201 ~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      +-|.|-.|.||||+++++.+.+
T Consensus       147 ilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        147 IVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999987764

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=87.28  E-value=1.1  Score=37.05  Aligned_cols=46  Identities=17%  Similarity=0.336  Sum_probs=36.1

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      -+.||.+.-.+++...+....=+.+ |.++|-.|.|||||..-.|..
T Consensus        24 lgyvGidtI~~Qm~~k~mk~GF~FN-IMVVgqSglgkstlinTlf~s   69 (336)
T KOG1547|consen   24 LGYVGIDTIIEQMRKKTMKTGFDFN-IMVVGQSGLGKSTLINTLFKS   69 (336)
T ss_pred             cccccHHHHHHHHHHHHHhccCceE-EEEEecCCCCchhhHHHHHHH
Confidence            4789999999999877664443443 457899999999999988765

>TIGR00368 Mg chelatase-related protein

Probab=87.26  E-value=0.63  Score=42.58  Aligned_cols=43  Identities=21%  Similarity=0.233  Sum_probs=29.8

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHH
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..++.|...-++.+.-.+.    +...+.+.|..|.||||||+.+..
T Consensus       191 ~~dv~Gq~~~~~al~~aa~----~g~~vlliG~pGsGKTtlar~l~~  233 (499)
T TIGR00368       191 LKDIKGQQHAKRALEIAAA----GGHNLLLFGPPGSGKTMLASRLQG  233 (499)
T ss_pred             HHHhcCcHHHHhhhhhhcc----CCCEEEEEecCCCCHHHHHHHHhc
Confidence            3566776655544433332    335688899999999999998875

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]

Probab=87.19  E-value=0.63  Score=38.64  Aligned_cols=26  Identities=31%  Similarity=0.459  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+|-|=|..|+||||+|..+.+++.
T Consensus        89 p~IILIGGasGVGkStIA~ElA~rLg  114 (299)
T COG2074          89 PLIILIGGASGVGKSTIAGELARRLG  114 (299)
T ss_pred             CeEEEecCCCCCChhHHHHHHHHHcC
Confidence            45666669999999999999998843

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

Probab=87.10  E-value=0.88  Score=37.88  Aligned_cols=47  Identities=26%  Similarity=0.461  Sum_probs=32.8

Q ss_pred             Ccccc-cchhHHHHHHHhhcCC-----------CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVG-VESRVKEIESLLGAES-----------KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g-~~~~~~~~~~~l~~~~-----------~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      -.++| .+.+.+++.+.+...-           .+..=+-++|..|.|||-||++|++.
T Consensus       146 YeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahh  204 (404)
T KOG0728|consen  146 YEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHH  204 (404)
T ss_pred             HHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhh
Confidence            45665 4667777766654321           22344557899999999999999986

>PRK13869 plasmid-partitioning protein RepA; Provisional

Probab=87.08  E-value=1.4  Score=39.18  Aligned_cols=25  Identities=24%  Similarity=0.227  Sum_probs=20.1

Q ss_pred             CeEEEEEE-cCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIW-GFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~-G~gG~GKTtla~~v~~~  221 (227)
                      ...+|+|. .-||+||||+|-.+...
T Consensus       120 ~~~vIav~n~KGGvGKTTta~nLA~~  145 (405)
T PRK13869        120 HLQVIAVTNFKGGSGKTTTSAHLAQY  145 (405)
T ss_pred             CceEEEEEcCCCCCCHHHHHHHHHHH
Confidence            45788888 56999999999876654

>KOG2702 consensus Predicted panthothenate kinase/uridine kinase-related protein [Nucleotide transport and metabolism; Coenzyme transport and metabolism]

Probab=87.00  E-value=0.96  Score=37.15  Aligned_cols=27  Identities=30%  Similarity=0.258  Sum_probs=24.3

Q ss_pred             CCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          195 SKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       195 ~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ++.-+.+|+.|-+|.||+|++.+|-++
T Consensus       116 ~n~~~l~glag~pGtgkst~~a~v~~a  142 (323)
T KOG2702|consen  116 SNNEELTGLAGRPGTGKSTRIAAVDNA  142 (323)
T ss_pred             ccchheeeeecCCCCcchhHHHHHHhh
Confidence            456789999999999999999999886

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=86.93  E-value=0.54  Score=43.81  Aligned_cols=24  Identities=33%  Similarity=0.311  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||++.+..
T Consensus       360 ~G~~~~ivG~sGsGKSTL~~ll~g  383 (585)
T TIGR01192       360 AGQTVAIVGPTGAGKTTLINLLQR  383 (585)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcc
Confidence            456899999999999999998754

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.

>PRK12269 bifunctional cytidylate kinase/ribosomal protein S1; Provisional

Probab=86.91  E-value=0.66  Score=45.20  Aligned_cols=25  Identities=20%  Similarity=0.456  Sum_probs=22.7

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+|+|-|.+|.||||+|+.+...+.
T Consensus        35 ~~i~idG~~gsGKst~~~~la~~l~   59 (863)
T PRK12269         35 VIIALDGPAGSGKSSVCRLLASRLG   59 (863)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            6899999999999999999988754

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=86.88  E-value=0.59  Score=43.29  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+..-
T Consensus       365 ~Ge~i~IvG~sGsGKSTLlklL~gl  389 (576)
T TIGR02204       365 PGETVALVGPSGAGKSTLFQLLLRF  389 (576)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            4567999999999999999988764

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=86.85  E-value=0.55  Score=43.69  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....++|+|..|.|||||++.+..-
T Consensus       366 ~Ge~iaIvG~SGsGKSTLl~lL~gl  390 (592)
T PRK10790        366 SRGFVALVGHTGSGKSTLASLLMGY  390 (592)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4568999999999999999988654

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=86.68  E-value=0.47  Score=43.35  Aligned_cols=24  Identities=38%  Similarity=0.494  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+-.||+|.+|.||||+.+++|.+
T Consensus       101 g~rygLiG~nG~Gkst~L~~i~~~  124 (614)
T KOG0927|consen  101 GRRYGLIGPNGSGKSTFLRAIAGR  124 (614)
T ss_pred             CceEEEEcCCCCcHhHHHHHHhcC
Confidence            456899999999999999999986

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=86.66  E-value=0.46  Score=42.59  Aligned_cols=24  Identities=33%  Similarity=0.504  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .|--|++|..|.|||||.++|..+
T Consensus       290 GRRYGLVGPNG~GKTTLLkHIa~R  313 (807)
T KOG0066|consen  290 GRRYGLVGPNGMGKTTLLKHIAAR  313 (807)
T ss_pred             cceecccCCCCCchHHHHHHHHhh
Confidence            356789999999999999999887

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	227
3jrn_A	176	Crystal Structure Of Tir Domain From Arabidopsis Th		2e-30
3ozi_A	204	Crystal Structure Of The Tir Domain From The Flax D		9e-30

>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana Length = 176

Iteration: 1
 Score =  128 bits (322), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 69/144 (47%), Positives = 89/144 (61%), Gaps = 3/144 (2%)
Query: 15  NKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDD-QLNRGDEISQSLVYAIENSAIS 73
            KYDVFLSFRG DTR NF S LY  L  +SI+TF DD +L  G   S  L   IE S  +
Sbjct: 7   TKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFA 66
Query: 74  LIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEE 133
           +++ SE YA+S WCLDELV I+  +++ +  V+P+FY V+P+ VR QTG   + F K   
Sbjct: 67  VVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHAS 126
Query: 134 RFKENSEKLKSWRNALKEAASFSG 157
           R  E+ EK+  WR AL   A  SG
Sbjct: 127 R--EDPEKVLKWRQALTNFAQLSG 148

>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease Resistance Protein L6 Length = 204

Iteration: 1
 Score =  126 bits (317), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 65/145 (44%), Positives = 97/145 (66%), Gaps = 4/145 (2%)
Query: 16  KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTF-IDDQLNRGDEISQSLVYAIENSAISL 74
           +Y+VFLSFRG DTR+ FT  LY +L    I TF  DD+L +G EI  +L+ AI+ S I +
Sbjct: 35  EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 75  IIFSEGYASSRWCLDELVKILQCKREYA-QIVIPVFYRVDPSDVRNQTGPFGDSFSKLEE 133
            I S GYA S+WCL EL +I++ + E   +I++P+FY VDPSDVR+QTG +  +F K   
Sbjct: 95  PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 134 RFKENSEKLKSWRNALKEAASFSGF 158
           +F  + + +++W++ALK+     G+
Sbjct: 155 KF--DGQTIQNWKDALKKVGDLKGW 177

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	227
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	9e-89
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	3e-88
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	4e-72
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	1e-16
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	5e-08
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	1e-07
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	8e-07
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum} Length = 204

 Score =  259 bits (664), Expect = 9e-89
 Identities = 68/166 (40%), Positives = 105/166 (63%), Gaps = 5/166 (3%)

Query: 1   MASSSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQ-LNRGDEI 59
           ++ S++ S S  ++ +Y+VFLSFRG DTR+ FT  LY +L    I TF DD  L +G EI
Sbjct: 21  ISDSTNPSGSFPSV-EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEI 79

Query: 60  SQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREY-AQIVIPVFYRVDPSDVR 118
             +L+ AI+ S I + I S GYA S+WCL EL +I++ + E   +I++P+FY VDPSDVR
Sbjct: 80  GPNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVR 139

Query: 119 NQTGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFR 164
           +QTG +  +F K   +F  + + +++W++ALK+     G+      
Sbjct: 140 HQTGCYKKAFRKHANKF--DGQTIQNWKDALKKVGDLKGWHIGKND 183

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana} Length = 176

 Score =  257 bits (659), Expect = 3e-88
 Identities = 71/163 (43%), Positives = 96/163 (58%), Gaps = 11/163 (6%)

Query: 1   MASSSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQ-LNRGDEI 59
           M+S +++        KYDVFLSFRG DTR NF S LY  L  +SI+TF DD+ L  G   
Sbjct: 1   MSSHTAT--------KYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRF 52

Query: 60  SQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRN 119
           S  L   IE S  ++++ SE YA+S WCLDELV I+  +++ +  V+P+FY V+P+ VR 
Sbjct: 53  SPELKSPIEVSRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRW 112

Query: 120 QTGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQN 162
           QTG   + F K   R   + EK+  WR AL   A  SG  S +
Sbjct: 113 QTGVLAEQFKKHASRE--DPEKVLKWRQALTNFAQLSGDCSGD 153

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222} Length = 154

 Score =  215 bits (550), Expect = 4e-72
 Identities = 25/149 (16%), Positives = 64/149 (42%), Gaps = 4/149 (2%)

Query: 2   ASSSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQ-LNRGDEIS 60
            +  +++    +   +D+F+S   ED + +F   L   L     + + DD  L  GD + 
Sbjct: 6   TAGPTTNADLTSAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLR 64

Query: 61  QSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQ 120
           +S+   + +S   +++ S  +    W   EL  + Q +      ++P++++V   +V + 
Sbjct: 65  RSIDKGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEVASF 124

Query: 121 TGPFGDSFSKLEERFKENSEKLKSWRNAL 149
           +    D  +        + +++ +   A+
Sbjct: 125 SPTMADKLAFNTSTK--SVDEIVADLMAI 151

>3ub2_A TOLL/interleukin-1 receptor domain-containing ADA protein; TIR domain, TLRS adaptor, immune system; 2.40A {Homo sapiens} PDB: 3ub3_A 3ub4_A 2y92_A Length = 146

 Score = 73.2 bits (180), Expect = 1e-16
 Identities = 24/112 (21%), Positives = 43/112 (38%), Gaps = 5/112 (4%)

Query: 10  SPRNINKYDVFLSFRGEDTRDNFTSHLYSAL--SLKSIQTFIDDQ-LNRGDEISQSLVYA 66
           S R    YDV +    ED        L S L  S  S++ F+  +    G  I   L  A
Sbjct: 4   SSRWSKDYDVCVCHSEEDLV--AAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQA 61

Query: 67  IENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVR 118
           + +S   +++ + G+    WC  ++++ L          IP+   +  +   
Sbjct: 62  LSSSHCRVLLITPGFLQDPWCKYQMLQALTEAPGAEGCTIPLLSGLSRAAYP 113

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score = 51.8 bits (124), Expect = 5e-08
 Identities = 15/96 (15%), Positives = 29/96 (30%), Gaps = 4/96 (4%)

Query: 129 SKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFRLAEMSPRNYKNQL----VGVESRV 184
           + L E +K+ +  L      +  ++           +  +       Q     V  +  V
Sbjct: 74  ALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFVTRKKLV 133

Query: 185 KEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFD 220
             I+  L         + I G  G GK+ +A     
Sbjct: 134 NAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVR 169

>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity, immune response, leucine-rich repeat, glycoprotein, transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A Length = 178

 Score = 49.2 bits (117), Expect = 1e-07
 Identities = 22/103 (21%), Positives = 40/103 (38%), Gaps = 5/103 (4%)

Query: 16  KYDVFLSFRGEDTRDNFTSHLYSAL--SLKSIQTFIDDQ-LNRGDEISQSLVYAIENSAI 72
           ++  F+S+   D      + L   L     SI   + +   + G  IS+++V  IE S  
Sbjct: 35  RFHAFISYSEHD-SLWVKNELIPNLEKEDGSILICLYESYFDPGKSISENIVSFIEKSYK 93

Query: 73  SLIIFSEGYASSRWCLDELVKILQCK-REYAQIVIPVFYRVDP 114
           S+ + S  +  + WC  E          E +  +I +     P
Sbjct: 94  SIFVLSPNFVQNEWCHYEFYFAHHNLFHENSDHIILILLEPIP 136

>1t3g_A X-linked interleukin-1 receptor accessory protein-like 1; TIR, IL-1RAPL, IL-1R, TLR, membrane protein; 2.30A {Homo sapiens} Length = 159

 Score = 46.6 bits (110), Expect = 8e-07
 Identities = 20/119 (16%), Positives = 37/119 (31%), Gaps = 14/119 (11%)

Query: 16  KYDVFLSFRGEDTR---------DNFTSHLYSAL--SLKSIQTFIDD-QLNRGDEISQSL 63
            YD +LS+   D           + F   +   +       + FI D  L       + +
Sbjct: 2   DYDAYLSYTKVDPDQWNQETGEEERFALEILPDMLEKHYGYKLFIPDRDLIPTGTYIEDV 61

Query: 64  VYAIENSAISLIIFSEGYA-SSRWCLDELVKILQ-CKREYAQIVIPVFYRVDPSDVRNQ 120
              ++ S   +I+ +  Y     W + EL   L+         VI +        +  Q
Sbjct: 62  ARCVDQSKRLIIVMTPNYVVRRGWSIFELETRLRNMLVTGEIKVILIECSELRGIMNYQ 120

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score = 47.3 bits (112), Expect = 1e-06
 Identities = 17/108 (15%), Positives = 36/108 (33%), Gaps = 9/108 (8%)

Query: 126 DSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFRLAEMS---PRNYKNQLVGVES 182
           ++ S L +  ++  +   +  + L+       F  Q      +    P+  +      E 
Sbjct: 78  NNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPK--QMTCYIREY 135

Query: 183 RVKEI-ESLLGAESKYVYTLGIWGFGGIGKTTIARAIF---DKISSNF 226
            V  + + L        + L + G  G GK+ IA       D++    
Sbjct: 136 HVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGIN 183

>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 = 46.0 bits (108), Expect = 4e-06
 Identities = 39/211 (18%), Positives = 66/211 (31%), Gaps = 47/211 (22%)

Query: 27  DTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRW 86
           D       + Y  +       F+D+  +  D +       +    I   I     A S  
Sbjct: 8   DFETGEHQYQYKDILSVFEDAFVDN-FDCKD-VQDMPKSILSKEEID-HIIMSKDAVSG- 63

Query: 87  CLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKE---NSEKLK 143
               L   L  K+E  ++V   F  V+     N    +    S ++   ++    +    
Sbjct: 64  -TLRLFWTLLSKQE--EMV-QKF--VEEVLRIN----YKFLMSPIKTEQRQPSMMTRMYI 113

Query: 144 SWRNALKEAASFSGFDSQNFRLAEMSPRNYKNQLVGVESRVKEIESLLGA-----ESKYV 198
             R+ L         D+Q F     +  N       V SR++    L  A      +K V
Sbjct: 114 EQRDRLYN-------DNQVF-----AKYN-------V-SRLQPYLKLRQALLELRPAKNV 153

Query: 199 YTLGIWGFGGIGKTTIARAI--FDKISSNFE 227
               I G  G GKT +A  +    K+    +
Sbjct: 154 ---LIDGVLGSGKTWVALDVCLSYKVQCKMD 181

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	227
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	100.0
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	100.0
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	99.97
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	99.94
2js7_A	160	Myeloid differentiation primary response protein M	99.9
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	99.89
1fyx_A	149	TOLL-like receptor 2; beta-alpha-beta fold, signal	99.89
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	99.89
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.71
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.01
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	98.84
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	98.82
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	98.61
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.0
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.98
1eiw_A	111	Hypothetical protein MTH538; CHEY-like fold, flavo	97.97
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.92
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.86
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.84
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	97.78
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.76
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.74
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.72
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.62
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.53
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.43
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.43
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.38
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.38
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.29
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	97.23
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.22
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.21
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.21
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.15
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.11
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.07
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.05
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.04
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.04
3co5_A	143	Putative two-component system transcriptional RES	97.03
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.0
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.0
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.94
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.94
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	96.93
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.93
3pvs_A	447	Replication-associated recombination protein A; ma	96.92
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.92
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.91
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.91
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.9
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.89
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.84
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.81
3bos_A	242	Putative DNA replication factor; P-loop containing	96.73
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.71
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.68
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.63
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.62
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.61
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.6
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.55
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.54
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.52
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.49
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.49
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.46
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.4
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.4
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.39
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.38
3hyn_A	189	Putative signal transduction protein; DUF1863 fami	96.37
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.34
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.34
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.34
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.33
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.32
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.32
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.31
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.27
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.24
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.2
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	95.98
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.87
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	95.83
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.82
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.78
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.76
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.76
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.72
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.67
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.59
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.54
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.54
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.46
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.44
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.37
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.36
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.35
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.33
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.32
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.31
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.3
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.26
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.21
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.21
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.18
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.17
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.16
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.15
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.11
2qgz_A	308	Helicase loader, putative primosome component; str	95.07
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.06
2xxa_A	433	Signal recognition particle protein; protein trans	95.06
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	94.99
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.95
2og2_A	359	Putative signal recognition particle receptor; nuc	94.91
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.91
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.9
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.77
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.71
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.69
1g6h_A	257	High-affinity branched-chain amino acid transport	94.64
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	94.61
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.61
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.61
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	94.61
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.59
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.59
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.57
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.54
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.49
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	94.48
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	94.45
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	94.44
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	94.44
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.43
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.4
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	94.4
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.39
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	94.39
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.39
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.37
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.34
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.32
3end_A	307	Light-independent protochlorophyllide reductase ir	94.32
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.31
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	94.3
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.29
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.26
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.22
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.16
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	94.12
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.07
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	93.87
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.83
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	93.8
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	93.75
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.7
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	93.64
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	93.59
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.5
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.5
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	93.48
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.45
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.45
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	93.38
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	93.33
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.28
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.25
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	93.11
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.07
1u94_A	356	RECA protein, recombinase A; homologous recombinat	92.93
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	92.92
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	92.91
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	92.91
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	92.9
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	92.56
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	92.51
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	92.4
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	92.4
2ewv_A	372	Twitching motility protein PILT; pilus retraction	92.39
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	92.38
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	92.38
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.36
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	92.36
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	92.25
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	92.15
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	92.14
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	92.05
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	92.02
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	92.0
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.93
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	91.86
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	91.7
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	91.67
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	91.61
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	91.56
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	91.51
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	91.47
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	91.46
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	91.42
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	91.32
2r6a_A	454	DNAB helicase, replicative helicase; replication,	91.25
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	91.15
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	91.09
1p9r_A	418	General secretion pathway protein E; bacterial typ	91.07
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	91.06
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	90.98
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	90.97
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	90.93
2z43_A	324	DNA repair and recombination protein RADA; archaea	90.81
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	90.79
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	90.76
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	90.69
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	90.18
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	89.98
1xp8_A	366	RECA protein, recombinase A; recombination, radior	89.94
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	89.94
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	89.87
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	89.87
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	89.72
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	89.67
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	89.63
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	89.62
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	89.38
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	89.27
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	89.26
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	89.17
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	89.16
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	89.12
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	88.74
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	88.51
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	88.41
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	88.38
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	88.36
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	88.26
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	88.15
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	88.11
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	88.03
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	87.92
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	87.9
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	87.8
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	87.75
3ice_A	422	Transcription termination factor RHO; transcriptio	87.68
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	87.61
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	87.49
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	86.75
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	86.69
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	86.62
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	86.43
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	86.38
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	85.96
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	85.78
1of1_A	376	Thymidine kinase; transferase, antiviral drug, enz	85.32
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	85.22
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	84.89
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	84.74
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	84.69
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	84.45
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	84.4
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	83.98
2f62_A	161	Nucleoside 2-deoxyribosyltransferase; SGPP, struct	83.87
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	83.34
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	83.31
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	83.3
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	83.04
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	82.48
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	82.46
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	82.18
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	82.15
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	82.09
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	81.96
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	81.89
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	81.71
3l0o_A	427	Transcription termination factor RHO; helicase, RH	81.11
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	81.1
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	81.07
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	80.73

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum}

Probab=100.00  E-value=2.9e-44  Score=283.17  Aligned_cols=158  Identities=42%  Similarity=0.756  Sum_probs=138.9

Q ss_pred             CCCCCCCCCCCCcccEEEccccccCCccHHHHHHHHHhhCCCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcc
Q 045657            4 SSSSSLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYA   82 (227)
Q Consensus         4 ~~~~~~s~~~~~~~dvFISy~~~D~~~~~~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~   82 (227)
                      ++++|+++.+.++|||||||+++|+++.|+.+|+++|+++||++|+|+ ++++|+.|.++|.++|++|+++|+|||++|+
T Consensus        23 ~s~~~s~~~~~~~yDVFISfrg~D~r~~Fv~~L~~aL~~~GI~~f~D~~el~~G~~I~~~l~~aIe~Sri~IvV~S~nYa  102 (204)
T 3ozi_A           23 DSTNPSGSFPSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGYA  102 (204)
T ss_dssp             -----------CCCCEEEEECHHHHTTTHHHHHHHHHHHTTCCEEEEETTTCCGGGTTTTHHHHHHHCSEEEEEECTTGG
T ss_pred             cCCCCcCCCCCcCCeEEEeccccCCCHHHHHHHHHHHHHCCCcEEEeCCccCCCCchHHHHHHHHHhCcEeeEEEEcccc
Confidence            445777788899999999999999998999999999999999999998 9999999999999999999999999999999


Q ss_pred             cchhhHHHHHHHHHHhhh-ccceeeeEEeecCCCccccccCCccCchhhHHHHhhhhHHHHHHHHHHHHHHhhhcCCccc
Q 045657           83 SSRWCLDELVKILQCKRE-YAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQ  161 (227)
Q Consensus        83 ~S~wc~~El~~~~~~~~~-~~~~iipif~~v~~~~vr~~~~~~~~~f~~~~~~~~~~~e~i~~w~~aL~~i~~~~g~~~~  161 (227)
                      .|+||++||.+++++.+. .++.|+||||+++|++||++.|.|+++|.++..++.  .+++++|+.||.+++++.|+++.
T Consensus       103 ~S~WCl~EL~~I~e~~~~~~~~~ViPIFY~VdPs~Vr~q~g~fg~af~~~~~~~~--~~~v~~Wr~AL~~va~lsG~~~~  180 (204)
T 3ozi_A          103 DSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFD--GQTIQNWKDALKKVGDLKGWHIG  180 (204)
T ss_dssp             GCHHHHHHHHHHHHHHHHCTTSEECCEEESSCHHHHHHTCTTHHHHHHHHTTTSC--HHHHHHHHHHHHHHHTSCBEEEC
T ss_pred             cCcHHHHHHHHHHHHHHhcCCeeeEEEEeecCHHHHHhccccHHHHHHHHHHhhC--HHHHHHHHHHHHHHhccCceecC
Confidence            999999999999999865 578999999999999999999999999999887764  46799999999999999998886


Q ss_pred             cc
Q 045657          162 NF  163 (227)
Q Consensus       162 ~~  163 (227)
                      ..
T Consensus       181 ~~  182 (204)
T 3ozi_A          181 KN  182 (204)
T ss_dssp             TT
T ss_pred             CC
Confidence            54

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana}

Probab=100.00  E-value=9.1e-44  Score=275.93  Aligned_cols=151  Identities=47%  Similarity=0.777  Sum_probs=124.9

Q ss_pred             CCCCCCCcccEEEccccccCCccHHHHHHHHHhhCCCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhh
Q 045657            9 LSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWC   87 (227)
Q Consensus         9 ~s~~~~~~~dvFISy~~~D~~~~~~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc   87 (227)
                      ||++..++|||||||+|+|++..|+++|+++|+++||++|+|+ ++++|+.|.++|.++|++|+++|+|||+||++|+||
T Consensus         1 msss~~~~yDVFiSfrg~D~r~~Fv~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~l~~aIe~Sri~IvV~S~ny~~S~WC   80 (176)
T 3jrn_A            1 MSSHTATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENYAASSWC   80 (176)
T ss_dssp             ------CCEEEEEEECHHHHTTTHHHHHHHHHHHTTCCEECCCC--------------CCTTEEEEEEEECTTTTTCHHH
T ss_pred             CCCCCCCCCeEEEECcCcccChHHHHHHHHHHHHCCCEEEEEcccccCCCchHHHHHHHHHhCCEEEEEecCCcCCChhH
Confidence            4567789999999999999988899999999999999999998 999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhccceeeeEEeecCCCccccccCCccCchhhHHHHhhhhHHHHHHHHHHHHHHhhhcCCccc
Q 045657           88 LDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQ  161 (227)
Q Consensus        88 ~~El~~~~~~~~~~~~~iipif~~v~~~~vr~~~~~~~~~f~~~~~~~~~~~e~i~~w~~aL~~i~~~~g~~~~  161 (227)
                      ++||.+++++.+..+..|+||||+++|++||++.|.|+++|.++..+  ...+++++|+.||.+++++.|+.+.
T Consensus        81 l~EL~~i~~~~~~~~~~ViPIfy~V~ps~Vr~q~g~fg~af~~~~~~--~~~~~~~~Wr~AL~~va~~~G~~~~  152 (176)
T 3jrn_A           81 LDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASR--EDPEKVLKWRQALTNFAQLSGDCSG  152 (176)
T ss_dssp             HHHHHHHHHHHHTTSCEEEEEECSSCHHHHHHTCTHHHHHHHHHHTT--SCHHHHHHHHHHHHHHTTSCCEECC
T ss_pred             HHHHHHHHhhhccCCCEEEEEEecCCHHHhhhccCcHHHHHHHHHhc--cCHHHHHHHHHHHHHHhcccceecC
Confidence            99999999999888899999999999999999999999999998877  4467899999999999999998774

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222}

Probab=99.97  E-value=2e-32  Score=209.92  Aligned_cols=121  Identities=20%  Similarity=0.367  Sum_probs=110.9

Q ss_pred             CCCCCcccEEEccccccCCccHHHHHHHHHhhCCCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHH
Q 045657           11 PRNINKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLD   89 (227)
Q Consensus        11 ~~~~~~~dvFISy~~~D~~~~~~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~   89 (227)
                      ..+.++|||||||+++| +..|+.+|+.+|+++|+++|+|+ ++.+|+.+.++|.++|++|+++|+|+|++|+.|.||+.
T Consensus        15 ~~~~~~~dvFISy~~~D-~~~~~~~L~~~L~~~gi~v~~D~~~l~~G~~~~~~i~~ai~~s~~~i~v~S~~y~~S~wc~~   93 (154)
T 3h16_A           15 LTSAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIVVLSTHFFKKEWPQK   93 (154)
T ss_dssp             ---CCSEEEEEEEEGGG-TTTTHHHHHHHHHHHTCCEECGGGEECTTCCHHHHHHHHHTSEEEEEEEEEHHHHTTCCCHH
T ss_pred             cCCCCCceEEEECcccC-hHHHHHHHHHHHHHCCCcEEEcHHhCCCccHHHHHHHHHHHhCcEEEEEeCcchhcChHHHH
Confidence            35679999999999999 44699999999999999999999 99999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhccceeeeEEeecCCCccccccCCccCchhhHH
Q 045657           90 ELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLE  132 (227)
Q Consensus        90 El~~~~~~~~~~~~~iipif~~v~~~~vr~~~~~~~~~f~~~~  132 (227)
                      |+..++.+....+.+|+||||+++|++++.+.+.|++.|....
T Consensus        94 El~~~~~~~~~~~~~iiPV~~~v~p~~v~~~~~~~~~~~~~~~  136 (154)
T 3h16_A           94 ELDGLFQLESSGRSRILPIWHKVSKDEVASFSPTMADKLAFNT  136 (154)
T ss_dssp             HHHHHTCCCTTSCCCEEEEEESCCTGGGTTTCCCCCSSCCEET
T ss_pred             HHHHHHHHHhcCCCEEEEEEecCCHHHHhhCCccHHHHHhhhc
Confidence            9999998776677899999999999999999999999887643

>3ub2_A TOLL/interleukin-1 receptor domain-containing ADA protein; TIR domain, TLRS adaptor, immune system; 2.40A {Homo sapiens} PDB: 3ub3_A 3ub4_A 2y92_A

Probab=99.94  E-value=1.3e-28  Score=186.58  Aligned_cols=140  Identities=19%  Similarity=0.261  Sum_probs=94.8

Q ss_pred             CCCCCCCCcccEEEccccccCCccHHHHHHHHHhh--CCCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcccc
Q 045657            8 SLSPRNINKYDVFLSFRGEDTRDNFTSHLYSALSL--KSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYASS   84 (227)
Q Consensus         8 ~~s~~~~~~~dvFISy~~~D~~~~~~~~L~~~L~~--~g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S   84 (227)
                      |.|....+.|||||||+++|.+  ||.+|.++|+.  .|+++|+++ |+.+|+.+.++|.++|++|+++|+|+|++|+.|
T Consensus         2 ~~~~r~~k~YDvFISy~~~D~~--~v~~L~~~Le~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~I~VlS~~y~~S   79 (146)
T 3ub2_A            2 PGSSRWSKDYDVCVCHSEEDLV--AAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALSSSHCRVLLITPGFLQD   79 (146)
T ss_dssp             --CCTTSSSEEEEEECCGGGHH--HHHHHHHHHHC------------------CCCEEECCTTCCEEEEEEEECHHHHHC
T ss_pred             CCCCCCCCcceEEEeCChhhHH--HHHHHHHHHhCcCCCeEEEEECccccccccHHHHHHHHHHhCCEEEEEECcccccC
Confidence            3446778999999999999965  79999999998  599999999 999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHhhhccceeeeEEeecCCCccccccCCc-cCchhhHHHHhhhhHHHHHHHHHHH
Q 045657           85 RWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPF-GDSFSKLEERFKENSEKLKSWRNAL  149 (227)
Q Consensus        85 ~wc~~El~~~~~~~~~~~~~iipif~~v~~~~vr~~~~~~-~~~f~~~~~~~~~~~e~i~~w~~aL  149 (227)
                      +||..|+..++.+......++||||+++++..+......+ .--+......+....+.+.+|+++|
T Consensus        80 ~wc~~El~~al~~~~~~~~~vIpv~~~v~~~~lp~~Lr~~~~id~~~~d~~f~~l~~~v~~~~~~~  145 (146)
T 3ub2_A           80 PWCKYQMLQALTEAPGAEGCTIPLLSGLSRAAYPPELRFMYYVDGRGPDGGFRQVKEAVMRYLQTL  145 (146)
T ss_dssp             HHHHHHHHHHHHTSSSSSSEEEEEECSCCGGGSCGGGGGSCCEETTSGGGGHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhhcCCcEEEEEcCCChhhCCHHHhCeeeeeccChHhhHHHHHHHHHHHHHhc
Confidence            9999999999987733344788999888755543222111 1112234455555556677776653

>2js7_A Myeloid differentiation primary response protein MYD88; MYD88_human, TIR domain, TOLL like receptor adaptor domain, innate immune signaling; NMR {Homo sapiens} PDB: 2z5v_A

Probab=99.90  E-value=1.8e-24  Score=166.38  Aligned_cols=101  Identities=17%  Similarity=0.261  Sum_probs=90.7

Q ss_pred             CCCCCcccEEEccccccCCccHHHHHHHHHhhC--CCeeEEeC-CCCCCCcchHHHHHHHH-hcccEEEEeecCcccchh
Q 045657           11 PRNINKYDVFLSFRGEDTRDNFTSHLYSALSLK--SIQTFIDD-QLNRGDEISQSLVYAIE-NSAISLIIFSEGYASSRW   86 (227)
Q Consensus        11 ~~~~~~~dvFISy~~~D~~~~~~~~L~~~L~~~--g~~~~~d~-~~~~g~~~~~~i~~~i~-~s~~~i~v~S~~~~~S~w   86 (227)
                      .+..+.|||||||+++|  ..||.+|.++|++.  |+++|+|+ |+.+|+.+.++|.++|+ +|+++|+|+|++|+.|.|
T Consensus        11 ~~~~~~yDvFISys~~D--~~fv~~L~~~Le~~~~g~~~~~~~rd~~~G~~i~~~i~~~I~~~Sr~~IvVlS~~y~~S~w   88 (160)
T 2js7_A           11 GHMPERFDAFICYCPSD--IQFVQEMIRQLEQTNYRLKLCVSDRDVLPGTCVWSIASELIEKRCRRMVVVVSDDYLQSKE   88 (160)
T ss_dssp             SCCTTCEEEEEECCGGG--HHHHHHHHHHHHTSSSCCCCEESCCSSSSSCSCCCCCGGGHHHHEEEEEEECCHHHHHSHH
T ss_pred             CCCCcceEEEEEccccc--HHHHHHHHHHHhcCCCceEEEEeCCCCCCCCcHHHHHHHHHHHhCCEEEEEECcchhcCHH
Confidence            34478999999999999  45999999999984  69999999 99999999999999999 799999999999999999


Q ss_pred             hHHHHHHHHHHh-hhccceeeeEEeecC
Q 045657           87 CLDELVKILQCK-REYAQIVIPVFYRVD  113 (227)
Q Consensus        87 c~~El~~~~~~~-~~~~~~iipif~~v~  113 (227)
                      |..|+..++.+. .+.+.+||||+|+.-
T Consensus        89 c~~El~~a~~~~~~~~~~~vIpV~~~~~  116 (160)
T 2js7_A           89 CDFQTKFALSLSPGAHQKRLIPIKYKAM  116 (160)
T ss_dssp             HHHHHHHHHHHCTTHHHHTEEEEESSCC
T ss_pred             HHHHHHHHHHHHHccCCCEEEEEEEccc
Confidence            999999999876 445578999999854

>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity, immune response, leucine-rich repeat, glycoprotein, transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A

Probab=99.89  E-value=1.5e-24  Score=169.40  Aligned_cols=101  Identities=21%  Similarity=0.374  Sum_probs=86.7

Q ss_pred             CCCCCCcccEEEccccccCCccHHHH-HHHHHhh--CCCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcccch
Q 045657           10 SPRNINKYDVFLSFRGEDTRDNFTSH-LYSALSL--KSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYASSR   85 (227)
Q Consensus        10 s~~~~~~~dvFISy~~~D~~~~~~~~-L~~~L~~--~g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~   85 (227)
                      ..+.++.|||||||+++|.  .||.+ |.+.|++  .|+++|+|+ |+.+|+.+.++|.++|++|+++|+|+|++|+.|+
T Consensus        29 ~~~~~~~yDvFISys~~D~--~fv~~~L~~~LE~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~IvVlS~~yl~S~  106 (178)
T 2j67_A           29 QLKRNVRFHAFISYSEHDS--LWVKNELIPNLEKEDGSILICLYESYFDPGKSISENIVSFIEKSYKSIFVLSPNFVQNE  106 (178)
T ss_dssp             -CCCSCCEEEEEECCGGGH--HHHHHTHHHHHTTCC-CCCEEEHHHHCCTTSCHHHHHHHHHHTEEEEEEEECHHHHHHT
T ss_pred             ccCCCccceEEEECCCCCH--HHHHHHHHHHHhcccCCeEEEEecccCCCCccHHHHHHHHHHhCCEEEEEecccccccc
Confidence            3567889999999999995  59976 9999998  899999999 9999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHh-hhccceeeeEEeec
Q 045657           86 WCLDELVKILQCK-REYAQIVIPVFYRV  112 (227)
Q Consensus        86 wc~~El~~~~~~~-~~~~~~iipif~~v  112 (227)
                      ||..|+..++.+. ++.+.+|||||++.
T Consensus       107 wc~~El~~a~~~~~~~~~~~vIpV~~~~  134 (178)
T 2j67_A          107 WCHYEFYFAHHNLFHENSDHIILILLEP  134 (178)
T ss_dssp             GGGTHHHHTTCC-------CEEEEESSC
T ss_pred             hHHHHHHHHHHHHHhcCCCEEEEEEecC
Confidence            9999999998654 45567899999873

>1fyx_A TOLL-like receptor 2; beta-alpha-beta fold, signaling protein; 2.80A {Homo sapiens} SCOP: c.23.2.1 PDB: 1fyw_A 1o77_A

Probab=99.89  E-value=6.6e-25  Score=166.97  Aligned_cols=97  Identities=20%  Similarity=0.305  Sum_probs=88.4

Q ss_pred             CCCcccEEEccccccCCccHHHH-HHHHHhhC--CCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhH
Q 045657           13 NINKYDVFLSFRGEDTRDNFTSH-LYSALSLK--SIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCL   88 (227)
Q Consensus        13 ~~~~~dvFISy~~~D~~~~~~~~-L~~~L~~~--g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~   88 (227)
                      .++.|||||||+++|.  .||.+ |.+.|++.  |+++|+|+ |+.+|+.+.++|.++|++|+++|+|+|++|+.|.||.
T Consensus         2 ~~~~yDvFiSy~~~D~--~~v~~~L~~~Le~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~S~wc~   79 (149)
T 1fyx_A            2 RNIXYDAFVSYSERDA--YWVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEWXK   79 (149)
T ss_dssp             CSCCEEEEEECCGGGH--HHHHTHHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHTHH
T ss_pred             CCccceEEEECCcccH--HHHHHHHHHHHhcCCCCeEEeeccccCCCchhHHHHHHHHHHHcCEEEEEeCcchhccchHH
Confidence            4678999999999995  59997 99999986  99999999 9999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh-hhccceeeeEEee
Q 045657           89 DELVKILQCK-REYAQIVIPVFYR  111 (227)
Q Consensus        89 ~El~~~~~~~-~~~~~~iipif~~  111 (227)
                      .|+..++... ++.+.+||||+++
T Consensus        80 ~El~~a~~~~~~~~~~~vIpv~~~  103 (149)
T 1fyx_A           80 YELDFSHFRLFDENNDAAILILLE  103 (149)
T ss_dssp             HHSCCSCCTTCGGGTTCCEEEESS
T ss_pred             HHHHHHHHHHHhcCCCEEEEEEec
Confidence            9999988544 5566789999987

>1t3g_A X-linked interleukin-1 receptor accessory protein-like 1; TIR, IL-1RAPL, IL-1R, TLR, membrane protein; 2.30A {Homo sapiens}

Probab=99.89  E-value=1.1e-23  Score=161.74  Aligned_cols=99  Identities=20%  Similarity=0.296  Sum_probs=87.0

Q ss_pred             CcccEEEccccccCC---------ccHHHHHHH-HHh-hCCCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcc
Q 045657           15 NKYDVFLSFRGEDTR---------DNFTSHLYS-ALS-LKSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYA   82 (227)
Q Consensus        15 ~~~dvFISy~~~D~~---------~~~~~~L~~-~L~-~~g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~   82 (227)
                      +.|||||||+++|..         ..||.+|.. .|+ ..|+++|+|+ |+.+|+.+.++|.++|++|+.+|+|+|++|+
T Consensus         1 k~yDaFISy~~~D~~wv~~~~~~~~~fv~~ll~~~LE~~~g~~l~~~~rD~~~G~~i~~~i~~~I~~Sr~~IvVlS~~y~   80 (159)
T 1t3g_A            1 KDYDAYLSYTKVDPDQWNQETGEEERFALEILPDMLEKHYGYKLFIPDRDLIPTGTYIEDVARCVDQSKRLIIVMTPNYV   80 (159)
T ss_dssp             CCBSEEEECCCCC-------CCSHHHHHHTHHHHHHHHTSCCCEECHHHHCCCCTTHHHHHHHHHHTBSEEEEEECHHHH
T ss_pred             CCceEEEeCccccchhhhccchhhHHHHHHHHHHHHcCCCCeEEEEEcccccCccchHHHHHHHHHHcCEEEEEEccchh
Confidence            479999999999963         457777665 699 7999999999 9999999999999999999999999999997


Q ss_pred             -cchhhHHHHHHHHHHh-hhccceeeeEEeecC
Q 045657           83 -SSRWCLDELVKILQCK-REYAQIVIPVFYRVD  113 (227)
Q Consensus        83 -~S~wc~~El~~~~~~~-~~~~~~iipif~~v~  113 (227)
                       .|.||..|+..++.+. .+.+.+||||++.-.
T Consensus        81 ~~S~wc~~El~~a~~~~~~~~~~~vI~I~~~~~  113 (159)
T 1t3g_A           81 VRRGWSIFELETRLRNMLVTGEIKVILIECSEL  113 (159)
T ss_dssp             HTTTTHHHHHSHHHHHHHHTTSSEEEEEECSCC
T ss_pred             hcChHHHHHHHHHHHHHHhcCCCEEEEEEeccc
Confidence             9999999999999887 666789999987643

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.71  E-value=4.9e-18  Score=160.97  Aligned_cols=102  Identities=19%  Similarity=0.314  Sum_probs=91.0

Q ss_pred             CCCCCcccEEEccccccCCccHH-HHHHHHHhh-----CCCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCccc
Q 045657           11 PRNINKYDVFLSFRGEDTRDNFT-SHLYSALSL-----KSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYAS   83 (227)
Q Consensus        11 ~~~~~~~dvFISy~~~D~~~~~~-~~L~~~L~~-----~g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~   83 (227)
                      ....+.|||||||+++|..  || .+|.+.||.     .|+++|+++ |+.+|+.+.++|.++|++||++|+|+|++|+.
T Consensus       665 ~~~~~~yd~fisy~~~d~~--~v~~~l~~~Le~~~~~~~~~~~~~~~rd~~~G~~~~~~i~~~i~~sr~~i~vls~~~~~  742 (844)
T 3j0a_A          665 EPDMYKYDAYLCFSSKDFT--WVQNALLKHLDTQYSDQNRFNLCFEERDFVPGENRIANIQDAIWNSRKIVCLVSRHFLR  742 (844)
T ss_dssp             SSSCCCCSEEEECCSTTHH--HHHHTHHHHHHSTTTTTTCSCEECSSSSCCSSSCHHHHHHHHHHHSSEEEEEECTTHHH
T ss_pred             cccceeccEEEEeeCCcHH--HHHHHHHHHHhhccccCCceEEEEEccccCCCchHHHHHHHHHHHhCeEEEEecccccc
Confidence            3467899999999999964  66 779999985     589999999 99999999999999999999999999999999


Q ss_pred             chhhHHHHHHHHHHh-hhccceeeeEEeecCC
Q 045657           84 SRWCLDELVKILQCK-REYAQIVIPVFYRVDP  114 (227)
Q Consensus        84 S~wc~~El~~~~~~~-~~~~~~iipif~~v~~  114 (227)
                      |+||..|+..|..+. ++...+|||||++.-+
T Consensus       743 s~wc~~e~~~a~~~~~~~~~~~~i~i~~~~~~  774 (844)
T 3j0a_A          743 DGWCLEAFSYAQGRCLSDLNSALIMVVVGSLS  774 (844)
T ss_dssp             HTSTTHHHHHHHSCCCCSSCTTEEEEESSCCC
T ss_pred             ChHHHHHHHHHHHHHHHhcCCcEEEEEeccCC
Confidence            999999999988776 5667899999988443

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=99.01  E-value=1.8e-10  Score=104.33  Aligned_cols=50  Identities=24%  Similarity=0.252  Sum_probs=43.5

Q ss_pred             cccchhHHHHHHHhhcC-CCCeEEEEEEcCCCchHHHHHHHHHH----HhhcCCC
Q 045657          178 VGVESRVKEIESLLGAE-SKYVYTLGIWGFGGIGKTTIARAIFD----KISSNFE  227 (227)
Q Consensus       178 ~g~~~~~~~~~~~l~~~-~~~~~~~~i~G~gG~GKTtla~~v~~----~~~~~f~  227 (227)
                      +||+.++++|.++|... ..+.++|+|+||||+||||||+++|+    +++.+|+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~  185 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYD  185 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBS
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCC
Confidence            59999999999999754 34689999999999999999999997    4777775

>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=98.84  E-value=1.7e-09  Score=105.40  Aligned_cols=52  Identities=19%  Similarity=0.154  Sum_probs=46.4

Q ss_pred             CCCccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          170 PRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       170 ~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ++..+..++||+.++++|.++|.....+.++|+|+||||+||||||+++|++
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~  170 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRD  170 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCC
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcC
Confidence            4455678999999999999999766677899999999999999999999987

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=98.82  E-value=2.5e-09  Score=97.19  Aligned_cols=50  Identities=20%  Similarity=0.173  Sum_probs=44.4

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+..++||+.++++|.++|.....+.++++|+||||+||||||.++|++
T Consensus       121 ~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~  170 (591)
T 1z6t_A          121 QRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRD  170 (591)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhc
Confidence            45678999999999999999765566899999999999999999999875

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=98.61  E-value=2e-08  Score=96.00  Aligned_cols=51  Identities=18%  Similarity=0.072  Sum_probs=42.7

Q ss_pred             cccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH--hhcCCC
Q 045657          176 QLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK--ISSNFE  227 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~--~~~~f~  227 (227)
                      ..+||+.++++|.++|... .+.++|+|+||||+||||||+++|++  ++.+|+
T Consensus       129 ~~VGRe~eLeeL~elL~~~-d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd  181 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLEL-RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD  181 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHC-CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHS
T ss_pred             CCCCcHHHHHHHHHHHhcc-CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCC
Confidence            3499999999999998743 34789999999999999999999975  555553

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.00  E-value=5.3e-06  Score=69.68  Aligned_cols=46  Identities=17%  Similarity=0.325  Sum_probs=39.9

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+..++||+.+++.|.+++..+    +++.|+|++|+|||||++++.++
T Consensus         9 ~~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A            9 TRREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNE   54 (350)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHH
Confidence            34578999999999999988743    68899999999999999998875

>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=97.98  E-value=6.4e-06  Score=70.95  Aligned_cols=50  Identities=24%  Similarity=0.298  Sum_probs=39.3

Q ss_pred             cCcccccchhHHHHHHHh-hc---C---CCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEIESLL-GA---E---SKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l-~~---~---~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      +..++||+.+++.+..+| ..   +   .....+|+|+|++|+|||||++++++.+.
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~   77 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVS   77 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHH
Confidence            478999999999999888 42   2   22344455599999999999999998754

>1eiw_A Hypothetical protein MTH538; CHEY-like fold, flavodoxin-like fold, (A/B)5 doubly wound fold, parallel beta sheet; NMR {Methanothermobacterthermautotrophicus} SCOP: c.23.3.1

Probab=97.97  E-value=4.6e-06  Score=59.32  Aligned_cols=72  Identities=7%  Similarity=-0.019  Sum_probs=54.6

Q ss_pred             CcccEEEccccccCCccHHHHHHHHHhhCCCeeEEeCCCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHH
Q 045657           15 NKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKI   94 (227)
Q Consensus        15 ~~~dvFISy~~~D~~~~~~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~   94 (227)
                      .+|.+||||+..|    -.+.|...|...|+... |              +.|+.|.++|++.++....|+||..|+..+
T Consensus         3 ~~~~lFISh~~~d----~~~~L~~~l~~~~f~~~-~--------------~~I~~~~~vIvL~G~~t~~s~wv~~EI~~A   63 (111)
T 1eiw_A            3 AEIRLYITEGEVE----DYRVFLERLEQSGLEWR-P--------------ATPEDADAVIVLAGLWGTRRDEILGAVDLA   63 (111)
T ss_dssp             CCEEEEECCCCSH----HHHHHHHHHHHHCSCEE-E--------------CCSSSCSEEEEEGGGTTTSHHHHHHHHHHH
T ss_pred             ceEEEEEecccHh----HHHHHHHHHhCCCCeee-c--------------CccccCCEEEEEeCCCcCCChHHHHHHHHH
Confidence            5799999999998    26667777765566433 2              557999999999999999999999999877


Q ss_pred             HHHhhhccceeeeEE
Q 045657           95 LQCKREYAQIVIPVF  109 (227)
Q Consensus        95 ~~~~~~~~~~iipif  109 (227)
                      .+    .+..|+-|.
T Consensus        64 ~~----~gkpIigV~   74 (111)
T 1eiw_A           64 RK----SSKPIITVR   74 (111)
T ss_dssp             TT----TTCCEEEEC
T ss_pred             HH----cCCCEEEEE
Confidence            54    333455553

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=97.92  E-value=8e-06  Score=69.45  Aligned_cols=51  Identities=24%  Similarity=0.450  Sum_probs=42.3

Q ss_pred             ccCcccccchhHHHHHHHhhcC--CCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          173 YKNQLVGVESRVKEIESLLGAE--SKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~--~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+..++||+.+++.+.+++...  ......+.|+|.+|+|||||++++++.+.
T Consensus        18 ~p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~   70 (386)
T 2qby_A           18 IPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLH   70 (386)
T ss_dssp             CCSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3478999999999999988642  33456788999999999999999998753

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.86  E-value=2.1e-05  Score=59.79  Aligned_cols=47  Identities=19%  Similarity=0.343  Sum_probs=39.2

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|++..++.+.+.+...  ....+-|+|..|+|||+||+++++.+
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999988653  23456789999999999999998875

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=97.84  E-value=2.7e-05  Score=61.33  Aligned_cols=49  Identities=24%  Similarity=0.276  Sum_probs=40.6

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+++|++..++.+..++..+.. ...+-|+|.+|+||||||+.+++.+.
T Consensus        22 ~~~~~g~~~~~~~l~~~l~~~~~-~~~~ll~G~~G~GKT~l~~~~~~~~~   70 (250)
T 1njg_A           22 FADVVGQEHVLTALANGLSLGRI-HHAYLFSGTRGVGKTSIARLLAKGLN   70 (250)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHTCC-CSEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHcCCC-CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            46799999999999998875432 24778999999999999999998754

>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=97.78  E-value=2.4e-05  Score=66.73  Aligned_cols=49  Identities=18%  Similarity=0.304  Sum_probs=40.8

Q ss_pred             cCcccccchhHHHHHHHhhc--CCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGA--ESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~--~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      +..++||+.+++.+..++..  .....+.+-|+|.+|+||||||+++++.+
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~   69 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEI   69 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999887754  22335688999999999999999999875

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=97.76  E-value=4.3e-05  Score=59.47  Aligned_cols=47  Identities=21%  Similarity=0.300  Sum_probs=39.2

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++|++..++.+..++......  .+-|+|.+|+|||+||+.+++.+
T Consensus        16 ~~~~~g~~~~~~~l~~~l~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~   62 (226)
T 2chg_A           16 LDEVVGQDEVIQRLKGYVERKNIP--HLLFSGPPGTGKTATAIALARDL   62 (226)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCC--CEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHcCcHHHHHHHHHHHhCCCCC--eEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999998754322  37899999999999999999875

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.74  E-value=2.2e-05  Score=66.80  Aligned_cols=49  Identities=20%  Similarity=0.422  Sum_probs=41.2

Q ss_pred             cCcccccchhHHHHHHHhhcC--CCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAE--SKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~--~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      +..++||+..++.+..++...  ....+.+-|+|.+|+||||||+++++.+
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~   68 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRL   68 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999988542  3345678899999999999999999875

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.72  E-value=4e-05  Score=58.14  Aligned_cols=47  Identities=21%  Similarity=0.333  Sum_probs=38.9

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++|++..++.+.+.+...  ....+-|+|..|+|||+||+++++.+
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~--~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSRR--TKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSS--SSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             cchhhcchHHHHHHHHHHhCC--CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999888653  23455799999999999999999875

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=97.62  E-value=7e-05  Score=63.82  Aligned_cols=50  Identities=22%  Similarity=0.345  Sum_probs=40.9

Q ss_pred             cCcccccchhHHHHHHHhhc----CCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEIESLLGA----ESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~----~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      +..++||+..++.+..++..    .....+.+.|+|..|+|||||++++++.+.
T Consensus        16 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~   69 (389)
T 1fnn_A           16 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYK   69 (389)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHh
Confidence            47899999999999888864    222234788999999999999999998864

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.53  E-value=5.8e-05  Score=55.90  Aligned_cols=46  Identities=22%  Similarity=0.283  Sum_probs=34.2

Q ss_pred             cccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          176 QLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +++|+...++.+.+.+..-...-.-|-|+|..|+|||++|+++++.
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHh
Confidence            5789998898888877532222223568999999999999999986

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.43  E-value=0.00011  Score=60.26  Aligned_cols=52  Identities=21%  Similarity=0.334  Sum_probs=40.3

Q ss_pred             ccCcccccchhHHHHHHHhhcC-----------CCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          173 YKNQLVGVESRVKEIESLLGAE-----------SKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~-----------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ...+++|.+..+++|.+.+...           -...+-+-|+|.+|+|||+||+++.+.+..
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~   77 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNA   77 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTC
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCC
Confidence            3467899999999998876421           123456789999999999999999987543

>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=97.43  E-value=0.00021  Score=59.26  Aligned_cols=48  Identities=21%  Similarity=0.336  Sum_probs=39.8

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|++..++.+..++..+....  +-++|.+|+||||+|+.+++.+
T Consensus        19 ~~~~~~g~~~~~~~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           19 VLSDIVGNKETIDRLQQIAKDGNMPH--MIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCCCCC--EEEECSTTSSHHHHHHHHHHHH
T ss_pred             CHHHHHCCHHHHHHHHHHHHcCCCCe--EEEECcCCCCHHHHHHHHHHHh
Confidence            34678999999999999987543222  7899999999999999998875

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.38  E-value=0.00011  Score=61.67  Aligned_cols=53  Identities=28%  Similarity=0.370  Sum_probs=41.4

Q ss_pred             ccCcccccchhHHHHHHHhhcC---CCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          173 YKNQLVGVESRVKEIESLLGAE---SKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~---~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ...+++|++..++.+..++...   ......+-|+|..|+|||+||+++.+.....
T Consensus        27 ~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~   82 (338)
T 3pfi_A           27 NFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSAN   82 (338)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC
Confidence            4567999999999998887642   2234457899999999999999998876543

>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=97.38  E-value=0.00025  Score=58.91  Aligned_cols=47  Identities=32%  Similarity=0.361  Sum_probs=39.4

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++|++..++.+..++..+...  .+-++|..|+||||+|+++++.+
T Consensus        24 ~~~~~g~~~~~~~l~~~l~~~~~~--~~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           24 LDDIVGQEHIVKRLKHYVKTGSMP--HLLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCC--EEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHHhhCCHHHHHHHHHHHHcCCCC--eEEEECcCCCCHHHHHHHHHHHh
Confidence            467899999999999988765322  37899999999999999999875

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.29  E-value=0.00024  Score=59.05  Aligned_cols=51  Identities=24%  Similarity=0.306  Sum_probs=39.4

Q ss_pred             cCcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          174 KNQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      -.+++|.+..+++|.+++..           +-...+.+-++|..|+|||+||+++++....
T Consensus        14 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~   75 (301)
T 3cf0_A           14 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA   75 (301)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCC
Confidence            35788999888888876642           1233557889999999999999999987543

>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=97.23  E-value=0.00013  Score=60.68  Aligned_cols=52  Identities=25%  Similarity=0.375  Sum_probs=40.0

Q ss_pred             ccCcccccchhHHHHHHHhhc---CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          173 YKNQLVGVESRVKEIESLLGA---ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~---~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ...+++|++..++.+..++..   .......+-|+|..|+|||+||+++++....
T Consensus        10 ~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~   64 (324)
T 1hqc_A           10 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGV   64 (324)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTC
T ss_pred             cHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCC
Confidence            346799999988888887752   1122346778999999999999999987643

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.22  E-value=0.00048  Score=57.88  Aligned_cols=48  Identities=17%  Similarity=0.235  Sum_probs=39.4

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|++..++.+..++..+....  +-++|..|+||||+|+.+.+.+
T Consensus        35 ~~~~i~g~~~~~~~l~~~l~~~~~~~--~ll~G~~G~GKT~la~~la~~l   82 (353)
T 1sxj_D           35 NLDEVTAQDHAVTVLKKTLKSANLPH--MLFYGPPGTGKTSTILALTKEL   82 (353)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCTTCCC--EEEECSTTSSHHHHHHHHHHHH
T ss_pred             CHHHhhCCHHHHHHHHHHHhcCCCCE--EEEECCCCCCHHHHHHHHHHHh
Confidence            35678999999999999887553222  7899999999999999998874

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.21  E-value=0.00027  Score=58.24  Aligned_cols=51  Identities=22%  Similarity=0.274  Sum_probs=39.3

Q ss_pred             cCcccccchhHHHHHHHhhcC----------CCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          174 KNQLVGVESRVKEIESLLGAE----------SKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~----------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      -.+++|.+..++.+.+++...          ....+.+-|+|..|+||||||+++++....
T Consensus        20 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~   80 (297)
T 3b9p_A           20 WTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSA   80 (297)
T ss_dssp             GGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTC
T ss_pred             HHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCC
Confidence            467899999999988876320          112456789999999999999999987543

>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=97.21  E-value=0.00039  Score=58.28  Aligned_cols=53  Identities=19%  Similarity=0.285  Sum_probs=40.2

Q ss_pred             ccCcccccchhHHHHHHHhh----------cCCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          173 YKNQLVGVESRVKEIESLLG----------AESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~----------~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .-.+++|.+..++.|.+++.          ......+-+-++|..|+|||+||+++++.....
T Consensus        16 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~   78 (322)
T 3eie_A           16 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST   78 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCE
T ss_pred             CHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCC
Confidence            34678999999999988772          111224567899999999999999999875443

>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=97.15  E-value=0.00033  Score=59.73  Aligned_cols=50  Identities=22%  Similarity=0.223  Sum_probs=39.0

Q ss_pred             cCcccccchhHHHHHHHhhc----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEIESLLGA----------ESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      -.+++|.+..++.|.+++..          .....+.+-|+|..|+|||+||+++++...
T Consensus        83 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~  142 (357)
T 3d8b_A           83 WEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSG  142 (357)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTT
T ss_pred             HHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcC
Confidence            35789999999999887642          112345678999999999999999998754

>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=97.11  E-value=0.00069  Score=57.35  Aligned_cols=49  Identities=24%  Similarity=0.276  Sum_probs=39.8

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+++|++..++.+...+..+.. ...+-|+|..|+||||+|+.+.+.+.
T Consensus        15 ~~~~vg~~~~~~~L~~~l~~~~~-~~~~ll~G~~G~GKT~la~~la~~l~   63 (373)
T 1jr3_A           15 FADVVGQEHVLTALANGLSLGRI-HHAYLFSGTRGVGKTSIARLLAKGLN   63 (373)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHTCC-CSEEEEESCTTSSHHHHHHHHHHHHS
T ss_pred             hhhccCcHHHHHHHHHHHHhCCC-CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45799999999999998875432 23567999999999999999988753

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.07  E-value=0.00054  Score=55.30  Aligned_cols=50  Identities=24%  Similarity=0.287  Sum_probs=35.8

Q ss_pred             cCcccccchhHHHHHHHhhc---C-------CCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEIESLLGA---E-------SKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~---~-------~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      -.+++|.+..++++.+++..   .       ....+-+.|+|..|+||||||+++.+...
T Consensus        11 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~   70 (257)
T 1lv7_A           11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK   70 (257)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             HHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcC
Confidence            36788988877777665431   1       01123477999999999999999998754

>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=97.05  E-value=0.00037  Score=56.52  Aligned_cols=52  Identities=21%  Similarity=0.251  Sum_probs=37.6

Q ss_pred             cCcccccchhHHHHHHHhhc----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          174 KNQLVGVESRVKEIESLLGA----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      -.+++|.+..++.+.+++..          +....+-+-++|..|+|||+||+++++.....
T Consensus        10 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~   71 (268)
T 2r62_A           10 FKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVP   71 (268)
T ss_dssp             STTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCC
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            36789998888888776541          11112236689999999999999999886443

>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=97.04  E-value=0.00073  Score=55.79  Aligned_cols=47  Identities=21%  Similarity=0.288  Sum_probs=38.7

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++|++..++.+..++..+....  +-++|..|+|||++|+.+.+.+
T Consensus        16 ~~~~~g~~~~~~~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           16 LDEVVGQDEVIQRLKGYVERKNIPH--LLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             GGGSCSCHHHHHHHHTTTTTTCCCC--EEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHhCCCCCe--EEEECcCCcCHHHHHHHHHHHh
Confidence            4678999999999998887543222  7789999999999999998875

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.04  E-value=0.00068  Score=57.43  Aligned_cols=50  Identities=20%  Similarity=0.198  Sum_probs=38.1

Q ss_pred             cCcccccchhHHHH---HHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEI---ESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~---~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+++|++..++.+   ...+..+....+.+-++|..|+|||+||+++.+.+.
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~   95 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALG   95 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            46899999887764   444444433345788999999999999999998865

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.03  E-value=8.2e-05  Score=54.97  Aligned_cols=47  Identities=19%  Similarity=0.193  Sum_probs=31.8

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      -+++|....++++.+.+..-.....-|-|+|..|+|||++|+++++.
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHh
Confidence            45789988888888876531112223568999999999999988754

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.00  E-value=0.00054  Score=56.60  Aligned_cols=47  Identities=21%  Similarity=0.299  Sum_probs=35.3

Q ss_pred             cccccchhHHHHHHHhhc-------------CCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          176 QLVGVESRVKEIESLLGA-------------ESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~-------------~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .++|.+..++.+.+++..             .......+-++|..|+|||+||+++.+.+
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l   91 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLL   91 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            578888888887765531             02334567899999999999999988875

>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=97.00  E-value=0.00084  Score=60.06  Aligned_cols=51  Identities=24%  Similarity=0.313  Sum_probs=41.3

Q ss_pred             CccCcccccchhHHHHHHHhhcCC---------------CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          172 NYKNQLVGVESRVKEIESLLGAES---------------KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~---------------~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....+++|++..++++..+|....               ...+.+-|+|..|+||||||+++.+.+
T Consensus        36 ~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l  101 (516)
T 1sxj_A           36 TNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL  101 (516)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            345789999999999999886410               134678899999999999999999875

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.94  E-value=0.00098  Score=58.92  Aligned_cols=47  Identities=23%  Similarity=0.413  Sum_probs=38.7

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|++..++.+...|..... . -+-++|.+|+|||+||+.++..+
T Consensus       179 ld~iiGr~~~i~~l~~~l~r~~~-~-~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          179 LDPVIGRSKEIQRVIEVLSRRTK-N-NPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSS-C-EEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCCccCcHHHHHHHHHHHhccCC-C-CeEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999998875432 2 24589999999999999999886

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.94  E-value=0.00065  Score=57.29  Aligned_cols=50  Identities=26%  Similarity=0.369  Sum_probs=36.8

Q ss_pred             cCcccccchhHHHHHHHhhcC---CCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEIESLLGAE---SKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~---~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      -..++|.+..++.+...+..+   ......+.++|..|+||||||+.+.+.+.
T Consensus        24 l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~   76 (334)
T 1in4_A           24 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ   76 (334)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             HHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            356778877777766655432   22345688999999999999999998763

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=96.93  E-value=0.00052  Score=57.70  Aligned_cols=48  Identities=13%  Similarity=-0.018  Sum_probs=38.5

Q ss_pred             cccccchhHHHHHHHhhcC--CCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          176 QLVGVESRVKEIESLLGAE--SKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~~--~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+.||+++.+++...|...  ......+-|+|.+|+|||++++.|.+.+.
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~   70 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELI   70 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3789999999998776531  23455677899999999999999999874

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.93  E-value=0.00078  Score=56.76  Aligned_cols=47  Identities=28%  Similarity=0.286  Sum_probs=37.6

Q ss_pred             cCcccccchhHHHHHHHh-hcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLL-GAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l-~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++|.+..++.+..++ ..+.. .. +.++|..|+||||+++.+.+.+
T Consensus        13 ~~~~vg~~~~~~~l~~~~~~~~~~-~~-~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           13 LNALSHNEELTNFLKSLSDQPRDL-PH-LLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCTTCC-CC-EEEECSTTSSHHHHHHTHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHhhCCCC-Ce-EEEECCCCCCHHHHHHHHHHHH
Confidence            467899998888888887 54332 23 7899999999999999998863

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.92  E-value=0.0008  Score=59.20  Aligned_cols=50  Identities=26%  Similarity=0.400  Sum_probs=38.8

Q ss_pred             ccCcccccchhH---HHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          173 YKNQLVGVESRV---KEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       173 ~~~~~~g~~~~~---~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ...+++|.+..+   ..+...+..+.  ...+-++|..|+||||||+.+++....
T Consensus        24 ~l~~ivGq~~~~~~~~~L~~~i~~~~--~~~vLL~GppGtGKTtlAr~ia~~~~~   76 (447)
T 3pvs_A           24 NLAQYIGQQHLLAAGKPLPRAIEAGH--LHSMILWGPPGTGKTTLAEVIARYANA   76 (447)
T ss_dssp             STTTCCSCHHHHSTTSHHHHHHHHTC--CCEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CHHHhCCcHHHHhchHHHHHHHHcCC--CcEEEEECCCCCcHHHHHHHHHHHhCC
Confidence            346788988777   66777776543  356889999999999999999987544

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=96.92  E-value=0.00074  Score=51.41  Aligned_cols=42  Identities=24%  Similarity=0.222  Sum_probs=29.1

Q ss_pred             hhHHHHHHHhhcCC-CCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          182 SRVKEIESLLGAES-KYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       182 ~~~~~~~~~l~~~~-~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..++.+.+++..-. .....+.|+|..|+|||||++++++.+.
T Consensus        21 ~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           21 RALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             HHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            33444444443221 2356889999999999999999998753

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.91  E-value=0.001  Score=51.47  Aligned_cols=25  Identities=32%  Similarity=0.400  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+-|+|.+|+|||+||+++++...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~   79 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELA   79 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH
Confidence            6788999999999999999998754

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=96.91  E-value=0.00054  Score=56.41  Aligned_cols=50  Identities=20%  Similarity=0.292  Sum_probs=37.1

Q ss_pred             CcccccchhHHHHHHHhhcC------------CCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          175 NQLVGVESRVKEIESLLGAE------------SKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~------------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ..++|.+..++.+...+...            ......+-++|..|+|||+||+++.+.+..
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~   76 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            56889998888887766430            112334668999999999999999887643

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.90  E-value=0.001  Score=55.84  Aligned_cols=49  Identities=16%  Similarity=0.247  Sum_probs=37.7

Q ss_pred             cCcccccchhHHHHHHHhhc----------CCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGA----------ESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -.++.|.+..++.|.+.+..          .....+-+-++|..|+|||+||+++++..
T Consensus        11 ~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~   69 (322)
T 1xwi_A           11 WSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA   69 (322)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc
Confidence            36788998888888776531          11234667899999999999999999876

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=96.89  E-value=0.001  Score=56.66  Aligned_cols=51  Identities=20%  Similarity=0.295  Sum_probs=38.6

Q ss_pred             cCcccccchhHHHHHHHhhc----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          174 KNQLVGVESRVKEIESLLGA----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      -.+++|.+..++.|...+..          .....+-+-++|..|+|||+||+++++....
T Consensus        50 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~  110 (355)
T 2qp9_X           50 WEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANS  110 (355)
T ss_dssp             GGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTC
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC
Confidence            46789999999988877631          1122345778999999999999999987644

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.84  E-value=0.001  Score=56.65  Aligned_cols=49  Identities=18%  Similarity=0.156  Sum_probs=35.9

Q ss_pred             cccccchhHHHHHHHhh-------------cCCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          176 QLVGVESRVKEIESLLG-------------AESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~-------------~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .++|.+..++.+...+.             ........+-++|..|+|||++|+++++....
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~   77 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDV   77 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            46788888888777662             11113356788999999999999999987543

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.81  E-value=0.001  Score=57.17  Aligned_cols=52  Identities=17%  Similarity=0.224  Sum_probs=39.7

Q ss_pred             ccCcccccchhHHHHHHHhhc----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          173 YKNQLVGVESRVKEIESLLGA----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .-.+++|.+..++.|..++..          .....+-+-|+|..|+|||+||+++.+....
T Consensus       113 ~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~  174 (389)
T 3vfd_A          113 KFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNA  174 (389)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTC
T ss_pred             ChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcC
Confidence            346899999999999887731          0112456789999999999999999887543

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.73  E-value=0.0025  Score=50.08  Aligned_cols=48  Identities=15%  Similarity=0.212  Sum_probs=32.5

Q ss_pred             cCcccccc---hhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVE---SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~---~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+++|..   ..++.+..++...  ..+.+-|+|..|+||||||+++++...
T Consensus        27 ~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~~~   77 (242)
T 3bos_A           27 FTSYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACARAN   77 (242)
T ss_dssp             TTTSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             hhhccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            35677632   3444555554432  356778999999999999999988754

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=96.71  E-value=0.0022  Score=52.17  Aligned_cols=51  Identities=16%  Similarity=0.116  Sum_probs=36.0

Q ss_pred             cCcccccchhHHHHHH-------Hhhc-CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          174 KNQLVGVESRVKEIES-------LLGA-ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~-------~l~~-~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ...++|....++.+..       .+.. .......+-++|..|+|||+||+++++....
T Consensus        32 ~~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~   90 (272)
T 1d2n_A           32 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF   90 (272)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             hcCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCC
Confidence            3467787766665554       2321 2344667889999999999999999987543

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.68  E-value=0.0012  Score=54.60  Aligned_cols=48  Identities=17%  Similarity=0.407  Sum_probs=37.3

Q ss_pred             CcccccchhHHHHHHHhhcC-------CCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          175 NQLVGVESRVKEIESLLGAE-------SKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~-------~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++|.+..++.+...+...       ......+.++|..|+|||++|+.+++.+
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~   71 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   71 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHH
Confidence            46788888888887766532       1224578999999999999999999875

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.63  E-value=0.0021  Score=60.08  Aligned_cols=47  Identities=23%  Similarity=0.413  Sum_probs=38.9

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|++..++.+...|..... . -+-++|.+|+|||++|+.+.+.+
T Consensus       179 ld~iiG~~~~i~~l~~~l~~~~~-~-~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          179 LDPVIGRSKEIQRVIEVLSRRTK-N-NPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSS-C-EEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCCccCchHHHHHHHHHHhCCCC-C-CeEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999998875432 2 25689999999999999999886

>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=96.62  E-value=0.0013  Score=58.60  Aligned_cols=50  Identities=24%  Similarity=0.390  Sum_probs=38.7

Q ss_pred             CcccccchhHHHHHHHhhcC-----------CCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          175 NQLVGVESRVKEIESLLGAE-----------SKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~-----------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .+++|.+..+++|.+++..-           ....+-+-|+|..|+|||+||+++++....
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~  264 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  264 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSS
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCC
Confidence            46889999999998877531           223445779999999999999999887543

>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=96.61  E-value=0.0021  Score=53.58  Aligned_cols=51  Identities=16%  Similarity=0.108  Sum_probs=40.6

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..-.+++|.+..++.+..++..+.. ..++-+.|..|+|||++|+++.+.+.
T Consensus        23 ~~~~~ivg~~~~~~~l~~~l~~~~~-~~~~L~~G~~G~GKT~la~~la~~l~   73 (324)
T 3u61_B           23 STIDECILPAFDKETFKSITSKGKI-PHIILHSPSPGTGKTTVAKALCHDVN   73 (324)
T ss_dssp             CSTTTSCCCHHHHHHHHHHHHTTCC-CSEEEECSSTTSSHHHHHHHHHHHTT
T ss_pred             CCHHHHhCcHHHHHHHHHHHHcCCC-CeEEEeeCcCCCCHHHHHHHHHHHhC
Confidence            3457899999999999999875432 34566779999999999999988753

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.60  E-value=0.003  Score=52.30  Aligned_cols=28  Identities=21%  Similarity=0.278  Sum_probs=23.7

Q ss_pred             CCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          195 SKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       195 ~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .....+|+|.|..|.||||||+.+...+
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3457799999999999999999887654

>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=96.55  E-value=0.0019  Score=56.72  Aligned_cols=50  Identities=16%  Similarity=0.228  Sum_probs=38.8

Q ss_pred             ccCcccccchhHHHHHHHhhc----------CCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGA----------ESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-.+++|.+..++.|...+..          .....+-+-++|..|+|||+||+++++..
T Consensus       132 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~  191 (444)
T 2zan_A          132 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA  191 (444)
T ss_dssp             CGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            346789999988888876621          11234677899999999999999999875

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.52  E-value=0.0037  Score=52.58  Aligned_cols=47  Identities=19%  Similarity=0.282  Sum_probs=37.0

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -..++|.+.-++.|...+..+.-..  +.++|..|+||||+|+.+.+.+
T Consensus        24 ~~~~~g~~~~~~~L~~~i~~g~~~~--~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           24 LDEVYGQNEVITTVRKFVDEGKLPH--LLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCCC--EEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHHhcCcHHHHHHHHHHHhcCCCce--EEEECCCCCCHHHHHHHHHHHH
Confidence            4567888888888888887553222  7899999999999999998874

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.49  E-value=0.0023  Score=51.44  Aligned_cols=50  Identities=22%  Similarity=0.343  Sum_probs=33.9

Q ss_pred             cCcccccchhHHHHHHHhhc--C-------C-CCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEIESLLGA--E-------S-KYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~--~-------~-~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      -.+++|.+..+.++..+...  .       + .-.+-+.|+|..|+|||||++++.+...
T Consensus        15 ~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~   74 (254)
T 1ixz_A           15 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   74 (254)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            35678887776666554321  0       0 0011288999999999999999988643

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=96.49  E-value=0.0034  Score=50.35  Aligned_cols=27  Identities=26%  Similarity=0.247  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .+.+-++|..|+|||+||+++++....
T Consensus        39 ~~~vll~G~~GtGKT~la~~la~~~~~   65 (262)
T 2qz4_A           39 PKGALLLGPPGCGKTLLAKAVATEAQV   65 (262)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            345679999999999999999987544

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.46  E-value=0.0033  Score=54.96  Aligned_cols=53  Identities=17%  Similarity=0.238  Sum_probs=39.9

Q ss_pred             ccCcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          173 YKNQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .-.++.|.+..+++|.+.+..           +-...+-+-++|.+|+|||+||+++.+...-+
T Consensus       170 ~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~  233 (428)
T 4b4t_K          170 TYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAA  233 (428)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCE
T ss_pred             CHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            336778899988888776531           22345567789999999999999999886543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.40  E-value=0.0038  Score=54.65  Aligned_cols=52  Identities=23%  Similarity=0.373  Sum_probs=39.5

Q ss_pred             cCcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          174 KNQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      -.++.|.+..+++|.+.+..           +-...+=+-++|.+|+|||+||+++.+...-+
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~  242 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGAN  242 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            36777899888888776531           22345667789999999999999999986543

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=96.40  E-value=0.004  Score=51.87  Aligned_cols=38  Identities=21%  Similarity=0.239  Sum_probs=27.3

Q ss_pred             HHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          185 KEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+..++.........+-|+|..|+||||||+++++.+
T Consensus        24 ~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~   61 (324)
T 1l8q_A           24 EVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA   61 (324)
T ss_dssp             HHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            34444444332234567899999999999999999875

>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=96.39  E-value=0.0035  Score=55.11  Aligned_cols=50  Identities=24%  Similarity=0.262  Sum_probs=37.5

Q ss_pred             cCcccccchhHHHHHHHh---hcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEIESLL---GAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l---~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+++|.+..++.+..++   ..+....+-+-++|.+|+|||+||+++.+.+.
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            478999998877665543   33333334577899999999999999998865

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.38  E-value=0.0028  Score=51.72  Aligned_cols=51  Identities=22%  Similarity=0.324  Sum_probs=35.2

Q ss_pred             ccCcccccchhHHHHHHHhhc--C-------C-CCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          173 YKNQLVGVESRVKEIESLLGA--E-------S-KYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~--~-------~-~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+++|.+..+.++..+...  .       + .-.+-+.|+|..|+|||||++++.+...
T Consensus        38 ~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~   98 (278)
T 1iy2_A           38 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   98 (278)
T ss_dssp             CGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC
Confidence            346788988777777665431  0       0 0011288999999999999999987643

>3hyn_A Putative signal transduction protein; DUF1863 family protein, nucleotide-binding protein, structur genomics; HET: MSE; 1.20A {Eubacterium rectale atcc 33656}

Probab=96.37  E-value=0.017  Score=44.14  Aligned_cols=91  Identities=16%  Similarity=0.105  Sum_probs=64.8

Q ss_pred             cccEEEcc--------------ccccCCccHHHHHHHHHhhCCCeeEEeC-CCC-------C-CCcchHHHHHHHHhccc
Q 045657           16 KYDVFLSF--------------RGEDTRDNFTSHLYSALSLKSIQTFIDD-QLN-------R-GDEISQSLVYAIENSAI   72 (227)
Q Consensus        16 ~~dvFISy--------------~~~D~~~~~~~~L~~~L~~~g~~~~~d~-~~~-------~-g~~~~~~i~~~i~~s~~   72 (227)
                      +--+||+|              ..+|  ......|..--....+.-|.|. +..       . -..|...+.+.|..|+.
T Consensus         5 rn~~YvaF~~~~~~~~~~~~~~a~~D--i~yy~lL~aWk~n~n~F~F~D~Hd~~y~vrDsS~~e~tIKrrLReRI~~Sk~   82 (189)
T 3hyn_A            5 QNANYSAFYVSEPFSESNLGANSTHD--FVYYNMLRMWKGEDNSFPFNDAHDKTYNVRDGSDWEKTLKPRLHTRLDNSKN   82 (189)
T ss_dssp             CCEEEEECCCCSSCCTTSTTGGGSTT--HHHHHHHHHHHHHCTTSSCCBTTTTCCCTTSCCCTTTTHHHHHHHHHHTEEE
T ss_pred             ccCcEEEEeccCcccccccCCCccch--HHHHHHHHHHHcCCCceeecchhhccccccccccHHHHHHHHHHHHHHhcCc
Confidence            34578888              3444  4456777666666566566665 442       2 34577899999999999


Q ss_pred             EEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           73 SLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        73 ~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      +|+++|++...+.|..+|+..+..   +.+..||-|..+
T Consensus        83 vIllIs~~T~~s~~v~wEIe~Ai~---~~~~PII~Vy~~  118 (189)
T 3hyn_A           83 IILFLSSITANSRALREEMNYGIG---TKGLPVIVIYPD  118 (189)
T ss_dssp             EEEECCTTCCCCHHHHHHHHHHTT---TTCCCEEEEETT
T ss_pred             EEEEEecCccccchhHHHHHHHHH---hcCCcEEEEECC
Confidence            999999999999999999988762   234466666544

>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=96.34  E-value=0.0039  Score=58.18  Aligned_cols=47  Identities=26%  Similarity=0.321  Sum_probs=38.8

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|++..++.+...|....  ..-+-++|..|+|||+||+.+.+.+
T Consensus       185 ~d~~iGr~~~i~~l~~~l~~~~--~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          185 IDPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCccCCHHHHHHHHHHHhccC--CCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            3578999999999999887543  2335689999999999999999875

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.34  E-value=0.0032  Score=53.68  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ..+-++|..|+|||+||+++.+.+..
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~l~~   98 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKHLDI   98 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35678999999999999999987643

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=96.34  E-value=0.0037  Score=55.38  Aligned_cols=50  Identities=22%  Similarity=0.363  Sum_probs=36.3

Q ss_pred             CcccccchhHHHHHHHhhc--C--------CCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          175 NQLVGVESRVKEIESLLGA--E--------SKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~--~--------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .+++|.+..++++.+++..  .        -.-.+-+-++|..|+|||+||+++.+....
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~   75 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANV   75 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            5788998888877765431  1        011233679999999999999999987543

>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=96.33  E-value=0.0031  Score=59.85  Aligned_cols=48  Identities=21%  Similarity=0.387  Sum_probs=39.3

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....++|++..++.+...|.....  +-+-++|.+|+||||||+.+.+.+
T Consensus       168 ~ld~viGr~~~i~~l~~~l~~~~~--~~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          168 KLDPVIGRDEEIRRVIQILLRRTK--NNPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             CSCCCCSCHHHHHHHHHHHHCSSC--CCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCcccCCcHHHHHHHHHHHhcCCC--CceEEEcCCCCCHHHHHHHHHHHH
Confidence            346789999999999998875432  235689999999999999999886

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.32  E-value=0.0035  Score=54.28  Aligned_cols=53  Identities=23%  Similarity=0.323  Sum_probs=39.5

Q ss_pred             ccCcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          173 YKNQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .-.++.|.+..+++|.+.+..           +-...+=+=++|.+|+|||.||+++.+...-+
T Consensus       146 ~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~  209 (405)
T 4b4t_J          146 TYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCK  209 (405)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCE
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCC
Confidence            336778899988888776531           22334556789999999999999999986544

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.32  E-value=0.0032  Score=52.64  Aligned_cols=46  Identities=13%  Similarity=0.148  Sum_probs=36.2

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...++|++..++.+...+..+    .-+-++|..|+|||+||+++.+.+.
T Consensus        26 ~~~i~g~~~~~~~l~~~l~~~----~~vll~G~pGtGKT~la~~la~~~~   71 (331)
T 2r44_A           26 GKVVVGQKYMINRLLIGICTG----GHILLEGVPGLAKTLSVNTLAKTMD   71 (331)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHT----CCEEEESCCCHHHHHHHHHHHHHTT
T ss_pred             ccceeCcHHHHHHHHHHHHcC----CeEEEECCCCCcHHHHHHHHHHHhC
Confidence            356889988888887766543    2466899999999999999988754

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.31  E-value=0.0044  Score=54.25  Aligned_cols=52  Identities=19%  Similarity=0.265  Sum_probs=39.5

Q ss_pred             cCcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          174 KNQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      -.++.|.+..+++|.+.+..           +-...+-+-++|.+|+|||.||+++.+...-+
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~  242 (434)
T 4b4t_M          180 YSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT  242 (434)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE
T ss_pred             hHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCC
Confidence            36788999999888775421           12335667789999999999999999986543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.27  E-value=0.003  Score=52.24  Aligned_cols=29  Identities=38%  Similarity=0.603  Sum_probs=24.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      .+.+-++|.+|+|||+||+++++.+..+|
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~~l~~~~   64 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFRKMGINP   64 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHHTCCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            45678899999999999999999865443

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.24  E-value=0.0046  Score=54.45  Aligned_cols=51  Identities=18%  Similarity=0.325  Sum_probs=38.8

Q ss_pred             CcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          175 NQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .++.|.+..+++|.+.+..           +-...+-|-++|.+|+|||+||+++.+...-.
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~  270 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDAT  270 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCE
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCC
Confidence            4778899888888775431           22345667789999999999999999986544

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.20  E-value=0.0049  Score=50.49  Aligned_cols=48  Identities=21%  Similarity=0.186  Sum_probs=31.4

Q ss_pred             CcccccchhHHHHHHHhhc-----------C-CCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          175 NQLVGVESRVKEIESLLGA-----------E-SKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~-----------~-~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .++.|.+..+++|.+.+..           + ..... +.++|..|.|||||++++.....
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~G-vlL~Gp~GtGKTtLakala~~~~   69 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAG-VLLAGPPGCGKTLLAKAVANESG   69 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSE-EEEESSTTSCHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCe-EEEECCCCCcHHHHHHHHHHHcC
Confidence            4566777767666654310           0 11122 89999999999999999988643

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=95.98  E-value=0.0037  Score=46.40  Aligned_cols=26  Identities=23%  Similarity=0.381  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....+.|+|..|.|||||++++.+.+
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            45678999999999999999998875

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=95.87  E-value=0.0073  Score=52.89  Aligned_cols=26  Identities=31%  Similarity=0.376  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+-|+|..|+||||||+++++.+.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~  155 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVV  155 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            56788999999999999999998753

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=95.83  E-value=0.0065  Score=54.15  Aligned_cols=51  Identities=22%  Similarity=0.313  Sum_probs=36.4

Q ss_pred             ccCcccccchhHHHHHHHhhc---C----C---CCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          173 YKNQLVGVESRVKEIESLLGA---E----S---KYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~---~----~---~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+++|.+..+.++.+++..   .    .   .-.+-+.|+|..|+||||||+++.+...
T Consensus        29 ~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~   89 (499)
T 2dhr_A           29 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   89 (499)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT
T ss_pred             CHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            346789998887777665431   1    0   0112388999999999999999998753

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.82  E-value=0.01  Score=51.71  Aligned_cols=52  Identities=27%  Similarity=0.390  Sum_probs=39.0

Q ss_pred             cCcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          174 KNQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      -.++-|.+..+++|.+.+..           +-...+=|=++|.+|+|||.||+++.+...-+
T Consensus       181 ~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~  243 (437)
T 4b4t_I          181 YSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSAT  243 (437)
T ss_dssp             GGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCE
T ss_pred             ceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCC
Confidence            35777899888888775531           11334567789999999999999999886544

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.78  E-value=0.0042  Score=50.33  Aligned_cols=25  Identities=24%  Similarity=0.424  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..|.|.|+.|.||||+++.+.+.+.
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4789999999999999999987643

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=95.76  E-value=0.014  Score=49.47  Aligned_cols=39  Identities=26%  Similarity=0.307  Sum_probs=28.3

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++.+.+........+|+|+|.+|+|||||+..+...+
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            334444444344567899999999999999999886553

>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=95.76  E-value=0.013  Score=43.99  Aligned_cols=27  Identities=30%  Similarity=0.373  Sum_probs=23.4

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....++++.|..|.|||||.+.+..-+
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            456789999999999999999987754

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=95.72  E-value=0.013  Score=49.40  Aligned_cols=26  Identities=31%  Similarity=0.447  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++++|..|.||||+++.+...+
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999887653

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=95.67  E-value=0.0091  Score=49.92  Aligned_cols=27  Identities=26%  Similarity=0.433  Sum_probs=23.5

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....++||.|..|.|||||++.+..-+
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhc
Confidence            346799999999999999999987754

>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=95.59  E-value=0.013  Score=51.46  Aligned_cols=51  Identities=20%  Similarity=0.280  Sum_probs=35.6

Q ss_pred             CcccccchhHHHHHHHhhcC------------CCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          175 NQLVGVESRVKEIESLLGAE------------SKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~------------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ..++|.+.-++.|...+...            ....+-+-++|..|+||||+|+++...+...
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~   77 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAP   77 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            46788888777776554210            1122346789999999999999998875443

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.54  E-value=0.019  Score=48.18  Aligned_cols=26  Identities=23%  Similarity=0.261  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|+|.+|.||||++..+...+
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999877653

>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=95.54  E-value=0.0078  Score=56.60  Aligned_cols=51  Identities=24%  Similarity=0.360  Sum_probs=37.9

Q ss_pred             CcccccchhHHHHHHHhhc-----------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          175 NQLVGVESRVKEIESLLGA-----------ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~-----------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .++.|.+..+++|.+++..           +-...+-|-++|.+|+|||+||+++.+....+
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~  265 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF  265 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe
Confidence            4677888888888776531           11234567789999999999999998875443

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=95.46  E-value=0.0096  Score=49.77  Aligned_cols=47  Identities=21%  Similarity=0.236  Sum_probs=31.8

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+++|.+.-++.+...+....  ..-+-++|..|+|||+||+++++.+.
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~--~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPG--IGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG--GCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             hhccChHHHHHHHHHHhhCCC--CceEEEECCCCccHHHHHHHHHHhCc
Confidence            568898775554433322111  11277899999999999999998753

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.44  E-value=0.018  Score=47.47  Aligned_cols=25  Identities=32%  Similarity=0.441  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++-|.|+.|.||||||+.+.+++
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            5688899999999999999998764

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=95.37  E-value=0.021  Score=47.54  Aligned_cols=26  Identities=23%  Similarity=0.332  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++.|+|.+|.||||++..+...+
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHH
Confidence            46799999999999999999887654

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.36  E-value=0.021  Score=47.94  Aligned_cols=27  Identities=33%  Similarity=0.500  Sum_probs=23.2

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....++||.|..|.|||||++.+..-+
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            446799999999999999999886654

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.35  E-value=0.02  Score=44.70  Aligned_cols=25  Identities=28%  Similarity=0.373  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....+.|+|.+|+|||||+..+...
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4678899999999999999988765

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=95.33  E-value=0.014  Score=48.67  Aligned_cols=26  Identities=23%  Similarity=0.186  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|+|.+|.|||||++.+..-+
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            45699999999999999999987653

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.32  E-value=0.012  Score=52.50  Aligned_cols=44  Identities=18%  Similarity=0.071  Sum_probs=34.6

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      +.++|.+..++.+...+..+    .-+-++|.+|+|||+||+++.+.+
T Consensus        22 ~~ivGq~~~i~~l~~al~~~----~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT----CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhhHHHHHHHHHHHHHHhcC----CeeEeecCchHHHHHHHHHHHHHH
Confidence            56789988888777666533    246789999999999999998754

>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=95.31  E-value=0.02  Score=50.82  Aligned_cols=26  Identities=23%  Similarity=0.397  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|+|.+|.|||||++.+...+
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            35799999999999999999987654

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=95.30  E-value=0.017  Score=52.00  Aligned_cols=49  Identities=27%  Similarity=0.323  Sum_probs=34.7

Q ss_pred             CcccccchhHHHHHHHhhc----CCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          175 NQLVGVESRVKEIESLLGA----ESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~----~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+++|.+.-+..+...+..    .......+.++|..|+||||||+.+++.+.
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~  133 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLG  133 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHT
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4577877666666443321    112456889999999999999999988754

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.26  E-value=0.013  Score=48.70  Aligned_cols=26  Identities=27%  Similarity=0.266  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++++|..|.||||+++.+...+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999987654

>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=95.21  E-value=0.015  Score=48.24  Aligned_cols=27  Identities=33%  Similarity=0.441  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...++||.|..|.|||||++.+...+.
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            467999999999999999999877543

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=95.21  E-value=0.015  Score=48.67  Aligned_cols=26  Identities=27%  Similarity=0.480  Sum_probs=21.7

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+.++|+|.|=||+||||.+-.+.-.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~a   71 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAA   71 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHH
Confidence            36899999999999999998876544

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.18  E-value=0.016  Score=52.80  Aligned_cols=47  Identities=21%  Similarity=0.354  Sum_probs=37.3

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .....++|.+.-++.+...+..+    ..+.|+|..|+||||||+.+++.+
T Consensus        38 ~~l~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           38 KLIDQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             SHHHHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             cccceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhccC
Confidence            33467889888787777766644    378999999999999999998754

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.17  E-value=0.018  Score=49.37  Aligned_cols=29  Identities=24%  Similarity=0.073  Sum_probs=24.3

Q ss_pred             CCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          194 ESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       194 ~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      +-...++++|+|..|.|||||++.+....
T Consensus       165 ~i~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          165 NIPKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            34456789999999999999999988764

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.16  E-value=0.013  Score=48.14  Aligned_cols=23  Identities=35%  Similarity=0.681  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ...+|+|.|+.|.||||+|+.+.
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            35789999999999999999876

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.15  E-value=0.013  Score=47.20  Aligned_cols=26  Identities=31%  Similarity=0.330  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..++.+.|+.|.||||+|+.+...+.
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            46789999999999999999987753

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.11  E-value=0.018  Score=53.71  Aligned_cols=48  Identities=23%  Similarity=0.415  Sum_probs=37.5

Q ss_pred             CcccccchhHHHHHHHhhcCC-------CCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          175 NQLVGVESRVKEIESLLGAES-------KYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~-------~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++|.+..++.+...+....       .....+-++|..|+|||+||+++++.+
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l  545 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI  545 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            568899988888877665321       223468899999999999999999875

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.07  E-value=0.023  Score=47.21  Aligned_cols=40  Identities=23%  Similarity=0.258  Sum_probs=27.8

Q ss_pred             HHHHHHHhhcCCC-CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          184 VKEIESLLGAESK-YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       184 ~~~~~~~l~~~~~-~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      +..+.+++..-.. ....+-++|..|+|||+||+++++.+.
T Consensus       137 ~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          137 FSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             HHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            3344455543221 245677999999999999999998754

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.06  E-value=0.014  Score=48.43  Aligned_cols=25  Identities=24%  Similarity=0.238  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++++|.+|+||||++..+...+
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999999887654

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.06  E-value=0.029  Score=49.08  Aligned_cols=26  Identities=23%  Similarity=0.155  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++|.++|.+|+||||++..+...+
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l  124 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFL  124 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999887654

>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=94.99  E-value=0.015  Score=54.33  Aligned_cols=49  Identities=16%  Similarity=0.251  Sum_probs=37.0

Q ss_pred             CcccccchhHHHHHHHhhcC-------CCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          175 NQLVGVESRVKEIESLLGAE-------SKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~-------~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..++|.+..++.+...+...       ......+-++|..|+|||+||+++.+.+.
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~  513 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc
Confidence            56889888888777665421       12344688999999999999999988754

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.95  E-value=0.026  Score=44.38  Aligned_cols=39  Identities=18%  Similarity=0.215  Sum_probs=28.4

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      +..+..++.. -...+.+-++|.+|+||||+|.++.+.+.
T Consensus        45 ~~~l~~~~~~-iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           45 LGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhc-CCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4455555543 22345688999999999999999988764

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.91  E-value=0.019  Score=49.01  Aligned_cols=26  Identities=27%  Similarity=0.266  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|+|..|.|||||++.+...+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            35799999999999999999987764

>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=94.91  E-value=0.027  Score=46.66  Aligned_cols=25  Identities=32%  Similarity=0.349  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++++|.+|+||||++..+...+
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~  122 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFY  122 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999999877653

>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=94.90  E-value=0.015  Score=46.46  Aligned_cols=24  Identities=29%  Similarity=0.176  Sum_probs=20.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            345899999999999999998754

>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=94.77  E-value=0.031  Score=48.87  Aligned_cols=26  Identities=27%  Similarity=0.278  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+++.++|.+|+||||++..+...+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36899999999999999999887654

>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=94.71  E-value=0.018  Score=46.07  Aligned_cols=23  Identities=22%  Similarity=0.339  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G   53 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLA   53 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45799999999999999998764

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.69  E-value=0.018  Score=46.84  Aligned_cols=24  Identities=33%  Similarity=0.297  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999998754

>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=94.64  E-value=0.019  Score=46.50  Aligned_cols=23  Identities=30%  Similarity=0.241  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|+|..|.|||||.+.+..
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999998764

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=94.61  E-value=0.43  Score=38.99  Aligned_cols=24  Identities=25%  Similarity=0.349  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++++|.+|+|||||.+.+.+.
T Consensus       120 ~~~v~~vG~~nvGKSsliN~l~~~  143 (282)
T 1puj_A          120 AIRALIIGIPNVGKSTLINRLAKK  143 (282)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CceEEEEecCCCchHHHHHHHhcC
Confidence            446889999999999999987653

>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=94.61  E-value=0.019  Score=47.09  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|+|..|.|||||.+.+..
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            45899999999999999998754

>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=94.61  E-value=0.02  Score=46.62  Aligned_cols=24  Identities=25%  Similarity=0.263  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~G   68 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAG   68 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            345899999999999999998875

>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=94.61  E-value=0.019  Score=46.80  Aligned_cols=24  Identities=29%  Similarity=0.343  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            345899999999999999998754

>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=94.59  E-value=0.02  Score=45.87  Aligned_cols=23  Identities=35%  Similarity=0.343  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|+|..|.|||||.+.+..
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999998764

>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=94.59  E-value=0.051  Score=47.57  Aligned_cols=27  Identities=26%  Similarity=0.213  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+|.++|.+|+||||++..+...+.
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~  125 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQ  125 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHH
Confidence            368999999999999999998876543

>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=94.57  E-value=0.033  Score=46.42  Aligned_cols=29  Identities=14%  Similarity=0.173  Sum_probs=23.7

Q ss_pred             CCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          194 ESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       194 ~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-....+++|+|..|.|||||++.+..-+
T Consensus       122 ~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          122 GIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            33456789999999999999999987643

>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=94.54  E-value=0.02  Score=46.57  Aligned_cols=24  Identities=25%  Similarity=0.191  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHc
Confidence            346899999999999999998764

>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=94.49  E-value=0.022  Score=45.31  Aligned_cols=24  Identities=29%  Similarity=0.364  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+++|+|..|.|||||.+.+..-
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999987653

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=94.48  E-value=0.046  Score=48.72  Aligned_cols=26  Identities=23%  Similarity=0.183  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++|.|+|.+|+||||++..+...+
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l  125 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYY  125 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36799999999999999999887553

>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=94.45  E-value=0.03  Score=46.30  Aligned_cols=26  Identities=27%  Similarity=0.111  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++++|.+|.||||++..+...+
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~  122 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYY  122 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999887653

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=94.44  E-value=0.046  Score=46.04  Aligned_cols=35  Identities=23%  Similarity=0.295  Sum_probs=26.5

Q ss_pred             HHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          187 IESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       187 ~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +.+-+...-....+++|+|..|.|||||.+.+...
T Consensus        44 ~l~~i~~~~~~g~~v~i~G~~GaGKSTLl~~l~g~   78 (337)
T 2qm8_A           44 LIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSL   78 (337)
T ss_dssp             HHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHhCCcccCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            33334434456789999999999999999998754

>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=94.44  E-value=0.12  Score=43.98  Aligned_cols=41  Identities=22%  Similarity=0.195  Sum_probs=30.3

Q ss_pred             hhHHHHHHHhh-cCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          182 SRVKEIESLLG-AESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       182 ~~~~~~~~~l~-~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .....|..+|. .+=....++.|.|.+|+||||||..+....
T Consensus        44 TG~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~   85 (356)
T 3hr8_A           44 TGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEA   85 (356)
T ss_dssp             CSCHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCHHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            33455666665 333446799999999999999999987653

>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=94.43  E-value=0.023  Score=45.78  Aligned_cols=23  Identities=35%  Similarity=0.482  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|+|..|.|||||.+.+..
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~G   57 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQR   57 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999998754

>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=94.40  E-value=0.036  Score=45.43  Aligned_cols=26  Identities=19%  Similarity=0.060  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|.|.+|.|||||++.+...+
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999887663

>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=94.40  E-value=0.051  Score=45.75  Aligned_cols=31  Identities=26%  Similarity=0.219  Sum_probs=24.6

Q ss_pred             hhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          191 LGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       191 l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +........+++|.|.+|.|||||++.+...
T Consensus        49 l~~~~~~~~~i~i~G~~g~GKSTl~~~l~~~   79 (341)
T 2p67_A           49 IMPYCGNTLRLGVTGTPGAGKSTFLEAFGML   79 (341)
T ss_dssp             HGGGCSCSEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCcccCCCEEEEEEcCCCCCHHHHHHHHHHH
Confidence            3333456789999999999999999988654

>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=94.39  E-value=0.023  Score=46.03  Aligned_cols=24  Identities=38%  Similarity=0.382  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999998764

>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=94.39  E-value=0.03  Score=53.08  Aligned_cols=47  Identities=17%  Similarity=0.410  Sum_probs=36.5

Q ss_pred             cccccchhHHHHHHHhhcC-------CCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          176 QLVGVESRVKEIESLLGAE-------SKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~~-------~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .++|.+..++.+...+...       ......+-++|..|+|||+||+++++.+
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689888888887766431       1224578899999999999999999875

>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=94.39  E-value=0.029  Score=49.00  Aligned_cols=25  Identities=32%  Similarity=0.332  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .++|.++|.+|+||||++..+...+
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999877653

>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=94.37  E-value=0.032  Score=47.23  Aligned_cols=37  Identities=24%  Similarity=0.346  Sum_probs=27.9

Q ss_pred             HHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          186 EIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       186 ~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .|..+|..+=....++.|+|..|.|||||+..+....
T Consensus       119 ~LD~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          119 SLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             HHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3444554333457899999999999999999987654

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.34  E-value=0.024  Score=45.98  Aligned_cols=24  Identities=33%  Similarity=0.475  Sum_probs=20.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~G   68 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYR   68 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999998754

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.32  E-value=0.024  Score=46.09  Aligned_cols=24  Identities=25%  Similarity=0.198  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            345899999999999999998764

>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=94.31  E-value=0.02  Score=45.11  Aligned_cols=23  Identities=35%  Similarity=0.471  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|+|..|.|||||.+.+..
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~G   57 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTIST   57 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            44799999999999999998764

>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=94.30  E-value=0.076  Score=44.95  Aligned_cols=40  Identities=23%  Similarity=0.247  Sum_probs=28.9

Q ss_pred             hhHHHHHHHhh-cCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          182 SRVKEIESLLG-AESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       182 ~~~~~~~~~l~-~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .....|..+|. .+=...+++.|.|.+|+||||||..+...
T Consensus        44 TG~~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~   84 (349)
T 2zr9_A           44 TGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVAN   84 (349)
T ss_dssp             CSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34455556665 33334568999999999999999987655

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.29  E-value=0.025  Score=46.19  Aligned_cols=24  Identities=25%  Similarity=0.263  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~G   67 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQN   67 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999998764

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.26  E-value=0.025  Score=46.42  Aligned_cols=23  Identities=26%  Similarity=0.375  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|+|..|.|||||.+.+..
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~G   69 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNA   69 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999998764

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.22  E-value=0.046  Score=49.27  Aligned_cols=27  Identities=33%  Similarity=0.518  Sum_probs=23.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...++.|+|+.|.|||||++.+...+.
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhhc
Confidence            356899999999999999999988754

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.16  E-value=0.028  Score=45.45  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~G   53 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLG   53 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            34799999999999999998764

>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=94.07  E-value=0.062  Score=43.81  Aligned_cols=37  Identities=24%  Similarity=0.170  Sum_probs=28.2

Q ss_pred             HHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          185 KEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .-+..+|.......+.+-++|.+|+|||.+|.++.+.
T Consensus        91 ~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            3355666544344567899999999999999999875

>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=93.87  E-value=0.058  Score=48.14  Aligned_cols=27  Identities=4%  Similarity=0.080  Sum_probs=23.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+|-+.|+.|.||||||+++..++.
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~L~  420 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLSTFL  420 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHHT
T ss_pred             cceEEEecccCCCCHHHHHHHHHHHHH
Confidence            457888899999999999999999865

>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=93.83  E-value=0.042  Score=46.65  Aligned_cols=25  Identities=20%  Similarity=0.254  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|+|..|.|||||++.+...+
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999887653

>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=93.80  E-value=0.026  Score=48.97  Aligned_cols=25  Identities=24%  Similarity=0.262  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+|-|+|+.|.||||+|+.+..+
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            4678999999999999999998765

>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=93.75  E-value=0.032  Score=46.43  Aligned_cols=24  Identities=42%  Similarity=0.524  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCchHHHHHHHHHc
Confidence            456899999999999999998754

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.70  E-value=0.042  Score=41.51  Aligned_cols=24  Identities=21%  Similarity=0.156  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...|.|+|..|+|||||...+.+.
T Consensus        48 ~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           48 QPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            456889999999999999987654

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=93.64  E-value=0.025  Score=47.80  Aligned_cols=26  Identities=19%  Similarity=0.270  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ..+|.|+|+.|+||||||..+..++.
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            35889999999999999999987643

>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=93.59  E-value=0.055  Score=45.47  Aligned_cols=24  Identities=25%  Similarity=0.252  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+++-|+|++|+|||+||.++...
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            356679999999999999998664

>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=93.50  E-value=0.072  Score=44.08  Aligned_cols=31  Identities=23%  Similarity=0.372  Sum_probs=24.9

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      +++|...+.     -.++++.|..|+|||||.+.+.
T Consensus       156 i~~L~~~l~-----G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLE-----GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTT-----TCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhcc-----CcEEEEECCCCCCHHHHHHHHH
Confidence            556666554     2478999999999999999987

>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=93.50  E-value=0.073  Score=48.17  Aligned_cols=27  Identities=30%  Similarity=0.388  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+|.|.|+.|.||||+|+++.+.+.
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhc
Confidence            356899999999999999999988754

>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=93.48  E-value=0.042  Score=45.38  Aligned_cols=24  Identities=29%  Similarity=0.322  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~G   86 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMG   86 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            345899999999999999998764

>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=93.45  E-value=0.056  Score=48.32  Aligned_cols=26  Identities=19%  Similarity=0.229  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+|-++|+.|.||||+|+.+.+.+
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34678899999999999999987664

>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=93.45  E-value=0.046  Score=46.71  Aligned_cols=24  Identities=29%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~G   76 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNL   76 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhc
Confidence            356899999999999999998764

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=93.38  E-value=0.1  Score=42.04  Aligned_cols=26  Identities=23%  Similarity=0.471  Sum_probs=21.4

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .....|+++|..|+|||||...+...
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34556889999999999999988653

>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=93.33  E-value=0.067  Score=46.60  Aligned_cols=27  Identities=26%  Similarity=0.108  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...++.++|.+|.||||++..+...+.
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~  123 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK  123 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            357899999999999999998876643

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.28  E-value=0.051  Score=46.23  Aligned_cols=23  Identities=43%  Similarity=0.505  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      -.+++|.|..|.|||||.+.+..
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999998864

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=93.25  E-value=0.064  Score=47.17  Aligned_cols=25  Identities=20%  Similarity=0.246  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..+|-++|+.|.||||+++.+.+.+
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l   63 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYL   63 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4578899999999999999987764

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=93.11  E-value=0.1  Score=42.14  Aligned_cols=25  Identities=28%  Similarity=0.537  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ....|.++|..|+|||||...+.+.
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            3556789999999999999988754

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=93.07  E-value=0.045  Score=47.50  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            455899999999999999999876

>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=92.93  E-value=0.17  Score=42.91  Aligned_cols=43  Identities=19%  Similarity=0.257  Sum_probs=29.6

Q ss_pred             ccchhHHHHHHHhh-cCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          179 GVESRVKEIESLLG-AESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       179 g~~~~~~~~~~~l~-~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +.......|..+|. .+=...+++-|.|.+|+||||||..+...
T Consensus        43 ~i~TG~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~   86 (356)
T 1u94_A           43 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAA   86 (356)
T ss_dssp             EECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cccCCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            33344555566664 23234568889999999999999987655

>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=92.92  E-value=0.061  Score=46.04  Aligned_cols=24  Identities=38%  Similarity=0.270  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|.|..|.|||||.+.+..
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHHc
Confidence            356899999999999999998864

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=92.91  E-value=0.079  Score=44.79  Aligned_cols=26  Identities=23%  Similarity=0.340  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+..+++|+|.+|.|||||.+.+...
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~~   97 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGKM   97 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHH
Confidence            34789999999999999999998764

>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=92.91  E-value=0.045  Score=46.47  Aligned_cols=23  Identities=43%  Similarity=0.515  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45799999999999999998865

>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=92.90  E-value=0.061  Score=46.47  Aligned_cols=37  Identities=19%  Similarity=0.293  Sum_probs=26.9

Q ss_pred             hHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHH
Q 045657          183 RVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ....|..+|..+=....++.|+|..|+|||||+..+.
T Consensus       163 G~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          163 GSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             SCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHH
T ss_pred             CChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHH
Confidence            3455556664333345689999999999999999764

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=92.56  E-value=0.075  Score=44.98  Aligned_cols=26  Identities=27%  Similarity=0.433  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....++|.|..|.|||||.+.+.+..
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34579999999999999999988763

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=92.51  E-value=0.16  Score=42.17  Aligned_cols=37  Identities=19%  Similarity=0.081  Sum_probs=26.1

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...|.+++ .+=....++-|.|.+|+||||||..+...
T Consensus        55 ~~~LD~~l-gGl~~G~l~li~G~pG~GKTtl~l~ia~~   91 (315)
T 3bh0_A           55 FTELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKN   91 (315)
T ss_dssp             CHHHHHHH-SSBCTTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hHHHHhhc-CCCCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            34444545 33234567888899999999999987655

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=92.40  E-value=0.16  Score=45.61  Aligned_cols=27  Identities=22%  Similarity=0.283  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+|.+.|+.|.||||+|+.+...+.
T Consensus       371 ~~~~I~l~G~~GsGKSTia~~La~~L~  397 (546)
T 2gks_A          371 QGFCVWLTGLPCAGKSTIAEILATMLQ  397 (546)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cceEEEccCCCCCCHHHHHHHHHHHhh
Confidence            357899999999999999999887643

>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=92.40  E-value=0.076  Score=45.73  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhC
Confidence            456899999999999999998764

>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=92.39  E-value=0.1  Score=44.48  Aligned_cols=26  Identities=27%  Similarity=0.280  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|+|..|.|||||.+.+...+
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            45689999999999999999987653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=92.38  E-value=0.075  Score=47.70  Aligned_cols=75  Identities=9%  Similarity=0.013  Sum_probs=42.7

Q ss_pred             HHHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           37 YSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        37 ~~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      .+.|+.-|+....+.   ++..|+.-.-.|..++-.--..+++==|...-.+--..++...+......+..|+-|-++
T Consensus       140 ~~~l~~lgl~~~~~~~~~~LSgGekQRv~iAraL~~~P~lLlLDEPTs~LD~~~~~~l~~~L~~l~~~g~tvi~vsHd  217 (538)
T 1yqt_A          140 EEVVKALELENVLEREIQHLSGGELQRVAIAAALLRNATFYFFDEPSSYLDIRQRLNAARAIRRLSEEGKSVLVVEHD  217 (538)
T ss_dssp             HHHHHHTTCTTTTTSBGGGCCHHHHHHHHHHHHHHSCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSC
T ss_pred             HHHHHHcCCChhhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHhcCCEEEEEeCC
Confidence            345555666543333   456666666677777766555555555665555555556666555543334456555544

>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=92.38  E-value=0.13  Score=42.40  Aligned_cols=32  Identities=25%  Similarity=0.425  Sum_probs=24.7

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ++++...+.     -.+++++|..|+|||||.+.+..
T Consensus       160 v~~lf~~l~-----geiv~l~G~sG~GKSTll~~l~g  191 (301)
T 1u0l_A          160 IEELKEYLK-----GKISTMAGLSGVGKSSLLNAINP  191 (301)
T ss_dssp             HHHHHHHHS-----SSEEEEECSTTSSHHHHHHHHST
T ss_pred             HHHHHHHhc-----CCeEEEECCCCCcHHHHHHHhcc
Confidence            555555554     23789999999999999998754

>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=92.36  E-value=0.097  Score=47.86  Aligned_cols=26  Identities=31%  Similarity=0.396  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+|-+.|+.|.||||+|+.+.+.+
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L   76 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYL   76 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999998876

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=92.36  E-value=0.065  Score=47.16  Aligned_cols=25  Identities=24%  Similarity=0.191  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||++.+.+-
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCc
Confidence            3457999999999999999998763

>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=92.25  E-value=0.1  Score=44.38  Aligned_cols=24  Identities=29%  Similarity=0.306  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHh
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .+++|.|..|.|||||.+.+.+.+
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~~  147 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDYL  147 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcc
Confidence            489999999999999999987653

>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=92.15  E-value=0.16  Score=42.67  Aligned_cols=38  Identities=21%  Similarity=0.280  Sum_probs=28.3

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...|..+|..+=....++-|.|..|+||||||..+...
T Consensus       108 ~~~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~  145 (343)
T 1v5w_A          108 SQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVT  145 (343)
T ss_dssp             CHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             ChhHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34455556434345678999999999999999987765

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=92.14  E-value=0.06  Score=45.74  Aligned_cols=24  Identities=29%  Similarity=0.421  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...++|+|..|.|||||.+.+..-
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            347899999999999999998764

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=92.05  E-value=0.073  Score=47.81  Aligned_cols=73  Identities=12%  Similarity=-0.015  Sum_probs=40.9

Q ss_pred             HHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           38 SALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        38 ~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      +.|+.-|+....+.   ++..|+.-.-.|..++-.--..+++==|...-.+-...++...+..... +..|+-|-++
T Consensus       121 ~~l~~l~l~~~~~~~~~~LSgGe~Qrv~iA~aL~~~p~illlDEPts~LD~~~~~~l~~~l~~l~~-g~tii~vsHd  196 (538)
T 3ozx_A          121 EVKELLNMTNLWNKDANILSGGGLQRLLVAASLLREADVYIFDQPSSYLDVRERMNMAKAIRELLK-NKYVIVVDHD  196 (538)
T ss_dssp             HHHHHTTCGGGTTSBGGGCCHHHHHHHHHHHHHHSCCSEEEEESTTTTCCHHHHHHHHHHHHHHCT-TSEEEEECSC
T ss_pred             HHHHHcCCchhhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEECCcccCCHHHHHHHHHHHHHHhC-CCEEEEEEeC
Confidence            34455555444443   4566666656777777665555555556655555555566665554433 4455555444

>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=92.02  E-value=0.078  Score=46.20  Aligned_cols=20  Identities=30%  Similarity=0.566  Sum_probs=18.7

Q ss_pred             EEEEcCCCchHHHHHHHHHH
Q 045657          201 LGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       201 ~~i~G~gG~GKTtla~~v~~  220 (227)
                      ++|+|..|.|||||.+.++.
T Consensus        45 vaLvG~nGaGKSTLln~L~G   64 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFN   64 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            99999999999999999875

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=92.00  E-value=0.089  Score=47.23  Aligned_cols=25  Identities=28%  Similarity=0.400  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        46 ~Ge~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           46 EGMVVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999998753

>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=91.93  E-value=0.097  Score=44.52  Aligned_cols=22  Identities=23%  Similarity=0.373  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCchHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      .+++|+|..|+|||||.+.+..
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g  237 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLG  237 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHC
T ss_pred             CEEEEECCCCccHHHHHHHHhc
Confidence            3789999999999999998764

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=91.86  E-value=0.15  Score=43.28  Aligned_cols=27  Identities=22%  Similarity=0.180  Sum_probs=21.9

Q ss_pred             CCeEEEEEEc-CCCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIWG-FGGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~G-~gG~GKTtla~~v~~~~  222 (227)
                      ...++|+|++ -||+||||+|-.+...+
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~L  168 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAH  168 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHH
Confidence            4578999985 89999999998876553

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=91.70  E-value=0.079  Score=40.98  Aligned_cols=24  Identities=29%  Similarity=0.376  Sum_probs=19.4

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..-|.|+|..|+|||||.+.+.+.
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            345788999999999999987643

>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=91.67  E-value=0.1  Score=47.60  Aligned_cols=74  Identities=11%  Similarity=0.046  Sum_probs=42.6

Q ss_pred             HHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           38 SALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        38 ~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      +.|+.-|+.-..+.   ++..|+.-.-.|..++-.--..+++==|...-..--..++...+......+..|+-|-++
T Consensus       211 ~~L~~lgL~~~~~~~~~~LSGGekQRvaIAraL~~~P~lLlLDEPTs~LD~~~~~~l~~~L~~l~~~g~tvIivsHd  287 (607)
T 3bk7_A          211 EVVKELELENVLDRELHQLSGGELQRVAIAAALLRKAHFYFFDEPSSYLDIRQRLKVARVIRRLANEGKAVLVVEHD  287 (607)
T ss_dssp             HHHHHTTCTTGGGSBGGGCCHHHHHHHHHHHHHHSCCSEEEEECTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSC
T ss_pred             HHHHHcCCCchhCCChhhCCHHHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHhcCCEEEEEecC
Confidence            44555566544443   456666666677777766655555555665555555566666665543334556656544

>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=91.61  E-value=0.093  Score=40.99  Aligned_cols=24  Identities=25%  Similarity=0.321  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      -+.+.|.|..|+||||||.++..+
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            356789999999999999988654

>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=91.56  E-value=0.21  Score=43.69  Aligned_cols=23  Identities=30%  Similarity=0.511  Sum_probs=20.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHh
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .+-|.|.+|.||||++..+...+
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            78889999999999999887764

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=91.51  E-value=0.11  Score=45.29  Aligned_cols=26  Identities=15%  Similarity=0.291  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-..++|.|..|.|||||.+.+.+-.
T Consensus       156 ~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          156 RGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45679999999999999999988753

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=91.47  E-value=0.27  Score=42.05  Aligned_cols=27  Identities=22%  Similarity=0.239  Sum_probs=22.2

Q ss_pred             CCeEEEEEE-cCCCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIW-GFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~-G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|+|+ |-||+||||+|-.+...+
T Consensus       106 ~~~~vIav~s~KGGvGKTT~a~nLA~~L  133 (398)
T 3ez2_A          106 SEAYVIFISNLKGGVSKTVSTVSLAHAM  133 (398)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCccHHHHHHHHHHHH
Confidence            457889888 789999999999876654

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=91.46  E-value=0.11  Score=47.37  Aligned_cols=76  Identities=9%  Similarity=-0.008  Sum_probs=44.9

Q ss_pred             HHHHHhhCCCeeEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEee
Q 045657           36 LYSALSLKSIQTFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYR  111 (227)
Q Consensus        36 L~~~L~~~g~~~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~  111 (227)
                      +.+.|+.-|+....+.   ++..|+.-.-+|..++-.--..+++==|...-.+.-..++...+......+..|+-|-++
T Consensus       202 ~~~~l~~~gl~~~~~~~~~~LSgGe~Qrv~iAraL~~~p~llllDEPts~LD~~~~~~l~~~l~~l~~~g~tvi~vtHd  280 (608)
T 3j16_B          202 VKRYIKILQLENVLKRDIEKLSGGELQRFAIGMSCVQEADVYMFDEPSSYLDVKQRLNAAQIIRSLLAPTKYVICVEHD  280 (608)
T ss_dssp             HHHHHHHHTCTGGGGSCTTTCCHHHHHHHHHHHHHHSCCSEEEEECTTTTCCHHHHHHHHHHHHGGGTTTCEEEEECSC
T ss_pred             HHHHHHHcCCcchhCCChHHCCHHHHHHHHHHHHHHhCCCEEEEECcccCCCHHHHHHHHHHHHHHHhCCCEEEEEeCC
Confidence            4445556666555554   566676666677788766555555555665555655666666666554444456555444

>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=91.42  E-value=0.061  Score=44.77  Aligned_cols=22  Identities=32%  Similarity=0.379  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCchHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      .+++|+|..|+|||||.+.+..
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g  195 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISP  195 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHhcc
Confidence            4889999999999999998754

>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=91.32  E-value=0.16  Score=37.37  Aligned_cols=23  Identities=30%  Similarity=0.261  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+..|+|..|.|||||..+++--
T Consensus        24 g~~~I~G~NGsGKStil~Ai~~~   46 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAILVG   46 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46789999999999999998654

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=91.25  E-value=0.23  Score=43.41  Aligned_cols=43  Identities=16%  Similarity=0.232  Sum_probs=28.9

Q ss_pred             ccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          179 GVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       179 g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      |.......|.+++ .+=....++.|.|-+|+|||||+..+...+
T Consensus       185 ~i~tG~~~LD~~~-gGl~~G~liiI~G~pG~GKTtl~l~ia~~~  227 (454)
T 2r6a_A          185 GIPTGFTELDRMT-SGFQRSDLIIVAARPSVGKTAFALNIAQNV  227 (454)
T ss_dssp             SBCCSCHHHHHHH-SSBCTTCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCCCcHHHHhhc-CCCCCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3333344455544 222345688899999999999999887663

>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=91.15  E-value=0.083  Score=44.35  Aligned_cols=23  Identities=30%  Similarity=0.364  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++|+|..|.|||||.+.+..-
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~  194 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEF  194 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999987654

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=91.09  E-value=0.054  Score=49.22  Aligned_cols=48  Identities=15%  Similarity=0.008  Sum_probs=32.4

Q ss_pred             cCcccccchhHHHHHHHhhcCCCC---------eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          174 KNQLVGVESRVKEIESLLGAESKY---------VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~---------~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+.++|.+.-++.+...|..+...         -.-+-++|.+|+|||+||+++++.
T Consensus       294 ~~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~  350 (595)
T 3f9v_A          294 APSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRV  350 (595)
T ss_dssp             SSTTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTT
T ss_pred             cchhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHh
Confidence            467889887666665444433100         003668999999999999988764

>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=91.07  E-value=0.17  Score=43.92  Aligned_cols=26  Identities=23%  Similarity=0.128  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|.|..|.|||||.+++...+
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhhc
Confidence            45689999999999999999988764

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=91.06  E-value=0.13  Score=46.95  Aligned_cols=25  Identities=36%  Similarity=0.476  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus       102 ~Gei~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          102 PGQVLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcC
Confidence            3568999999999999999987653

>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=90.98  E-value=0.11  Score=48.74  Aligned_cols=51  Identities=25%  Similarity=0.356  Sum_probs=36.0

Q ss_pred             CcccccchhHHHHHHHhhcC-----------CCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          175 NQLVGVESRVKEIESLLGAE-----------SKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~-----------~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .++.|.+..+++|.+.+...           ....+-+-++|.+|.|||.||+++.+....+
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~  538 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN  538 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc
Confidence            56667888888877655321           1223446689999999999999999875443

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=90.97  E-value=0.13  Score=40.15  Aligned_cols=22  Identities=32%  Similarity=0.525  Sum_probs=18.7

Q ss_pred             eEEEEEEcCCCchHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ..-|.|+|-+|+|||||...+.
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~   58 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFA   58 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            4457899999999999998765

>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=90.93  E-value=0.12  Score=46.99  Aligned_cols=25  Identities=32%  Similarity=0.412  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus       116 ~Ge~~~LiG~NGsGKSTLlkiL~Gl  140 (607)
T 3bk7_A          116 DGMVVGIVGPNGTGKTTAVKILAGQ  140 (607)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCC
Confidence            3468999999999999999987653

>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=90.81  E-value=0.15  Score=42.48  Aligned_cols=37  Identities=19%  Similarity=0.248  Sum_probs=26.5

Q ss_pred             HHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          185 KEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..|..+|..+=....++-|+|.+|+||||||..+...
T Consensus        94 ~~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~  130 (324)
T 2z43_A           94 QALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVN  130 (324)
T ss_dssp             HHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             hhHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHH
Confidence            3444555432233568899999999999999988765

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=90.79  E-value=0.097  Score=45.48  Aligned_cols=21  Identities=33%  Similarity=0.581  Sum_probs=18.5

Q ss_pred             EEEEcCCCchHHHHHHHHHHH
Q 045657          201 LGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       201 ~~i~G~gG~GKTtla~~v~~~  221 (227)
                      |+|+|..|+|||||.+.+...
T Consensus        34 I~lvG~sGaGKSTLln~L~g~   54 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLT   54 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            399999999999999988654

>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=90.76  E-value=0.17  Score=45.14  Aligned_cols=36  Identities=17%  Similarity=0.186  Sum_probs=26.4

Q ss_pred             HHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          187 IESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       187 ~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      +..+|..+-..-.+++|.|..|.|||||++.+....
T Consensus       270 ld~vL~g~i~~G~i~~i~G~~GsGKSTLl~~l~g~~  305 (525)
T 1tf7_A          270 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENA  305 (525)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHhCCCCCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            444444332345689999999999999999987653

>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=90.69  E-value=0.19  Score=41.58  Aligned_cols=38  Identities=26%  Similarity=0.258  Sum_probs=27.7

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...|..+|..+=....++-|.|.+|+||||||..+.-.
T Consensus        84 ~~~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           84 SSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             CHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             ChhHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            44555555433234578999999999999999987654

>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=90.18  E-value=0.15  Score=46.09  Aligned_cols=25  Identities=32%  Similarity=0.282  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus       368 ~G~~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          368 QGKTVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999987653

>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=89.98  E-value=0.16  Score=45.85  Aligned_cols=24  Identities=38%  Similarity=0.367  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus       368 ~G~~~~ivG~sGsGKSTLl~~l~g  391 (582)
T 3b60_A          368 AGKTVALVGRSGSGKSTIASLITR  391 (582)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            346899999999999999998764

>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=89.94  E-value=0.79  Score=38.94  Aligned_cols=41  Identities=27%  Similarity=0.244  Sum_probs=28.1

Q ss_pred             chhHHHHHHHhh-cCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          181 ESRVKEIESLLG-AESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       181 ~~~~~~~~~~l~-~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ......|..+|. .+=...+++-|.|.+|+||||||..+...
T Consensus        56 ~TG~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~   97 (366)
T 1xp8_A           56 STGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQ   97 (366)
T ss_dssp             CCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCCHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHH
Confidence            334555666664 22233457888999999999999987655

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=89.94  E-value=0.3  Score=42.52  Aligned_cols=44  Identities=25%  Similarity=0.206  Sum_probs=29.5

Q ss_pred             cccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          178 VGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       178 ~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .|.......|.+++ .+=....++-|.|.+|+||||||..+....
T Consensus       181 ~~i~tG~~~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~  224 (444)
T 2q6t_A          181 AGVRTGFKELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNA  224 (444)
T ss_dssp             --CCCSCHHHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CcccCCCHhhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34444455566655 333345678889999999999999877653

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=89.87  E-value=0.16  Score=41.39  Aligned_cols=25  Identities=20%  Similarity=0.262  Sum_probs=19.2

Q ss_pred             eEEEEEEc---CCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWG---FGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G---~gG~GKTtla~~v~~~~  222 (227)
                      .+++.|++   -||+||||+|..+...+
T Consensus        34 ~~~i~v~~~s~KGGvGKTT~a~nLA~~l   61 (298)
T 2oze_A           34 NEAIVILNNYFKGGVGKSKLSTMFAYLT   61 (298)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEEeccCCCCchHHHHHHHHHHHH
Confidence            34666765   89999999999876553

>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=89.87  E-value=0.17  Score=45.07  Aligned_cols=22  Identities=23%  Similarity=0.185  Sum_probs=19.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAI  218 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v  218 (227)
                      .-.+++|+|..|.|||||++.+
T Consensus        38 ~Ge~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           38 IGRSTLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHH
Confidence            4568999999999999999984

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=89.72  E-value=0.4  Score=41.63  Aligned_cols=48  Identities=21%  Similarity=0.317  Sum_probs=32.6

Q ss_pred             cCcccccchhHHHHHHHhhcC---------CCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          174 KNQLVGVESRVKEIESLLGAE---------SKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~---------~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +.+=.|.++-++.+.+.+...         .....-++|+|.+|+|||||.+.+...
T Consensus       147 A~~g~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~  203 (439)
T 1mky_A          147 AEHNINLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNK  203 (439)
T ss_dssp             TTTTBSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             ccCCCCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCC
Confidence            344456666666666655321         123467899999999999999988654

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=89.67  E-value=0.13  Score=43.59  Aligned_cols=21  Identities=38%  Similarity=0.619  Sum_probs=18.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHH
Q 045657          200 TLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~  220 (227)
                      -|+|+|..|+|||||.+.++.
T Consensus        39 ~I~vvG~~g~GKSTLln~L~~   59 (361)
T 2qag_A           39 TLMVVGESGLGKSTLINSLFL   59 (361)
T ss_dssp             CEEECCCTTSCHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHhC
Confidence            358999999999999999764

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=89.63  E-value=0.44  Score=39.19  Aligned_cols=27  Identities=26%  Similarity=0.155  Sum_probs=21.8

Q ss_pred             CCeEEEEEEcC-CCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIWGF-GGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~G~-gG~GKTtla~~v~~~~  222 (227)
                      ...++|.|.|. ||+||||+|..+...+
T Consensus       102 ~~~kvI~vts~kgG~GKTtva~nLA~~l  129 (299)
T 3cio_A          102 TENNILMITGATPDSGKTFVSSTLAAVI  129 (299)
T ss_dssp             CSCCEEEEEESSSSSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCChHHHHHHHHHHH
Confidence            45679999986 8999999999876653

>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=89.62  E-value=0.28  Score=41.97  Aligned_cols=45  Identities=27%  Similarity=0.269  Sum_probs=31.9

Q ss_pred             cccccchhHHHHHHHhhc-CCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          176 QLVGVESRVKEIESLLGA-ESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       176 ~~~g~~~~~~~~~~~l~~-~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .++|....++++.+.+.. ...+.. |-|.|..|+|||++|+.++..
T Consensus       138 ~~ig~s~~m~~l~~~i~~~a~~~~~-vli~Ge~GtGK~~lAr~ih~~  183 (387)
T 1ny5_A          138 EYVFESPKMKEILEKIKKISCAECP-VLITGESGVGKEVVARLIHKL  183 (387)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSC-EEEECSTTSSHHHHHHHHHHH
T ss_pred             hhhhccHHhhHHHHHHHHhcCCCCC-eEEecCCCcCHHHHHHHHHHh
Confidence            456666667777665543 222333 478999999999999999875

>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=89.38  E-value=0.41  Score=43.27  Aligned_cols=24  Identities=29%  Similarity=0.307  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHh
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .++-|.|.+|.||||++..+...+
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l  228 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLA  228 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            467789999999999999887653

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=89.27  E-value=0.35  Score=39.04  Aligned_cols=35  Identities=23%  Similarity=0.132  Sum_probs=25.5

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +++|.+.+...-   ..++++|..|+|||||.+.+...
T Consensus        88 i~~L~~~l~~~~---~~v~~vG~~~vGKSslin~l~~~  122 (262)
T 3cnl_A           88 KVLLKKLSFDRL---ARVLIVGVPNTGKSTIINKLKGK  122 (262)
T ss_dssp             HHHHHHHCCCTT---CEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhh---hheEEeCCCCCCHHHHHHHHhcc
Confidence            556666554211   46789999999999999987653

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=89.26  E-value=0.39  Score=40.46  Aligned_cols=37  Identities=11%  Similarity=0.027  Sum_probs=25.6

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...|.+++. +=....++-|.|.+|+||||||..+...
T Consensus        33 ~~~LD~~~g-Gl~~G~LiiIaG~pG~GKTt~al~ia~~   69 (338)
T 4a1f_A           33 FVQLDNYTS-GFNKGSLVIIGARPSMGKTSLMMNMVLS   69 (338)
T ss_dssp             CHHHHHHHC-SBCTTCEEEEEECTTSCHHHHHHHHHHH
T ss_pred             ChHHHHHhc-CCCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            444444443 2223457778899999999999988665

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=89.17  E-value=0.23  Score=41.94  Aligned_cols=24  Identities=29%  Similarity=0.393  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++++|..|+|||||.+.+..
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~  189 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTT  189 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            466899999999999999988754

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=89.16  E-value=0.4  Score=41.88  Aligned_cols=44  Identities=23%  Similarity=0.154  Sum_probs=29.9

Q ss_pred             cccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          178 VGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       178 ~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .|.......|.+++. +=....++-|.|.+|+||||||-.+....
T Consensus       178 ~gi~TG~~~LD~~lg-Gl~~G~liiIaG~pG~GKTtlal~ia~~~  221 (444)
T 3bgw_A          178 TGVPSGFTELDRMTY-GYKRRNFVLIAARPSMGKTAFALKQAKNM  221 (444)
T ss_dssp             CSBCCSCHHHHHHHS-SBCSSCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CCcCCCcHHHHhhcC-CCCCCcEEEEEeCCCCChHHHHHHHHHHH
Confidence            344444555555552 32345578888999999999999887653

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=89.12  E-value=0.22  Score=42.36  Aligned_cols=25  Identities=24%  Similarity=0.460  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +..+++|+|..|+|||||.+.+.+.
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~  202 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGL  202 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCC
Confidence            4667999999999999999987643

>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=88.51  E-value=0.27  Score=43.28  Aligned_cols=24  Identities=29%  Similarity=0.742  Sum_probs=20.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHhh
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .++|+|-.|+|||||++.+...+.
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~~  176 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNIA  176 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCccHHHHHHHhhhh
Confidence            478999999999999998877644

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=88.41  E-value=0.19  Score=45.59  Aligned_cols=24  Identities=29%  Similarity=0.322  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||.+.+..
T Consensus       380 ~G~~~~ivG~sGsGKSTll~~l~g  403 (598)
T 3qf4_B          380 PGQKVALVGPTGSGKTTIVNLLMR  403 (598)
T ss_dssp             TTCEEEEECCTTSSTTHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            456899999999999999998754

>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=88.38  E-value=0.65  Score=37.60  Aligned_cols=27  Identities=30%  Similarity=0.219  Sum_probs=21.6

Q ss_pred             CCeEEEEEEcC-CCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIWGF-GGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~G~-gG~GKTtla~~v~~~~  222 (227)
                      ...++|.|.+. ||+||||+|..+...+
T Consensus        80 ~~~kvI~vts~kgG~GKTt~a~nLA~~l  107 (271)
T 3bfv_A           80 SAVQSIVITSEAPGAGKSTIAANLAVAY  107 (271)
T ss_dssp             CCCCEEEEECSSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCcHHHHHHHHHHHH
Confidence            45688999965 8999999999876653

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=88.36  E-value=0.24  Score=44.18  Aligned_cols=23  Identities=30%  Similarity=0.244  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++|.|..|.|||||.+++..-
T Consensus       261 ~~i~I~GptGSGKTTlL~aL~~~  283 (511)
T 2oap_1          261 FSAIVVGETASGKTTTLNAIMMF  283 (511)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            35899999999999999987654

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=88.26  E-value=0.5  Score=42.87  Aligned_cols=32  Identities=22%  Similarity=0.306  Sum_probs=25.0

Q ss_pred             HhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          190 LLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       190 ~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .|..-...+.+|+|+|..|+|||||.+.+.+.
T Consensus        30 ~L~~i~~~~~~VaivG~pnvGKStLiN~L~g~   61 (592)
T 1f5n_A           30 ILSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   61 (592)
T ss_dssp             HHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHhccCCCcEEEEECCCCCCHHHHHHhHcCC
Confidence            34333456889999999999999999887653

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=88.15  E-value=0.14  Score=43.90  Aligned_cols=22  Identities=27%  Similarity=0.155  Sum_probs=19.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHHH
Q 045657          200 TLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +++|+|..|.|||||.++++--
T Consensus        62 ~~~lvG~NGaGKStLl~aI~~l   83 (415)
T 4aby_A           62 FCAFTGETGAGKSIIVDALGLL   83 (415)
T ss_dssp             EEEEEESHHHHHHHHTHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            8899999999999999998643

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=88.11  E-value=0.22  Score=43.26  Aligned_cols=23  Identities=22%  Similarity=0.514  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...++|+|..|.|||||.+.+..
T Consensus       157 g~~VgLVG~~gAGKSTLL~~Lsg  179 (416)
T 1udx_A          157 IADVGLVGYPNAGKSSLLAAMTR  179 (416)
T ss_dssp             SCSEEEECCGGGCHHHHHHHHCS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            45689999999999999998754

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=88.03  E-value=0.31  Score=41.41  Aligned_cols=47  Identities=30%  Similarity=0.352  Sum_probs=32.1

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++|....+.++...+..-...-..+-|.|..|.||+++|+.+++.
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~a~~~~~vli~GesGtGKe~lAr~ih~~  175 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKIAKSKAPVLITGESGTGKEIVARLIHRY  175 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHHTSCSCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHhhhhhhhccchhheEEeCCCchHHHHHHHHHHh
Confidence            45678777676666655321111123558899999999999999875

>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=87.92  E-value=0.3  Score=46.94  Aligned_cols=23  Identities=43%  Similarity=0.628  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|+|..|.|||||.+.+..
T Consensus       461 Ge~v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          461 ARRYGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999874

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=87.90  E-value=0.17  Score=45.73  Aligned_cols=24  Identities=29%  Similarity=0.288  Sum_probs=20.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||.+.+..
T Consensus       366 ~G~~~~ivG~sGsGKSTll~~l~g  389 (578)
T 4a82_A          366 KGETVAFVGMSGGGKSTLINLIPR  389 (578)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            346899999999999999987643

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=87.80  E-value=0.21  Score=45.27  Aligned_cols=24  Identities=25%  Similarity=0.230  Sum_probs=20.4

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||++.+..
T Consensus       368 ~Ge~~~ivG~sGsGKSTll~~l~g  391 (587)
T 3qf4_A          368 PGSLVAVLGETGSGKSTLMNLIPR  391 (587)
T ss_dssp             TTCEEEEECSSSSSHHHHHHTTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            346899999999999999997643

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=87.75  E-value=0.44  Score=39.03  Aligned_cols=24  Identities=21%  Similarity=0.268  Sum_probs=19.6

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .--|.++|..|+|||||...+.+.
T Consensus       155 ~~~i~i~G~~~~GKssli~~~~~~  178 (332)
T 2wkq_A          155 LIKCVVVGDGAVGKTCLLISYTTN  178 (332)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCChHHHHHHHHhC
Confidence            345789999999999999877653

>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=87.68  E-value=0.38  Score=41.53  Aligned_cols=25  Identities=24%  Similarity=0.026  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...++|+|..|.|||||++.+.+.+
T Consensus       174 GQr~~IvG~sG~GKTtLl~~Iar~i  198 (422)
T 3ice_A          174 GQRGLIVAPPKAGKTMLLQNIAQSI  198 (422)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEecCCCCChhHHHHHHHHHH
Confidence            3478999999999999999987764

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=87.61  E-value=0.3  Score=41.50  Aligned_cols=21  Identities=24%  Similarity=0.449  Sum_probs=17.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAI  218 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v  218 (227)
                      ..-|-|.|.||.||||+++.+
T Consensus        33 ~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           33 LVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             ccEEEEECCCCCcHHHHHHHH
Confidence            334568899999999999974

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=87.49  E-value=0.79  Score=39.70  Aligned_cols=48  Identities=13%  Similarity=0.266  Sum_probs=32.5

Q ss_pred             cCcccccchhHHHHHHHhhcC-----CCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          174 KNQLVGVESRVKEIESLLGAE-----SKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~-----~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +.+=.|.++-++.+.+.+...     .....-|+++|.+|+|||||...+...
T Consensus       146 A~~g~gv~~L~~~i~~~l~~~~~~~~~~~~~ki~lvG~~nvGKSSLin~l~~~  198 (436)
T 2hjg_A          146 GTHGLGLGDLLDAVAEHFKNIPETKYNEEVIQFCLIGRPNVGKSSLVNAMLGE  198 (436)
T ss_dssp             TTTTBTHHHHHHHHHHTGGGCCSSCCCTTCEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcCCCChHHHHHHHHHhcCccccccccccCcEEEEEcCCCCCHHHHHHHHhCC
Confidence            344456666666666655421     124567889999999999999987643

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=86.75  E-value=0.88  Score=39.79  Aligned_cols=37  Identities=16%  Similarity=0.180  Sum_probs=28.6

Q ss_pred             HHHHHHhhc---CCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          185 KEIESLLGA---ESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       185 ~~~~~~l~~---~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +.+...|..   ....+.+|+|+|....||+||...++..
T Consensus        51 eal~~iL~~~~~~~~~v~vVsV~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           51 TALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             HHHHHHHCCTTTTTSBEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhccccCCCceEEEEEECCCCCcHHHHHHHHhhh
Confidence            334345543   3456999999999999999999999875

>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=86.69  E-value=0.29  Score=47.04  Aligned_cols=74  Identities=16%  Similarity=0.064  Sum_probs=41.2

Q ss_pred             HHHHHHhhCCCe-eEEeC---CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEe
Q 045657           35 HLYSALSLKSIQ-TFIDD---QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFY  110 (227)
Q Consensus        35 ~L~~~L~~~g~~-~~~d~---~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~  110 (227)
                      .+...|+.-|+. -..+.   ++..|+.-.-.|..++-.-...+++==|...-......++...+..   .+..||-+-+
T Consensus       527 ~v~~~L~~lgL~~~~~~~~~~~LSGGqkQRvaLArAL~~~P~lLLLDEPTs~LD~~~~~~l~~~L~~---~g~tvIivSH  603 (986)
T 2iw3_A          527 AIKDKLIEFGFTDEMIAMPISALSGGWKMKLALARAVLRNADILLLDEPTNHLDTVNVAWLVNYLNT---CGITSITISH  603 (986)
T ss_dssp             HHHHHHHHTTCCHHHHHSBGGGCCHHHHHHHHHHHHHHTTCSEEEEESTTTTCCHHHHHHHHHHHHH---SCSEEEEECS
T ss_pred             HHHHHHHHcCCChhhhcCCcccCCHHHHHHHHHHHHHhcCCCEEEEECCccCCCHHHHHHHHHHHHh---CCCEEEEEEC
Confidence            345567777873 33333   5666666666777776655555555555555555555555555543   2444555544


Q ss_pred             e
Q 045657          111 R  111 (227)
Q Consensus       111 ~  111 (227)
                      +
T Consensus       604 d  604 (986)
T 2iw3_A          604 D  604 (986)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=86.62  E-value=0.62  Score=43.08  Aligned_cols=25  Identities=28%  Similarity=0.305  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +...|+|+|..|.|||||.+++...
T Consensus        68 ~~~~V~VvG~~naGKSSLlNaLlg~   92 (695)
T 2j69_A           68 GVFRLLVLGDMKRGKSTFLNALIGE   92 (695)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3456889999999999999988754

>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=86.43  E-value=0.62  Score=41.11  Aligned_cols=38  Identities=11%  Similarity=-0.086  Sum_probs=26.6

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...|.+++. +=....++-|.|.+|+||||||..+....
T Consensus       229 ~~~LD~~lg-Gl~~G~l~li~G~pG~GKT~lal~~a~~~  266 (503)
T 1q57_A          229 CTGINDKTL-GARGGEVIMVTSGSGMVMSTFVRQQALQW  266 (503)
T ss_dssp             CTTHHHHHC-CCCTTCEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             hhhhhHhhc-ccCCCeEEEEeecCCCCchHHHHHHHHHH
Confidence            344444442 33345678888999999999999887664

>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=86.38  E-value=1.1  Score=36.49  Aligned_cols=27  Identities=22%  Similarity=0.139  Sum_probs=21.4

Q ss_pred             CCeEEEEEEc-CCCchHHHHHHHHHHHh
Q 045657          196 KYVYTLGIWG-FGGIGKTTIARAIFDKI  222 (227)
Q Consensus       196 ~~~~~~~i~G-~gG~GKTtla~~v~~~~  222 (227)
                      ...++|.|.+ -||+||||+|..+...+
T Consensus        90 ~~~kvI~vts~kgG~GKTtva~nLA~~l  117 (286)
T 3la6_A           90 AQNNVLMMTGVSPSIGMTFVCANLAAVI  117 (286)
T ss_dssp             TTCCEEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCcHHHHHHHHHHHH
Confidence            4567888886 58999999999876654

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=85.96  E-value=0.34  Score=40.44  Aligned_cols=20  Identities=30%  Similarity=0.358  Sum_probs=17.3

Q ss_pred             EEEEEcCCCchHHHHHHHHH
Q 045657          200 TLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~  219 (227)
                      -|.|+|..|+|||||...+.
T Consensus       167 kI~ivG~~~vGKSsLl~~l~  186 (329)
T 3o47_A          167 RILMVGLDAAGKTTILYKLK  186 (329)
T ss_dssp             EEEEEESTTSSHHHHHHHTC
T ss_pred             eEEEECCCCccHHHHHHHHh
Confidence            57899999999999988754

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=85.78  E-value=0.42  Score=43.45  Aligned_cols=24  Identities=17%  Similarity=0.266  Sum_probs=20.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ++..++|+|..|.|||||.+.+..
T Consensus        44 ~lp~iaIvG~nGsGKSTLL~~I~G   67 (608)
T 3szr_A           44 ALPAIAVIGDQSSGKSSVLEALSG   67 (608)
T ss_dssp             CCCCEECCCCTTSCHHHHHHHHHS
T ss_pred             cCCeEEEECCCCChHHHHHHHHhC
Confidence            345699999999999999998764

>1of1_A Thymidine kinase; transferase, antiviral drug, enzyme- prodrug gene, DNA synthesis, ATP-binding; HET: SCT; 1.95A {Herpes simplex virus} SCOP: c.37.1.1

Probab=85.32  E-value=0.45  Score=40.64  Aligned_cols=27  Identities=30%  Similarity=0.250  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ....|.|-|.=|+||||+++.+.+.+.
T Consensus        48 ~~~fIt~EG~dGsGKTT~~~~Lae~L~   74 (376)
T 1of1_A           48 TLLRVYIDGPHGMGKTTTTQLLVALGS   74 (376)
T ss_dssp             EEEEEEECSSTTSSHHHHHHHHHC---
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHhh
Confidence            466889999999999999999887643

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=85.22  E-value=0.45  Score=42.39  Aligned_cols=24  Identities=21%  Similarity=0.367  Sum_probs=19.5

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .--|+++|.+|+|||||.+.+.+.
T Consensus        41 ~~kV~lvG~~~vGKSSLl~~l~~~   64 (535)
T 3dpu_A           41 EIKVHLIGDGMAGKTSLLKQLIGE   64 (535)
T ss_dssp             EEEEEEESSSCSSHHHHHHHHHC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999987643

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A

Probab=84.89  E-value=0.39  Score=41.13  Aligned_cols=28  Identities=21%  Similarity=0.247  Sum_probs=14.7

Q ss_pred             CCeEEEEEE-cCCCchHHHHHHHHHHHhh
Q 045657          196 KYVYTLGIW-GFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       196 ~~~~~~~i~-G~gG~GKTtla~~v~~~~~  223 (227)
                      ...++|+|+ |-||+||||+|-.+...+.
T Consensus       109 ~~~~vIav~s~KGGvGKTT~a~nLA~~LA  137 (403)
T 3ez9_A          109 KSPYVIFVVNLKGGVSKTVSTVTLAHALR  137 (403)
T ss_dssp             CSCEEEEECCC--------CHHHHHHHHH
T ss_pred             CCceEEEEEcCCCCchHHHHHHHHHHHHH
Confidence            457888888 8899999999988766543

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=84.74  E-value=1.5  Score=38.42  Aligned_cols=39  Identities=15%  Similarity=0.176  Sum_probs=28.7

Q ss_pred             HHHHHHHhhc---CCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          184 VKEIESLLGA---ESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       184 ~~~~~~~l~~---~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      -+.|..+|..   ....+.||+|+|..+.|||+|...+++-+
T Consensus        50 ~eAl~~iL~~~~i~~~~v~vvsv~G~~~~gks~l~N~ll~~~   91 (457)
T 4ido_A           50 ETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYM   91 (457)
T ss_dssp             HHHHHHHHSSTTTTTSBEEEEEEEEBTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCceEEEEEECCCCCchhHHHHHHHHHh
Confidence            3444444443   24569999999999999999999876543

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=84.69  E-value=0.46  Score=47.08  Aligned_cols=24  Identities=29%  Similarity=0.358  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||++.+..
T Consensus      1058 ~Ge~v~ivG~sGsGKSTl~~~l~g 1081 (1284)
T 3g5u_A         1058 KGQTLALVGSSGCGKSTVVQLLER 1081 (1284)
T ss_dssp             SSSEEEEECSSSTTHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999998865

>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=84.45  E-value=1.3  Score=40.25  Aligned_cols=36  Identities=22%  Similarity=0.109  Sum_probs=25.4

Q ss_pred             hhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          182 SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .+...+...+.     -+++-|.|.+|.||||++..+...+
T Consensus       153 ~Q~~Ai~~~l~-----~~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          153 WQKVAAAVALT-----RRISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             HHHHHHHHHHT-----BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc-----CCCEEEEeCCCCCHHHHHHHHHHHH
Confidence            34555544442     3477889999999999998876553

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=84.40  E-value=0.65  Score=38.67  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +-+.|.|..|+||||+|.+...+
T Consensus       145 ~~vl~~G~sG~GKSt~a~~l~~~  167 (314)
T 1ko7_A          145 VGVLITGDSGIGKSETALELIKR  167 (314)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHhc
Confidence            56889999999999999987664

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=83.98  E-value=0.35  Score=44.44  Aligned_cols=61  Identities=16%  Similarity=0.145  Sum_probs=35.2

Q ss_pred             CCCCCCcchHHHHHHHHhccc--EEEEeecCcccchhhHHHHHHHHHHhhhccceeeeEEeec
Q 045657           52 QLNRGDEISQSLVYAIENSAI--SLIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRV  112 (227)
Q Consensus        52 ~~~~g~~~~~~i~~~i~~s~~--~i~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iipif~~v  112 (227)
                      ++..|+.-.-.|..++-..-.  .+++==|...-.+....++...+...+..+..|+-|-++.
T Consensus       202 ~LSGGe~QRv~iArAL~~~p~~~lLlLDEPtsgLD~~~~~~l~~~l~~l~~~g~tvi~vtHd~  264 (670)
T 3ux8_A          202 TLSGGEAQRIRLATQIGSRLTGVLYVLDEPSIGLHQRDNDRLIATLKSMRDLGNTLIVVEHDE  264 (670)
T ss_dssp             GSCHHHHHHHHHHHHHHTCCCSCEEEEECTTTTCCGGGHHHHHHHHHHHHHTTCEEEEECCCH
T ss_pred             cCCHHHHHHHHHHHHHhhCCCCCEEEEECCccCCCHHHHHHHHHHHHHHHHcCCEEEEEeCCH
Confidence            455566555677777765433  5555555555555556666666655544455666665553

>2f62_A Nucleoside 2-deoxyribosyltransferase; SGPP, structural genomics, PSI, S genomics of pathogenic protozoa consortium; HET: 12M; 1.50A {Trypanosoma brucei} SCOP: c.23.14.1 PDB: 2a0k_A* 2f2t_A* 2f64_A* 2f67_A*

Probab=83.87  E-value=3  Score=31.01  Aligned_cols=69  Identities=12%  Similarity=0.082  Sum_probs=48.1

Q ss_pred             ccHHHHHHHHHhhCCCeeEEeCC--CCCCCcchHHHHHHHHhcccEEEEeec--CcccchhhHHHHHHHHHHh
Q 045657           30 DNFTSHLYSALSLKSIQTFIDDQ--LNRGDEISQSLVYAIENSAISLIIFSE--GYASSRWCLDELVKILQCK   98 (227)
Q Consensus        30 ~~~~~~L~~~L~~~g~~~~~d~~--~~~g~~~~~~i~~~i~~s~~~i~v~S~--~~~~S~wc~~El~~~~~~~   98 (227)
                      ..+.+.+.+.|++.|+.++.-.+  ......+..+-.++|++|+++|++++|  .-..++-+..|+-.+....
T Consensus        26 ~~~~~~l~~~l~~~G~~v~~P~~~~~~~~~~i~~~d~~~i~~aD~vVA~ldpf~g~~~D~GTafEiGyA~Alg   98 (161)
T 2f62_A           26 ASYYNKVRELLKKENVMPLIPTDNEATEALDIRQKNIQMIKDCDAVIADLSPFRGHEPDCGTAFEVGCAAALN   98 (161)
T ss_dssp             HHHHHHHHHHHHTTTCEEECTTTTCCSSHHHHHHHHHHHHHHCSEEEEECCCCSSSSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCCCEEECCCccCcchHHHHHHHHHHHHHhCCEEEEEecCCCCCCCCCcHHHHHHHHHHCC
Confidence            35889999999999999887432  112233444447889999999999986  3333455677887776544

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=83.34  E-value=1.1  Score=38.10  Aligned_cols=43  Identities=16%  Similarity=0.280  Sum_probs=29.4

Q ss_pred             cCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          174 KNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +..-.|.+.-++.+.+++..     +.+.++|..|+|||||.+.+.+.
T Consensus       143 A~~g~gi~~L~~~I~~~~~~-----~~i~~vG~~nvGKStliN~L~~~  185 (369)
T 3ec1_A          143 AAKGIGMAKVMEAINRYREG-----GDVYVVGCTNVGKSTFINRIIEE  185 (369)
T ss_dssp             TTTTBTHHHHHHHHHHHHTT-----SCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHhhccc-----CcEEEEcCCCCchHHHHHHHHhh
Confidence            33334555555555554421     35788999999999999999876

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=83.31  E-value=0.62  Score=39.17  Aligned_cols=24  Identities=17%  Similarity=0.288  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      .+..|+|+|..|+|||||.+.+..
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g   56 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVG   56 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHT
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhC
Confidence            344899999999999999998865

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=83.30  E-value=1  Score=39.33  Aligned_cols=24  Identities=21%  Similarity=0.108  Sum_probs=20.9

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHH
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ...++..|.|.+|.||||+.....
T Consensus       159 ~~~~v~~I~G~aGsGKTt~I~~~~  182 (446)
T 3vkw_A          159 SSAKVVLVDGVPGCGKTKEILSRV  182 (446)
T ss_dssp             CCSEEEEEEECTTSCHHHHHHHHC
T ss_pred             ccccEEEEEcCCCCCHHHHHHHHh
Confidence            457899999999999999998754

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=83.04  E-value=0.52  Score=39.65  Aligned_cols=22  Identities=27%  Similarity=0.576  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCchHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      .-|+++|..++|||||...+.+
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~  180 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSS  180 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEE
T ss_pred             CeeeeeCCCCCCHHHHHHHHHc
Confidence            3589999999999999987643

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=82.48  E-value=0.58  Score=42.93  Aligned_cols=19  Identities=26%  Similarity=0.372  Sum_probs=16.8

Q ss_pred             CeEEEEEEcCCCchHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIA  215 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla  215 (227)
                      .-.+++|+|..|.|||||.
T Consensus        43 ~Ge~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           43 RGKLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             TTSEEEEECSTTSSHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHh
Confidence            3468999999999999996

>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=82.46  E-value=0.72  Score=43.13  Aligned_cols=23  Identities=26%  Similarity=0.031  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|.|..|.|||||.+.+..
T Consensus       576 g~i~~I~GpNGsGKSTlLr~iag  598 (765)
T 1ewq_A          576 HELVLITGPNMAGKSTFLRQTAL  598 (765)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHh
Confidence            46899999999999999998764

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=82.18  E-value=0.85  Score=40.01  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=19.5

Q ss_pred             EEEEEcCCCchHHHHHHHHHHH
Q 045657          200 TLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      -|.|+|..|+|||||.+.+.+.
T Consensus       226 kV~ivG~~nvGKSSLln~L~~~  247 (462)
T 3geh_A          226 KVAIVGRPNVGKSSLLNAWSQS  247 (462)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            4789999999999999998765

>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=82.15  E-value=1.6  Score=39.62  Aligned_cols=36  Identities=28%  Similarity=0.245  Sum_probs=24.6

Q ss_pred             chhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          181 ESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +.+.+.+...+.     ..+.-|+|.+|.|||+++..+...
T Consensus       183 ~~Q~~av~~~l~-----~~~~li~GppGTGKT~~~~~~i~~  218 (624)
T 2gk6_A          183 HSQVYAVKTVLQ-----RPLSLIQGPPGTGKTVTSATIVYH  218 (624)
T ss_dssp             HHHHHHHHHHHT-----CSEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc-----CCCeEEECCCCCCHHHHHHHHHHH
Confidence            345555555553     125668999999999988876555

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=82.09  E-value=0.21  Score=37.92  Aligned_cols=22  Identities=27%  Similarity=0.579  Sum_probs=18.2

Q ss_pred             CeEEEEEEcCCCchHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAI  218 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v  218 (227)
                      ...-|.|+|..|+|||||.+.+
T Consensus        32 ~~~ki~vvG~~~~GKSsli~~l   53 (199)
T 3l0i_B           32 YLFKLLLIGDSGVGKSCLLLRF   53 (199)
T ss_dssp             EEEEEEEECCTTSCCTTTTTSS
T ss_pred             cceEEEEECCCCCCHHHHHHHH
Confidence            3556789999999999998764

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=81.96  E-value=1.4  Score=40.21  Aligned_cols=36  Identities=28%  Similarity=0.231  Sum_probs=23.2

Q ss_pred             chhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHH-HHH
Q 045657          181 ESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARA-IFD  220 (227)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~-v~~  220 (227)
                      +++++.+...|...  +  +.-|+|++|.|||+..-+ |+.
T Consensus       192 ~~Q~~AV~~al~~~--~--~~lI~GPPGTGKT~ti~~~I~~  228 (646)
T 4b3f_X          192 TSQKEAVLFALSQK--E--LAIIHGPPGTGKTTTVVEIILQ  228 (646)
T ss_dssp             HHHHHHHHHHHHCS--S--EEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC--C--ceEEECCCCCCHHHHHHHHHHH
Confidence            45666666666422  2  455889999999975544 443

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=81.89  E-value=1.3  Score=37.52  Aligned_cols=42  Identities=19%  Similarity=0.264  Sum_probs=28.6

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..-.|.+.-++.+.+++.    + ..+.++|..|+|||||.+.+.+.
T Consensus       142 ~~g~gi~~L~~~l~~~~~----~-~~i~~vG~~nvGKStliN~L~~~  183 (368)
T 3h2y_A          142 AKGQGIAELADAIEYYRG----G-KDVYVVGCTNVGKSTFINRMIKE  183 (368)
T ss_dssp             TTCTTHHHHHHHHHHHHT----T-SCEEEEEBTTSSHHHHHHHHHHH
T ss_pred             CCCcCHHHHHhhhhhhcc----c-ceEEEecCCCCChhHHHHHHHhh
Confidence            333455554555544432    1 35788999999999999999886

>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=81.71  E-value=0.8  Score=43.07  Aligned_cols=24  Identities=29%  Similarity=-0.010  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..++++|.|..|.|||||.+.+..
T Consensus       606 ~g~i~~ItGpNGsGKSTlLr~iag  629 (800)
T 1wb9_A          606 QRRMLIITGPNMGGKSTYMRQTAL  629 (800)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCChHHHHHHHHH
Confidence            457899999999999999998764

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=81.11  E-value=1.1  Score=38.67  Aligned_cols=25  Identities=32%  Similarity=0.175  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .-++|.|-.|+|||+|+..+.+.+.
T Consensus       176 QR~lIfg~~g~GKT~Ll~~Ia~~i~  200 (427)
T 3l0o_A          176 QRGMIVAPPKAGKTTILKEIANGIA  200 (427)
T ss_dssp             CEEEEEECTTCCHHHHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHHHHh
Confidence            3578999999999999998888643

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=81.10  E-value=1.9  Score=37.42  Aligned_cols=43  Identities=14%  Similarity=0.317  Sum_probs=28.4

Q ss_pred             cccchhHHHHHHHhhcC-----CCCeEEEEEEcCCCchHHHHHHHHHH
Q 045657          178 VGVESRVKEIESLLGAE-----SKYVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       178 ~g~~~~~~~~~~~l~~~-----~~~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      .|.++-++.+.+.+...     .....-++++|.+|+|||||...+..
T Consensus       170 ~gv~~L~~~i~~~l~~~~~~~~~~~~~ki~ivG~~~vGKSslin~l~~  217 (456)
T 4dcu_A          170 LGLGDLLDAVAEHFKNIPETKYNEEVIQFCLIGRPNVGKSSLVNAMLG  217 (456)
T ss_dssp             TTHHHHHHHHHTTGGGSCSSCCCTTCEEEEEECSTTSSHHHHHHHHHT
T ss_pred             cchHHHHHHHHhhcccccccccccccceeEEecCCCCCHHHHHHHHhC
Confidence            45444455554444311     13456788999999999999998763

>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=81.07  E-value=0.41  Score=47.56  Aligned_cols=23  Identities=30%  Similarity=0.359  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...++|+|..|.|||||++.+++
T Consensus      1105 Ge~vaIVG~SGsGKSTL~~lL~r 1127 (1321)
T 4f4c_A         1105 GQTLALVGPSGCGKSTVVALLER 1127 (1321)
T ss_dssp             TCEEEEECSTTSSTTSHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            35799999999999999998765

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=80.73  E-value=0.74  Score=45.61  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=20.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||++.+..
T Consensus       415 ~G~~~~ivG~sGsGKSTl~~ll~g  438 (1284)
T 3g5u_A          415 SGQTVALVGNSGCGKSTTVQLMQR  438 (1284)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            346899999999999999998754

---

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	227
d1fyva_	161	c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (H	5e-19
d1fyxa_	149	c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (H	6e-18
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-04
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	0.002

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]} Length = 161

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 78.6 bits (193), Expect = 5e-19
 Identities = 24/142 (16%), Positives = 48/142 (33%), Gaps = 9/142 (6%)

Query: 16  KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQ-LNRGDEISQSLVYAIENSAISL 74
           ++  F+S+ G D+     + L   L  + +Q  + ++    G  I ++++  IE S  S+
Sbjct: 12  QFHAFISYSGHDSF-WVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKSI 70

Query: 75  IIFSEGYASSRWCLDELVKILQCKREYAQIV-IPVFYRVDPSDVRNQTGPFGDSFSKLE- 132
            + S  +  S WC  EL               I +     P      +     S      
Sbjct: 71  FVLSPNFVQSEWCHYELYFAHHNLFHEGSNSLILILLEPIPQYSIPSSYHKLKSLMARRT 130

Query: 133 -----ERFKENSEKLKSWRNAL 149
                +   +      + R A+
Sbjct: 131 YLEWPKEKSKRGLFWANLRAAI 152

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]} Length = 149

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 75.5 bits (185), Expect = 6e-18
 Identities = 24/116 (20%), Positives = 41/116 (35%), Gaps = 6/116 (5%)

Query: 12  RNINKYDVFLSFRGEDTRDNFTSHLYSAL--SLKSIQTFIDDQ-LNRGDEISQSLVYAIE 68
           RNI  YD F+S+   D      + +   L       +  +  +    G  I  +++ +IE
Sbjct: 2   RNI-CYDAFVSYSERD-AYWVENLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIE 59

Query: 69  NSAISLIIFSEGYASSRWCLDELVKIL-QCKREYAQIVIPVFYRVDPSDVRNQTGP 123
            S  ++ + SE +  S WC  EL     +   E     I +           Q   
Sbjct: 60  KSHKTVFVLSENFVKSEWCKYELDFSHFRLFDENNDAAILILLEPIEKKAIPQRFC 115

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

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]

 Score = 39.4 bits (91), Expect = 2e-04
 Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 1/46 (2%)

Query: 177 LVGVESRVKEI-ESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK 221
               E  V  + + L        + L + G  G GK+ IA     K
Sbjct: 22  CYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSK 67

>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 = 12/57 (21%), Positives = 25/57 (43%), Gaps = 6/57 (10%)

Query: 170 PRNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSNF 226
           P++ +        R KEIE L G  +       + G    GK++I +   ++++  +
Sbjct: 7   PKDNRKDFFD---REKEIEKLKGLRAPITL---VLGLRRTGKSSIIKIGINELNLPY 57

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	227
d1fyva_	161	Toll-like receptor 1, TLR1 {Human (Homo sapiens) [	99.87
d1fyxa_	149	Toll-like receptor 2, TLR2 {Human (Homo sapiens) [	99.84
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.24
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.09
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.87
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.67
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.64
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.58
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.56
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.52
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.51
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.49
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.49
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.47
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.43
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.01
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.0
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.96
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.89
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.78
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.61
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.54
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.21
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.13
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.0
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.79
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.61
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	95.44
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	95.15
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.86
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.72
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.71
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	94.7
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	94.67
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.64
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	94.61
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.41
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.09
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.04
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	93.96
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	93.9
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	93.9
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	93.9
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.8
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	93.78
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	93.07
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	92.97
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.82
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.59
d1wu7a1	97	Histidyl-tRNA synthetase (HisRS), C-terminal domai	91.91
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	91.74
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	91.3
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	90.89
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	90.32
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	89.83
d2f62a1	152	Nucleoside 2-deoxyribosyltransferase {Trypanosoma	89.18
d1tuea_	205	Replication protein E1 helicase domain {Human papi	88.14
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	86.11
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	85.58
d1qe0a1	95	Histidyl-tRNA synthetase (HisRS), C-terminal domai	85.22
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	84.18
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	83.48
d1kmma1	99	Histidyl-tRNA synthetase (HisRS), C-terminal domai	83.06
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	82.21
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	82.1
d1xpua3	289	Transcription termination factor Rho, ATPase domai	81.6
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	80.83

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=1.2e-23  Score=160.23  Aligned_cols=101  Identities=21%  Similarity=0.400  Sum_probs=90.9

Q ss_pred             CCCCCCcccEEEccccccCCccHH-HHHHHHHhhCCCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhh
Q 045657           10 SPRNINKYDVFLSFRGEDTRDNFT-SHLYSALSLKSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWC   87 (227)
Q Consensus        10 s~~~~~~~dvFISy~~~D~~~~~~-~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc   87 (227)
                      ....+++|||||||+++|..  || +.|.+.|+.+|+++|+|+ ++.+|+.+.++|.++|++|+++|+|+|++|+.|.||
T Consensus         6 ~~~~~~~yDvFisys~~D~~--~v~~~L~~~Le~~g~~v~~d~~d~~~G~~~~~~i~~~i~~s~~~i~vlS~~~~~s~w~   83 (161)
T d1fyva_           6 ELQRNLQFHAFISYSGHDSF--WVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKSIFVLSPNFVQSEWC   83 (161)
T ss_dssp             TSSSCCCEEEEEECCGGGHH--HHHHTHHHHHHTTTCCEECTTTTCCTTSCHHHHHHHHHHHEEEEEEEESHHHHHHTSH
T ss_pred             HcCCCCeeEEEEecChhHHH--HHHHHHHHHHHhCCCcceEeccccccccccHHHHHHHHHhCCEEEEEecCccccChHH
Confidence            35678999999999999944  66 579999999999999999 999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh-hhccceeeeEEeec
Q 045657           88 LDELVKILQCK-REYAQIVIPVFYRV  112 (227)
Q Consensus        88 ~~El~~~~~~~-~~~~~~iipif~~v  112 (227)
                      ..|+..++.+. ..+..++|||+++.
T Consensus        84 ~~E~~~a~~~~~~~~~~~lIpV~l~~  109 (161)
T d1fyva_          84 HYELYFAHHNLFHEGSNSLILILLEP  109 (161)
T ss_dssp             HHHHHTTSCCCSCSSCSSEEEEESSC
T ss_pred             HHHHHHHHHHHHHcCCCceeEEEEec
Confidence            99999988765 44557899999873

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=7.5e-23  Score=153.83  Aligned_cols=99  Identities=20%  Similarity=0.320  Sum_probs=87.9

Q ss_pred             CCCCcccEEEccccccCCccHH-HHHHHHHhh--CCCeeEEeC-CCCCCCcchHHHHHHHHhcccEEEEeecCcccchhh
Q 045657           12 RNINKYDVFLSFRGEDTRDNFT-SHLYSALSL--KSIQTFIDD-QLNRGDEISQSLVYAIENSAISLIIFSEGYASSRWC   87 (227)
Q Consensus        12 ~~~~~~dvFISy~~~D~~~~~~-~~L~~~L~~--~g~~~~~d~-~~~~g~~~~~~i~~~i~~s~~~i~v~S~~~~~S~wc   87 (227)
                      +.++.|||||||+++|..  || +.|...|++  .|+++|+|+ |+.+|+.+.++|.++|++|+++|+|+|++|+.|.||
T Consensus         1 ~~~~~YDvFiSys~~D~~--~V~~~l~~~LE~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~S~~~i~vlS~~~l~s~wc   78 (149)
T d1fyxa_           1 SRNICYDAFVSYSERDAY--WVENLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEWC   78 (149)
T ss_dssp             CCSCCEEEEEECCGGGHH--HHHTHHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHTH
T ss_pred             CCCCEEEEEEECchhhHH--HHHHHHHHHHHhcCCCceEEEecccccccchHHHHHHHHHHhCCEEEEEEcCccccccch
Confidence            468899999999999944  66 568999986  489999999 999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh-hhccceeeeEEeec
Q 045657           88 LDELVKILQCK-REYAQIVIPVFYRV  112 (227)
Q Consensus        88 ~~El~~~~~~~-~~~~~~iipif~~v  112 (227)
                      ..|+..++... +.++.++|||+++.
T Consensus        79 ~~E~~~a~~~~~~~~~~~iIpV~l~~  104 (149)
T d1fyxa_          79 KYELDFSHFRLFDENNDAAILILLEP  104 (149)
T ss_dssp             HHHSCCSCCTTCGGGTTCCEEEESSC
T ss_pred             HHHHHHHHHHHHHcCCceEEEEEecc
Confidence            99998877655 55678999999874

>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=99.24  E-value=3.4e-12  Score=104.09  Aligned_cols=49  Identities=22%  Similarity=0.161  Sum_probs=43.4

Q ss_pred             ccCcccccchhHHHHHHHhhc-CCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          173 YKNQLVGVESRVKEIESLLGA-ESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~-~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+.++||+.+++++.++|.. .+.+.++|+|+||||+||||||+++|++
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHh
Confidence            456788999999999998864 4566899999999999999999999998

>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=98.09  E-value=2.1e-06  Score=67.56  Aligned_cols=51  Identities=22%  Similarity=0.341  Sum_probs=41.6

Q ss_pred             cCcccccchhHHHHHHHhhc----CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          174 KNQLVGVESRVKEIESLLGA----ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~~----~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      +..++||+.++++|.++|..    .......+-|+|.+|+||||+|+.+.+.+..
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~   69 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKD   69 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhc
Confidence            45689999999999998863    2233567889999999999999999998754

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=97.87  E-value=5.5e-06  Score=65.38  Aligned_cols=51  Identities=22%  Similarity=0.247  Sum_probs=38.6

Q ss_pred             ccCcccccchhHHHHHHHhh----cCC--CC-eEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          173 YKNQLVGVESRVKEIESLLG----AES--KY-VYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~----~~~--~~-~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+..++||+.+++.|.+.+.    .+.  .+ ..++-++|.+|+|||++++++.+.+.
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~   71 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVS   71 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHH
Confidence            35788999999999987653    222  22 34566789999999999999998753

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.67  E-value=2.1e-05  Score=61.03  Aligned_cols=53  Identities=26%  Similarity=0.389  Sum_probs=39.7

Q ss_pred             ccCcccccchhHHHHHHHhhcC---CCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          173 YKNQLVGVESRVKEIESLLGAE---SKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~---~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .-.+++|.+.-+++|..++...   .....-+=++|.+|+||||+|+.+.+...-+
T Consensus         7 ~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~   62 (239)
T d1ixsb2           7 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN   62 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            3467899998888888877532   2223345589999999999999999886443

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.64  E-value=1.9e-05  Score=61.50  Aligned_cols=49  Identities=27%  Similarity=0.272  Sum_probs=38.0

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ...+++|.+.-++.|..++........ +-++|.+|+||||+|+++.+.+
T Consensus         9 ~~~diig~~~~~~~L~~~~~~~~~~~~-lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2           9 SLNALSHNEELTNFLKSLSDQPRDLPH-LLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             SGGGCCSCHHHHHHHHTTTTCTTCCCC-EEEECSTTSSHHHHHHTHHHHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcCCCCCe-EEEECCCCCCHHHHHHHHHHhh
Confidence            356799998888888887764432223 4499999999999999998874

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.58  E-value=4.8e-05  Score=58.47  Aligned_cols=51  Identities=20%  Similarity=0.301  Sum_probs=40.9

Q ss_pred             CCccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          171 RNYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       171 ~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      |....+++|.+..++.|..++..+..+.  +=++|..|+||||+|+.+.+.+.
T Consensus        11 P~~~~d~ig~~~~~~~L~~~~~~~~~~~--~ll~Gp~G~GKTt~a~~la~~l~   61 (224)
T d1sxjb2          11 PQVLSDIVGNKETIDRLQQIAKDGNMPH--MIISGMPGIGKTTSVHCLAHELL   61 (224)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCC--EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHcCCCCe--EEEECCCCCCchhhHHHHHHHHh
Confidence            3456789999999999999998654322  44799999999999999887754

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.56  E-value=3.8e-05  Score=59.84  Aligned_cols=51  Identities=25%  Similarity=0.348  Sum_probs=40.6

Q ss_pred             ccCcccccchhHHHHHHHhhc---------------CCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          173 YKNQLVGVESRVKEIESLLGA---------------ESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~---------------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .-.+++|.+..+++|.++|..               +....+.+-++|..|+||||+|+++.+.+.
T Consensus        12 ~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~   77 (253)
T d1sxja2          12 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG   77 (253)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            357899999999999988742               112345778999999999999999998754

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.52  E-value=3.4e-05  Score=59.75  Aligned_cols=52  Identities=25%  Similarity=0.352  Sum_probs=39.3

Q ss_pred             ccCcccccchhHHHHHHHhhcC---CCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          173 YKNQLVGVESRVKEIESLLGAE---SKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~---~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .-.+++|.+.-+++|..++...   .....-+=++|.+|+||||+|+.+.+.+..
T Consensus         7 ~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~   61 (238)
T d1in4a2           7 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT   61 (238)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTC
T ss_pred             cHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCC
Confidence            3467899999999998887521   122233458999999999999999987654

>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=97.51  E-value=7.2e-05  Score=57.55  Aligned_cols=49  Identities=16%  Similarity=0.247  Sum_probs=39.6

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..-.+++|.+..++.|..++......  -+-++|..|+||||+++.+.+++
T Consensus         9 ~~~~diig~~~~~~~l~~~i~~~~~~--~lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2           9 KNLDEVTAQDHAVTVLKKTLKSANLP--HMLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTCTTCC--CEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCC--eEEEECCCCCChHHHHHHHHHHH
Confidence            34567899999999999999755422  25689999999999999998874

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.49  E-value=7.4e-05  Score=57.53  Aligned_cols=49  Identities=31%  Similarity=0.339  Sum_probs=40.3

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ....+++|.+.-+++|..++..+..  .-+-++|..|+||||+|+.+.+.+
T Consensus        21 ~~~~diig~~~~~~~l~~~i~~~~~--~~lll~Gp~G~GKTtla~~iak~l   69 (231)
T d1iqpa2          21 QRLDDIVGQEHIVKRLKHYVKTGSM--PHLLFAGPPGVGKTTAALALAREL   69 (231)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHTCC--CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCC--CeEEEECCCCCcHHHHHHHHHHHH
Confidence            3467899999999999999986543  235689999999999999998764

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.49  E-value=7.9e-05  Score=57.15  Aligned_cols=50  Identities=18%  Similarity=0.246  Sum_probs=40.2

Q ss_pred             CccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          172 NYKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       172 ~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ....+++|.+..++.|..++..+.-+.  +=++|..|+||||+|+.+.+.+.
T Consensus        11 ~~~~divg~~~~~~~L~~~i~~~~~~~--lLl~Gp~G~GKttl~~~la~~l~   60 (227)
T d1sxjc2          11 ETLDEVYGQNEVITTVRKFVDEGKLPH--LLFYGPPGTGKTSTIVALAREIY   60 (227)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTTCCCC--EEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCe--EEEECCCCCChhHHHHHHHHHhh
Confidence            345789999999999999998654332  44899999999999999988743

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.47  E-value=7e-05  Score=59.56  Aligned_cols=46  Identities=28%  Similarity=0.359  Sum_probs=37.4

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++||+++++++...|..... .+ +-++|.+|+|||+|+..+..++
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k-~n-~lLVG~~GvGKTalv~~la~ri   63 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRK-NN-PLLVGESGVGKTAIAEGLAWRI   63 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSS-CE-EEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHhcCcc-CC-cEEECCCCCcHHHHHHHHHHHH
Confidence            3578999999999999975543 22 3488999999999999988874

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.43  E-value=8e-05  Score=56.34  Aligned_cols=47  Identities=21%  Similarity=0.403  Sum_probs=37.9

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...+||+.+++++...|......  -+-++|.+|+|||+|+..+..++.
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~--n~lLvG~pGVGKTalv~~LA~ri~   68 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKN--NPVLIGEPGVGKTAIVEGLAQRII   68 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSC--EEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhccCCC--CeEEEecCCcccHHHHHHHHHHHH
Confidence            35789999999999999854432  245889999999999999888753

>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=97.01  E-value=0.00052  Score=53.12  Aligned_cols=50  Identities=24%  Similarity=0.258  Sum_probs=39.8

Q ss_pred             ccCcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          173 YKNQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       173 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .-.+++|.+.-++.|..++..+.- ...+=++|..|+||||+|+.+.+.+.
T Consensus        10 ~~~dlig~~~~~~~L~~~i~~~~~-~~~~Ll~Gp~G~GKtt~a~~~~~~l~   59 (239)
T d1njfa_          10 TFADVVGQEHVLTALANGLSLGRI-HHAYLFSGTRGVGKTSIARLLAKGLN   59 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHTTCC-CSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CHHHccChHHHHHHHHHHHHcCCC-CeeEEEECCCCCcHHHHHHHHHHHhc
Confidence            457889999999999998875432 23455899999999999999888753

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.00  E-value=0.00033  Score=58.45  Aligned_cols=46  Identities=22%  Similarity=0.415  Sum_probs=36.2

Q ss_pred             CcccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          175 NQLVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++||+.+++++...|.....+-  +-++|.+|+|||+|+..+..++
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n--~llvG~~GvGKtaiv~~la~~i   67 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNN--PVLIGEPGVGKTAIVEGLAQRI   67 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCC--CEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCC--CeEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999988554332  2456999999999998877764

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.96  E-value=0.00034  Score=54.50  Aligned_cols=29  Identities=31%  Similarity=0.432  Sum_probs=24.4

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      ...|-++|.+|+||||||+++.+.+..+|
T Consensus        32 P~~ilL~GpPGtGKT~la~~la~~~~~~~   60 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRSAIFEETQGNV   60 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHTTTCC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhhcce
Confidence            45677899999999999999999876554

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.89  E-value=0.00027  Score=57.18  Aligned_cols=51  Identities=20%  Similarity=0.283  Sum_probs=36.7

Q ss_pred             CcccccchhHHHHHHHhh-------cC-----CCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          175 NQLVGVESRVKEIESLLG-------AE-----SKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~-------~~-----~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      ..++|.++.++.|...+.       ..     ....+-+-++|.+|+|||.||+++.+.+..+
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~   76 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAP   76 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCC
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccc
Confidence            467899888887765441       00     1134556689999999999999999886544

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.78  E-value=0.0012  Score=51.44  Aligned_cols=51  Identities=16%  Similarity=0.085  Sum_probs=34.9

Q ss_pred             CcccccchhHHHHHHHhh-------c-CCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          175 NQLVGVESRVKEIESLLG-------A-ESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~-------~-~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .+++|..+.++.+...+.       . .....+-|-++|..|+|||+||+++.+....+
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~   67 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP   67 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCS
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccccc
Confidence            447776665555544321       1 22346677799999999999999999885543

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=96.61  E-value=0.00084  Score=52.71  Aligned_cols=50  Identities=24%  Similarity=0.315  Sum_probs=35.9

Q ss_pred             CcccccchhHHHHHHHhh---c-------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          175 NQLVGVESRVKEIESLLG---A-------ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~---~-------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .++.|.++.+++|.+.+.   .       +....+-+-++|.+|+|||+||+++.+.+.-
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~   71 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV   71 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCC
Confidence            578888887777765432   1       1122455679999999999999999987543

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.54  E-value=0.0016  Score=50.74  Aligned_cols=50  Identities=22%  Similarity=0.365  Sum_probs=36.0

Q ss_pred             CcccccchhHHHHHHHhh---c-------CCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          175 NQLVGVESRVKEIESLLG---A-------ESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~---~-------~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      .+++|.++.++.|.+.+.   .       +-...+-+-++|..|+|||+||+++.+...-
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~   68 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV   68 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCC
Confidence            468898887777665432   1       1122345778999999999999999987543

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.21  E-value=0.0033  Score=50.68  Aligned_cols=51  Identities=20%  Similarity=0.273  Sum_probs=38.6

Q ss_pred             cCcccccchhHHHHHHHhh-------cCCCCeEEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          174 KNQLVGVESRVKEIESLLG-------AESKYVYTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       174 ~~~~~g~~~~~~~~~~~l~-------~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ...++|.+..++.|...+.       ..+....++-.+|..|+|||.||+.+.+-+..
T Consensus        21 ~~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~   78 (315)
T d1r6bx3          21 KMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI   78 (315)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             CCeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccC
Confidence            4578999988888866553       12234567889999999999999999887543

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=96.13  E-value=0.0023  Score=52.64  Aligned_cols=49  Identities=20%  Similarity=0.080  Sum_probs=33.9

Q ss_pred             ccccchhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          177 LVGVESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       177 ~~g~~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      +.|.+..+-+..+.+..+....+.+-++|.+|+|||++|.++.+.+..+
T Consensus       133 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~  181 (362)
T d1svma_         133 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGK  181 (362)
T ss_dssp             STTHHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             ccchHHHHHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            3444444434333333455567789999999999999999999886543

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.00  E-value=0.0043  Score=50.16  Aligned_cols=38  Identities=24%  Similarity=0.349  Sum_probs=29.0

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..++.+.+........+|||.|.+|.|||||..++-..
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~   74 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSL   74 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHH
Confidence            33444444445567899999999999999999987765

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.79  E-value=0.0068  Score=48.64  Aligned_cols=28  Identities=32%  Similarity=0.457  Sum_probs=24.5

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...-+|||.|..|+||||+|+.+...++
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~  105 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHh
Confidence            4478999999999999999999887764

>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=95.61  E-value=0.0066  Score=49.12  Aligned_cols=36  Identities=22%  Similarity=0.198  Sum_probs=27.3

Q ss_pred             HHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          186 EIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       186 ~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ++...+........+|||.|.+|.|||||...+-..
T Consensus        42 ~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~   77 (327)
T d2p67a1          42 QLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGML   77 (327)
T ss_dssp             HHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             HHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHH
Confidence            333334444556889999999999999999987655

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.44  E-value=0.0063  Score=46.07  Aligned_cols=37  Identities=22%  Similarity=0.253  Sum_probs=26.3

Q ss_pred             HHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          187 IESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       187 ~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      +.++........+.+-|||..|+|||.|++++.+...
T Consensus        25 ~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~   61 (213)
T d1l8qa2          25 VKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAK   61 (213)
T ss_dssp             HHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhc
Confidence            3444433223344577999999999999999998854

>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=95.15  E-value=0.079  Score=41.15  Aligned_cols=24  Identities=25%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .--++|+||+.+||+||.+.+.++
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             ceEEEEEecCccchhhhhhhhhcc
Confidence            445899999999999999987653

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=94.86  E-value=0.01  Score=48.73  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=19.4

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHhh
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      .+=.+|..|+|||.||+.+..-+.
T Consensus        70 niLfiGPTGvGKTElAk~LA~~~~   93 (364)
T d1um8a_          70 NILLIGPTGSGKTLMAQTLAKHLD   93 (364)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             ceeeeCCCCccHHHHHHHHHhhcc
Confidence            355679999999999999876543

>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=94.72  E-value=0.0071  Score=46.75  Aligned_cols=24  Identities=29%  Similarity=0.385  Sum_probs=20.6

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|.|..|.|||||++.+..
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcC
Confidence            345899999999999999998754

>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=94.71  E-value=0.0086  Score=45.96  Aligned_cols=23  Identities=30%  Similarity=0.222  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCcchhhHhccC
Confidence            45899999999999999998754

>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=94.70  E-value=0.0081  Score=46.79  Aligned_cols=24  Identities=38%  Similarity=0.367  Sum_probs=20.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      .-..++|+|..|.|||||++.+..
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            345899999999999999998753

>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=94.67  E-value=0.0087  Score=46.53  Aligned_cols=24  Identities=25%  Similarity=0.255  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ....++|+|..|.|||||++.+..
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            456899999999999999998754

>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=94.64  E-value=0.0091  Score=47.22  Aligned_cols=25  Identities=32%  Similarity=0.316  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...+++|+|..|.|||||.+.+..-
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCC
Confidence            3568999999999999999998653

>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=94.61  E-value=0.0099  Score=45.86  Aligned_cols=24  Identities=38%  Similarity=0.270  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|+|..|.|||||.+.+..
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHHc
Confidence            345899999999999999998764

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=94.41  E-value=0.025  Score=45.23  Aligned_cols=48  Identities=17%  Similarity=0.404  Sum_probs=35.5

Q ss_pred             CcccccchhHHHHHHHhhc-------CCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          175 NQLVGVESRVKEIESLLGA-------ESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       175 ~~~~g~~~~~~~~~~~l~~-------~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..++|.+.-++.+...+..       .+....++-.+|..|+|||.||+.+.+.+
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            4578888888877554421       12335577899999999999999988775

>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=94.09  E-value=0.021  Score=45.87  Aligned_cols=25  Identities=24%  Similarity=0.356  Sum_probs=21.3

Q ss_pred             EEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          200 TLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      ++-++|.+|+|||.||+++...+..
T Consensus       125 ~~l~~G~pG~GKT~la~ala~~~~~  149 (321)
T d1w44a_         125 MVIVTGKGNSGKTPLVHALGEALGG  149 (321)
T ss_dssp             EEEEECSSSSCHHHHHHHHHHHHHT
T ss_pred             eEEEECCCCccHHHHHHHHHHHhcC
Confidence            4556899999999999999998753

>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=94.04  E-value=0.022  Score=44.09  Aligned_cols=40  Identities=25%  Similarity=0.419  Sum_probs=28.7

Q ss_pred             hhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          182 SRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+.++...+.....+---|.++|..|+|||||.+.++++
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            4445555555544445455779999999999999999875

>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=93.96  E-value=0.015  Score=44.76  Aligned_cols=24  Identities=33%  Similarity=0.304  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ...+++|.|..|.|||||.+.+..
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            345899999999999999998764

>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=93.90  E-value=0.036  Score=41.75  Aligned_cols=38  Identities=21%  Similarity=0.280  Sum_probs=29.1

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...|.++|..+=...+++-|.|.+|.|||++|.++...
T Consensus        23 i~~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          23 SQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             CHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             CHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34455566555456789999999999999999987654

>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=93.90  E-value=0.015  Score=45.16  Aligned_cols=26  Identities=35%  Similarity=0.503  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHhhc
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKISS  224 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~~~  224 (227)
                      +-+=++|.+|+|||+||+++.+....
T Consensus        39 ~giLL~GppGtGKT~l~~ala~~~~~   64 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVANETGA   64 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             ceeEEecCCCCCchHHHHHHHHHhCC
Confidence            44668999999999999999887543

>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=93.90  E-value=0.021  Score=44.51  Aligned_cols=28  Identities=32%  Similarity=0.423  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHHHhhcC
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFDKISSN  225 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~~~~~~  225 (227)
                      .+-+=++|..|+|||+||+++...+.-+
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~~~~   68 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANECQAN   68 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHTTCE
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHhCCc
Confidence            4456699999999999999999875543

>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=93.80  E-value=0.024  Score=42.86  Aligned_cols=36  Identities=25%  Similarity=0.326  Sum_probs=27.0

Q ss_pred             HHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          186 EIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       186 ~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .|-++|..+=...+++-|.|.+|.||||+|-++...
T Consensus        24 ~LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~   59 (254)
T d1pzna2          24 SLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVM   59 (254)
T ss_dssp             HHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHH
Confidence            344555543345678999999999999999987655

>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=93.78  E-value=0.013  Score=45.32  Aligned_cols=23  Identities=43%  Similarity=0.515  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCchHHHHHHHHHH
Q 045657          198 VYTLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       198 ~~~~~i~G~gG~GKTtla~~v~~  220 (227)
                      ..+++|.|..|.|||||.+.+..
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            45899999999999999998764

>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=93.07  E-value=0.027  Score=42.22  Aligned_cols=36  Identities=19%  Similarity=0.311  Sum_probs=25.9

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ...|.++|..+=...+++-|.|.+|.||||||-.+.
T Consensus        20 i~~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~   55 (251)
T d1szpa2          20 SKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLA   55 (251)
T ss_dssp             CHHHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHT
T ss_pred             CHHHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHH
Confidence            344455554433446788999999999999998764

>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=92.97  E-value=0.015  Score=45.20  Aligned_cols=23  Identities=30%  Similarity=0.304  Sum_probs=19.7

Q ss_pred             CeEEEEEEcCCCchHHHHHHHHH
Q 045657          197 YVYTLGIWGFGGIGKTTIARAIF  219 (227)
Q Consensus       197 ~~~~~~i~G~gG~GKTtla~~v~  219 (227)
                      ....++|+|..|.|||||++.+.
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~   65 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIP   65 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHH
Confidence            34589999999999999998764

>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=92.82  E-value=0.039  Score=41.24  Aligned_cols=38  Identities=26%  Similarity=0.258  Sum_probs=27.5

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ...|.++|..+=....++-|.|-+|+|||++|..+.-.
T Consensus        20 ~~~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          20 SSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             CHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CHHHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            34455555433234578889999999999999998654

>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=92.59  E-value=0.061  Score=40.80  Aligned_cols=34  Identities=24%  Similarity=0.417  Sum_probs=25.8

Q ss_pred             hHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          183 RVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .+++|.++|..     ....++|..|+|||||.+++..+
T Consensus        85 g~~~L~~~l~~-----kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          85 GIEELKEYLKG-----KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             THHHHHHHHSS-----SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             hHhhHHHHhcC-----CeEEEECCCCCCHHHHHHhhcch
Confidence            36677777742     35678899999999999987543

>d1wu7a1 c.51.1.1 (A:330-426) Histidyl-tRNA synthetase (HisRS), C-terminal domain {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a/b)
fold: Anticodon-binding domain-like
superfamily: Class II aaRS ABD-related
family: Anticodon-binding domain of Class II aaRS
domain: Histidyl-tRNA synthetase (HisRS), C-terminal domain
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=91.91  E-value=0.24  Score=31.94  Aligned_cols=60  Identities=18%  Similarity=0.218  Sum_probs=44.3

Q ss_pred             CcccEEEccccccCCccHHHHHHHHHhhCCCeeEEeCCCCCCCcchHHHHHHHHhcccEEEEee
Q 045657           15 NKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFS   78 (227)
Q Consensus        15 ~~~dvFISy~~~D~~~~~~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~~i~~s~~~i~v~S   78 (227)
                      .+.+|||..-+.+.. .++..|...|+..||.+.+|.   .+..+...+..|-..--..++++.
T Consensus         2 ~~~~V~i~~~g~~~~-~~~~~l~~~Lr~~gi~v~~d~---~~~~l~kq~~~A~~~~~~~~iiiG   61 (97)
T d1wu7a1           2 EKKSVYICRVGKINS-SIMNEYSRKLRERGMNVTVEI---MERGLSAQLKYASAIGADFAVIFG   61 (97)
T ss_dssp             SSCEEEEEEESSCCH-HHHHHHHHHHHTTTCEEEECC---SCCCHHHHHHHHHHTTCSEEEEEE
T ss_pred             CCceEEEEEeCHHHH-HHHHHHHHHHHHCCCEEEEEC---CCCcHHHHHHHHHhcCCCeEEecC
Confidence            467899998887755 489999999999999999975   244666777777554444444544

>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=91.74  E-value=0.073  Score=38.09  Aligned_cols=28  Identities=29%  Similarity=0.364  Sum_probs=24.0

Q ss_pred             CCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          196 KYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       196 ~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      ...-+|.+.|-=|.||||++|.+.+.+.
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            3466899999999999999999998753

>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=91.30  E-value=0.055  Score=45.29  Aligned_cols=26  Identities=35%  Similarity=0.506  Sum_probs=20.5

Q ss_pred             EEEEcCCCchHHHHHHHHHHHhhcCC
Q 045657          201 LGIWGFGGIGKTTIARAIFDKISSNF  226 (227)
Q Consensus       201 ~~i~G~gG~GKTtla~~v~~~~~~~f  226 (227)
                      |-++|..|+|||.||+.+..-+.-.|
T Consensus        52 ILliGPTGvGKTlLAr~LAk~l~VPF   77 (443)
T d1g41a_          52 ILMIGPTGVGKTEIARRLAKLANAPF   77 (443)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            34569999999999999987654443

>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=90.89  E-value=0.098  Score=40.86  Aligned_cols=32  Identities=22%  Similarity=0.306  Sum_probs=25.9

Q ss_pred             HhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          190 LLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       190 ~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .|..-...+.||+|+|.-+.|||+|...+++.
T Consensus        24 ~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          24 ILSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHcCCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            44433456999999999999999999988754

>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=90.32  E-value=0.16  Score=41.13  Aligned_cols=36  Identities=22%  Similarity=0.092  Sum_probs=25.6

Q ss_pred             chhHHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          181 ESRVKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +.++..+...+.     .++.-|.|.+|.||||+...+...
T Consensus       151 ~~Q~~A~~~al~-----~~~~vI~G~pGTGKTt~i~~~l~~  186 (359)
T d1w36d1         151 NWQKVAAAVALT-----RRISVISGGPGTGKTTTVAKLLAA  186 (359)
T ss_dssp             CHHHHHHHHHHT-----BSEEEEECCTTSTHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHc-----CCeEEEEcCCCCCceehHHHHHHH
Confidence            455666665553     347778999999999998765544

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=89.83  E-value=0.19  Score=38.89  Aligned_cols=37  Identities=24%  Similarity=0.197  Sum_probs=28.6

Q ss_pred             HHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          186 EIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       186 ~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .+..+|......-..+-++|.|+.|||+++.++..-+
T Consensus        92 ~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          92 VFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            4455565555567789999999999999999887654

>d2f62a1 c.23.14.1 (A:9-160) Nucleoside 2-deoxyribosyltransferase {Trypanosoma brucei [TaxId: 5691]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: N-(deoxy)ribosyltransferase-like
family: N-deoxyribosyltransferase
domain: Nucleoside 2-deoxyribosyltransferase
species: Trypanosoma brucei [TaxId: 5691]

Probab=89.18  E-value=0.66  Score=32.54  Aligned_cols=72  Identities=13%  Similarity=0.097  Sum_probs=52.0

Q ss_pred             cCCccHHHHHHHHHhhCCCeeEEeC--CCCCCCcchHHHHHHHHhcccEEEEeec--CcccchhhHHHHHHHHHHh
Q 045657           27 DTRDNFTSHLYSALSLKSIQTFIDD--QLNRGDEISQSLVYAIENSAISLIIFSE--GYASSRWCLDELVKILQCK   98 (227)
Q Consensus        27 D~~~~~~~~L~~~L~~~g~~~~~d~--~~~~g~~~~~~i~~~i~~s~~~i~v~S~--~~~~S~wc~~El~~~~~~~   98 (227)
                      |....+.+.+.+.|+..|+.++.-.  ..+....|...-.+.|++|+.+|+++++  .-..++-+..|+..+....
T Consensus        15 d~~~~~~~~i~~~l~~~g~~~~~P~d~~~~~~~~If~~d~~~i~~~D~VIA~Ld~frg~~~D~GTa~EiG~A~alg   90 (152)
T d2f62a1          15 DMGASYYNKVRELLKKENVMPLIPTDNEATEALDIRQKNIQMIKDCDAVIADLSPFRGHEPDCGTAFEVGCAAALN   90 (152)
T ss_dssp             TTTHHHHHHHHHHHHTTTCEEECTTTTCCSSHHHHHHHHHHHHHHCSEEEEECCCCSSSSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHCCCEEeccccccchhHHHHHHHHHHHHHhCCEEEEEccccCCCCCCchHHHHHHHHHHCC
Confidence            3334588999999999999998643  2333344666677889999999999974  2233456788888887654

>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=88.14  E-value=0.26  Score=36.53  Aligned_cols=39  Identities=18%  Similarity=0.204  Sum_probs=29.7

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEcCCCchHHHHHHHHHHHhh
Q 045657          184 VKEIESLLGAESKYVYTLGIWGFGGIGKTTIARAIFDKIS  223 (227)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~i~G~gG~GKTtla~~v~~~~~  223 (227)
                      +..+..+|. +....+.+.++|.++.|||++|.++.+-+.
T Consensus        40 l~~l~~~l~-~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~   78 (205)
T d1tuea_          40 LGALKSFLK-GTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   78 (205)
T ss_dssp             HHHHHHHHH-TCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHc-CCCCceEEEEECCCCccHHHHHHHHHHHhC
Confidence            445555664 445678999999999999999998876543

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=86.11  E-value=0.26  Score=38.00  Aligned_cols=38  Identities=21%  Similarity=0.268  Sum_probs=27.0

Q ss_pred             HHHHHHhh-cCCCCeEEEEEEcCCCchHHHHHHHHHHHh
Q 045657          185 KEIESLLG-AESKYVYTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       185 ~~~~~~l~-~~~~~~~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      ..|..+|. .+=..-+++-|+|..|+||||||-.+....
T Consensus        40 ~~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~   78 (263)
T d1u94a1          40 LSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAA   78 (263)
T ss_dssp             HHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHH
Confidence            34555554 222345689999999999999998876653

>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=85.58  E-value=0.11  Score=39.41  Aligned_cols=21  Identities=29%  Similarity=0.409  Sum_probs=17.1

Q ss_pred             EEEEcCCCchHHHHHHHHHHH
Q 045657          201 LGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       201 ~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..+.|..|+|||||.+++..+
T Consensus       100 ~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2         100 TVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEESHHHHHHHHHHHHCC-
T ss_pred             EEEECCCCccHHHHHHhhccH
Confidence            348899999999999987654

>d1qe0a1 c.51.1.1 (A:326-420) Histidyl-tRNA synthetase (HisRS), C-terminal domain {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: Anticodon-binding domain-like
superfamily: Class II aaRS ABD-related
family: Anticodon-binding domain of Class II aaRS
domain: Histidyl-tRNA synthetase (HisRS), C-terminal domain
species: Staphylococcus aureus [TaxId: 1280]

Probab=85.22  E-value=0.71  Score=29.29  Aligned_cols=60  Identities=20%  Similarity=0.248  Sum_probs=42.3

Q ss_pred             CcccEEEccccccCCccHHHHHHHHHhhCCCeeEEeCCCCCCCcchHHHHHHHHhcccEEEEee
Q 045657           15 NKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAISLIIFS   78 (227)
Q Consensus        15 ~~~dvFISy~~~D~~~~~~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~~i~~s~~~i~v~S   78 (227)
                      ...||||.--+.+. ...+..|...|+..|+.+-+|.   .+..+...+..|-+..--.++++.
T Consensus         3 ~~~dv~ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~---~~~~l~kq~~~A~~~~~~~~iiiG   62 (95)
T d1qe0a1           3 ENLDLFIVTMGDQA-DRYAVKLLNHLRHNGIKADKDY---LQRKIKGQMKQADRLGAKFTIVIG   62 (95)
T ss_dssp             CCCSEEEEECHHHH-HHHHHHHHHHHHTTTCCEEECC---SCCCHHHHHHHHHHTTCSEEEEEC
T ss_pred             CCCeEEEEEeCHHH-HHHHHHHHHHHHHCCCcEEecC---CCCCHHHHHHHHHhcCCCEEEEEc
Confidence            46799998655543 3589999999999999998874   234576777877554444445543

>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=84.18  E-value=0.22  Score=39.68  Aligned_cols=21  Identities=33%  Similarity=0.423  Sum_probs=18.4

Q ss_pred             EEEEcCCCchHHHHHHHHHHH
Q 045657          201 LGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       201 ~~i~G~gG~GKTtla~~v~~~  221 (227)
                      +-|.|..|.||||+.+++.+.
T Consensus       169 ili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         169 VIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             EEEEESTTSSHHHHHHHHGGG
T ss_pred             EEEEeeccccchHHHHHHhhh
Confidence            677899999999999998764

>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=83.48  E-value=0.3  Score=39.97  Aligned_cols=21  Identities=19%  Similarity=0.357  Sum_probs=18.8

Q ss_pred             EEEEEcCCCchHHHHHHHHHH
Q 045657          200 TLGIWGFGGIGKTTIARAIFD  220 (227)
Q Consensus       200 ~~~i~G~gG~GKTtla~~v~~  220 (227)
                      -|+|.|..|+|||||.+++..
T Consensus        58 ~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          58 NVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            479999999999999998864

>d1kmma1 c.51.1.1 (A:326-424) Histidyl-tRNA synthetase (HisRS), C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Anticodon-binding domain-like
superfamily: Class II aaRS ABD-related
family: Anticodon-binding domain of Class II aaRS
domain: Histidyl-tRNA synthetase (HisRS), C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=83.06  E-value=1.1  Score=28.65  Aligned_cols=59  Identities=17%  Similarity=0.250  Sum_probs=41.1

Q ss_pred             CcccEEEccccccCCccHHHHHHHHHhhC--CCeeEEeCCCCCCCcchHHHHHHHHhcccEEEEe
Q 045657           15 NKYDVFLSFRGEDTRDNFTSHLYSALSLK--SIQTFIDDQLNRGDEISQSLVYAIENSAISLIIF   77 (227)
Q Consensus        15 ~~~dvFISy~~~D~~~~~~~~L~~~L~~~--g~~~~~d~~~~~g~~~~~~i~~~i~~s~~~i~v~   77 (227)
                      ...||||-.-+.+.. ..+-.|...|+.+  |+.+.+|.   .+..+...+..|-+.--..++++
T Consensus         2 p~vdv~vi~~~~~~~-~~a~~la~~LR~~~~gi~v~~~~---~~~~l~kq~k~A~~~~~~~~iii   62 (99)
T d1kmma1           2 PVVDIYLVASGADTQ-SAAMALAERLRDELPGVKLMTNH---GGGNFKKQFARADKWGARVAVVL   62 (99)
T ss_dssp             CSCSEEEECCSTTHH-HHHHHHHHHHHHHSTTCCEEECC---SCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             CCCEEEEEECCHHHH-HHHHHHHHHHHhcCCCeEEEEeC---CCCCHHHHHHHHHHhCCChhhhc
Confidence            357999887766544 4888999999876  99999875   23467677887755444444444

>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=82.21  E-value=0.69  Score=35.64  Aligned_cols=37  Identities=24%  Similarity=0.269  Sum_probs=26.9

Q ss_pred             HHHHHHhh-cCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          185 KEIESLLG-AESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       185 ~~~~~~l~-~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      ..|..+|. .+=..-++.-++|..|+||||||-.+...
T Consensus        46 ~~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~   83 (269)
T d1mo6a1          46 IALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVAN   83 (269)
T ss_dssp             HHHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHH
Confidence            34455554 33355789999999999999999776554

>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=82.10  E-value=0.52  Score=35.80  Aligned_cols=23  Identities=22%  Similarity=0.199  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHH
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .++-|.|.+|.||||++..+.-+
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~   58 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQ   58 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            46668899999999999887544

>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=81.60  E-value=0.5  Score=36.88  Aligned_cols=24  Identities=25%  Similarity=0.073  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCchHHHHHHHHHHHh
Q 045657          199 YTLGIWGFGGIGKTTIARAIFDKI  222 (227)
Q Consensus       199 ~~~~i~G~gG~GKTtla~~v~~~~  222 (227)
                      .-++|.|-.|+|||+|+..+.+..
T Consensus        44 Qr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          44 QRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CeeeEeCCCCCCHHHHHHHHHHHH
Confidence            357899999999999999887753

>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=80.83  E-value=0.56  Score=36.14  Aligned_cols=36  Identities=31%  Similarity=0.300  Sum_probs=26.0

Q ss_pred             HHHHHhh-cCCCCeEEEEEEcCCCchHHHHHHHHHHH
Q 045657          186 EIESLLG-AESKYVYTLGIWGFGGIGKTTIARAIFDK  221 (227)
Q Consensus       186 ~~~~~l~-~~~~~~~~~~i~G~gG~GKTtla~~v~~~  221 (227)
                      .|..+|. .+-..-++.-|+|..|.||||||-.+.-.
T Consensus        44 ~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~   80 (268)
T d1xp8a1          44 SLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQ   80 (268)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHH
Confidence            4445554 22234569999999999999999877654