Citrus Sinensis ID: 005762

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------68

MSGIWRWKRQLSDIASSSMLPSSRTRFTPLVAGPVNYLSNNSIGRAAGGHRRQPFFIGIQERYKWDHGGDTFRKIRAEANCPRCSKHMDLLFSNPSNLSPPVPAPAVDGSGGYQAVNICPNCKSAYYFRPHRIAPLQGSFVEISISANNHNNNNTNKRLKKLSSGGSGKLSFWDTLRSYGGELPPLPSGDVTSNSKGNGNGNGLAVHLPPGPPFAPGVEAVRKMGPSNGGGSGGNGGGGGSSGGGGGGGSRWGGSNLGEDLPTPKEICKGLDKFVIGQEKAKKVLSVAVYNHYKRIYHANLKKGSGAEPKTAAAVDNDDNVELEKSNVLLMGPTGSGKTLLAKTLARHVNVPFVIADATTLTQAGYVGEDVESILYKLLAQAEFNVEAAQQGMVYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLEGTIVNVPEKGARKHPRGDSIQMDTKDILFICGGAFVDLEKTISERRQDSSIGFGAPVRANMRAGVTDAAVTSSLLESVESSDLIAYGLIPEFVGRFPILVSLTALTEDQLVKVLTEPKNALGKQYKRLFSMNNVKLHFTEKALRVIAKKATAKNTGARGLRAILESILTEAMYEIPDVKTGSDGVDAVVVDEESVGSVDAPGCGGKILRGEGALERYLVEAERRESAENASERELQESEAEISTRAMSM

cccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccccHHHHHHcccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccEEEEEEcccccccccccccccccccccccccccccccEEEEccEEEEEccccccHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHccccHHHHccccEEEEccccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccccEEEccccEEEEEccccccHHHHHHHHccccccccccccccccccccccHHHHHHHHHcccccHHHHcccccccccccccEEEcccccHHHHHHHHccccHHHHHHHHHHHcccccEEEEcHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccccccccEEEEccccccccccccccccEEccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc

ccHHHHHHHHHHHHHHHHccccccccccccccccHHHcccHccccccccccccccEEEEEEEEEEccccccccEEEEccccccccHcccEEEcccccccccccccccccccccEEEEcccccccEEEEccccccccccEEEEEEcEcccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHEccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccEHcccccEEEEccccccHHHHHHHHHHHHcccEEEEEHHHHcccccHHHcccHHHHHHHHcccccHHHHHHcEEEEEcHHHHcccccccccccccccHHHHHHHHHHHHccEEEcccccccccccccEEEEccccEEEEEccHHHcHHHHHHHHccccccccccccccccccccccHccHHHHHHHccHHHHHHccccHHHHHHccEEEEcccccHHHHHHHHHcccccHHHHHHHHHHHcccEEEEcHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccccccEEEEEHHHcccccccEEEEEEccccccHHHHHHcccccccccccccccccccccccccHEHcc

msgiwrwkrqlsdiasssmlpssrtrftplvagpvnylsnnsigraagghrrqpffigiqerykwdhggDTFRKIRaeancprcskhmdllfsnpsnlsppvpapavdgsggyqavnicpncksayyfrphriaplqgsFVEISISAnnhnnnntNKRLKklssggsgklsFWDTLRsyggelpplpsgdvtsnskgngngnglavhlppgppfapgveavrkmgpsngggsggngggggssgggggggsrwggsnlgedlptpkeicKGLDKFVIGQEKAKKVLSVAVYNHYKRIYHanlkkgsgaepktaaavdnddnveleksnvllmgptgsgkTLLAKTLARHVNVPFVIADattltqagyvgeDVESILYKLLAQAEFNVEAAQQGMVYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLEGtivnvpekgarkhprgdsiqmdTKDILFICGGAFVDLEKTIserrqdssigfgapvranmragvTDAAVTSSLLesvessdliayglipefvgrfPILVSLTALTEDQLVKVLtepknalgkQYKRLFSMNNVKLHFTEKALRVIAKKATAKNTGARGLRAILESILTEAMyeipdvktgsdgvdavvvdeesvgsvdapgcggkilrgEGALERYLVEAERRESAENASERELQESEAEISTRAMSM

msgiwrwkrqlsdiasssmlpssrtRFTPLVAGPVNYLSNNSIGRAAGGHRRQPFFIGIQERYKWDHGGDTFRKIRAEANCPRCSKHMDLLFSNPSNLSPPVPAPAVDGSGGYQAVNICPNCKSAYYFRPHRIAPLQGSFVEISISAnnhnnnntnkrlkklssggsGKLSFWDTLRSYGGELPPLPSGDVTSNSKGNGNGNGLAVHLPPGPPFAPGVEAVRKMGPSNGGGSGGNGGGGGSSGGGGGGGSRWGGSNLGEDLPTPKEICKGLDKFVIGQEKAKKVLSVAVYNHYKRIYHanlkkgsgaepKTAAAVDNDDNVELEKSNVLLMGPTGSGKTLLAKTLARHVNVPFVIADATTLTQAGYVGEDVESILYKLLAQAEFNVEAAQQGMVYIDEVDKITKKAEslnisrdvsgEGVQQALLKMLEGTivnvpekgarkhprgdsiqmdTKDILFICGGAFVDLEKTiserrqdssigfgapvranMRAGVTDAAVTSSLLESVESSDLIAYGLIPEFVGRFPILVSLTALTEDQLVKVLTepknalgkqykRLFSMNNVKLHFTEKALRVIAKkatakntgarglRAILESILTEAMYEIPDVKTGSDGVDAVVVDEesvgsvdapgcggkilrgEGALERYLVEAErresaenaserelqeseaeistramsm

MSGIWRWKRQLSDIASSSMLPSSRTRFTPLVAGPVNYLSNNSIGRAAGGHRRQPFFIGIQERYKWDHGGDTFRKIRAEANCPRCSKHMDLLFSNPSNLSPPVPAPAVDGSGGYQAVNICPNCKSAYYFRPHRIAPLQGSFVEISISAnnhnnnntnKRlkklssggsgklsFWDTLRSYGGELPPLPSGDVTsnskgngngngLAVHLPPGPPFAPGVEAVRKMgpsngggsggngggggssgggggggsrwggsnlgEDLPTPKEICKGLDKFVIGQEKAKKVLSVAVYNHYKRIYHANLKKGSGAEPKTAAAVDNDDNVELEKSNVLLMGPTGSGKTLLAKTLARHVNVPFVIADATTLTQAGYVGEDVESILYKLLAQAEFNVEAAQQGMVYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLEGTIVNVPEKGARKHPRGDSIQMDTKDILFICGGAFVDLEKTISERRQDSSIGFGAPVRANMRAGVTDAAvtssllesvessDLIAYGLIPEFVGRFPILVSLTALTEDQLVKVLTEPKNALGKQYKRLFSMNNVKLHFTEKALRVIAKKATAKNTGARGLRAILESILTEAMYEIPDVKTgsdgvdavvvdeesvgsvdaPGCGGKILRGEGALERYLVeaerresaenasereLQESEAEISTRAMSM

****WRW*******************FTPLVAGPVNYLSNNSIGRAAGGHRRQPFFIGIQERYKWDHGGDTFRKIRAEANCPRCSKHMDLLF*****************SGGYQAVNICPNCKSAYYFRPHRIAPLQGSFVEISI**************************FWDTL*****************************************************************************************EICKGLDKFVIGQEKAKKVLSVAVYNHYKRIYHANL**************************VLLMGPTGSGKTLLAKTLARHVNVPFVIADATTLTQAGYVGEDVESILYKLLAQAEFNVEAAQQGMVYIDEVDKITKKAESLNISRDV*GEGVQQALLKMLEGTIVNV***************MDTKDILFICGGAFVDLEKTI********IGFGAPVRANMRAGVTDAAVTSSLLESVESSDLIAYGLIPEFVGRFPILVSLTALTEDQLVKVLTEPKNALGKQYKRLFSMNNVKLHFTEKALRVIAKKATAKNTGARGLRAILESILTEAMYEIPDVKTGSDGVDAVVVDEESVGSVDAPGCGGKILRGEGALERYLV******************************

*******KRQLSDIASSSM***********VAGPVNYLSNNSIGRAAGGHRRQPFFI*******************AEANCPRCSKHMDLLFS*********************AVNICPNCKSAYYFRPHRIAPLQGSFVE*************************************************************************************************************************PKEICKGLDKFVIGQEKAKKVLSVAVYNHYKRIYHANLK*****************NVELEKSNVLLMGPTGSGKTLLAKTLARHVNVPFVIADATTLTQAGYVGEDVESILYKLLAQAEFNVEAAQQGMVYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLEGTIVNVPEKGARKHPRGDSIQMDTKDILFICGGAFVDLEKTISERRQDSSIGFG******************SLLESVESSDLIAYGLIPEFVGRFPILVSLTALTEDQLVKVLTEPKNALGKQYKRLFSMNNVKLHFTEKALRVIAKKATAKNTGARGLRAILESILTEAMYEIPDVKTGSDGVDAVVVDEESVGSVDAPGCGGKILR***********************************RA***

*SGIWRWKRQLSDIASSSMLPSSRTRFTPLVAGPVNYLSNNSIGRAAGGHRRQPFFIGIQERYKWDHGGDTFRKIRAEANCPRCSKHMDLLFSNP***************GGYQAVNICPNCKSAYYFRPHRIAPLQGSFVEISISAN********************KLSFWDTLRSYGGELPPLPSGDVTS********NGLAVHLPPGPPFAPGVEAVRKMGPSN*******************************DLPTPKEICKGLDKFVIGQEKAKKVLSVAVYNHYKRIYH********************DNVELEKSNVLLMGPTGSGKTLLAKTLARHVNVPFVIADATTLTQAGYVGEDVESILYKLLAQAEFNVEAAQQGMVYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLEGTIVNVPEKGARKHPRGDSIQMDTKDILFICGGAFVDLEKTISERRQDSSIGFGAPVR***RAGVTD*AVTSSLLESVESSDLIAYGLIPEFVGRFPILVSLTALTEDQLVKVLTEPKNALGKQYKRLFSMNNVKLHFTEKALRVIAKKATAKNTGARGLRAILESILTEAMYEIPDVKTGSDGVDAVVVDEESVGSVDAPGCGGKILRGEGAL*RYLVE*****************************

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii

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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		678	2.2.26 [Sep-21-2011]
Q1GGF7		421	ATP-dependent Clp proteas	yes	no	0.525	0.845	0.553	1e-115
Q5LUP9		424	ATP-dependent Clp proteas	yes	no	0.508	0.813	0.564	1e-114
Q11J59		424	ATP-dependent Clp proteas	yes	no	0.5	0.799	0.577	1e-114
Q165G0		421	ATP-dependent Clp proteas	yes	no	0.523	0.843	0.553	1e-114
O67356		412	ATP-dependent Clp proteas	yes	no	0.510	0.839	0.566	1e-113
Q89KG2		423	ATP-dependent Clp proteas	yes	no	0.504	0.808	0.564	1e-113
B3Q7P4		424	ATP-dependent Clp proteas	yes	no	0.504	0.806	0.564	1e-113
Q6N5L4		424	ATP-dependent Clp proteas	yes	no	0.504	0.806	0.564	1e-113
A5EKA7		424	ATP-dependent Clp proteas	yes	no	0.495	0.792	0.571	1e-113
Q2W3I0		421	ATP-dependent Clp proteas	yes	no	0.523	0.843	0.535	1e-113

>sp\|Q1GGF7\|CLPX_RUEST ATP-dependent Clp protease ATP-binding subunit ClpX OS=Ruegeria sp. (strain TM1040) GN=clpX PE=3 SV=1	Back alignment and function desciption

 Score =  415 bits (1066), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 211/381 (55%), Positives = 280/381 (73%), Gaps = 25/381 (6%)

Query: 250 SRWGGSNLGEDLPTPKEICKGLDKFVIGQEKAKKVLSVAVYNHYKRIYHANLKKGSGAEP 309
           ++  G    + +PTPK+IC+ LD +VIGQ  AK+VLSVAV+NHYKR+ HA  K G     
Sbjct: 52  TKASGMKATDGVPTPKDICEVLDDYVIGQATAKRVLSVAVHNHYKRLNHAQ-KAG----- 105

Query: 310 KTAAAVDNDDNVELEKSNVLLMGPTGSGKTLLAKTLARHVNVPFVIADATTLTQAGYVGE 369
                    +++EL KSN+LL+GPTG GKTLLA+TLAR ++VPF +ADATTLT+AGYVGE
Sbjct: 106 ---------NDIELSKSNILLIGPTGCGKTLLAQTLARILDVPFTMADATTLTEAGYVGE 156

Query: 370 DVESILYKLLAQAEFNVEAAQQGMVYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLE 429
           DVE+I+ KLL  +E+NVE AQ+G+VYIDEVDKIT+K+E+ +I+RDVSGEGVQQALLK++E
Sbjct: 157 DVENIILKLLQASEYNVERAQRGIVYIDEVDKITRKSENPSITRDVSGEGVQQALLKLME 216

Query: 430 GTIVNVPEKGARKHPRGDSIQMDTKDILFICGGAFVDLEKTISERRQDSSIGFGAPVRAN 489
           GT+ +VP +G RKHP+ + +Q+DT +ILFICGGAF  L+K I +R + S++GFGA VR  
Sbjct: 217 GTVASVPPQGGRKHPQQEFLQVDTTNILFICGGAFAGLDKIIKQRGKGSAMGFGADVREE 276

Query: 490 MRAGVTDAAVTSSLLESVESSDLIAYGLIPEFVGRFPILVSLTALTEDQLVKVLTEPKNA 549
             AGV +          +E  DL+ +GLIPEFVGR P+L +L  L ED L+ +LT+PKNA
Sbjct: 277 SDAGVGET------FRDLEPEDLLKFGLIPEFVGRLPVLATLEDLDEDALITILTKPKNA 330

Query: 550 LGKQYKRLFSMNNVKLHFTEKALRVIAKKATAKNTGARGLRAILESILTEAMYEIPDVKT 609
           L KQY+RLF + + +L FT++AL  IAKKA  + TGARGLR+ILE IL + M+E+P    
Sbjct: 331 LVKQYQRLFELEDTELDFTDEALSAIAKKAIERKTGARGLRSILEDILLDTMFELP---- 386

Query: 610 GSDGVDAVVVDEESVGSVDAP 630
           G + V  VVV+EE+V S   P
Sbjct: 387 GMESVTKVVVNEEAVCSEAQP 407

ATP-dependent specificity component of the Clp protease. It directs the protease to specific substrates. Can perform chaperone functions in the absence of ClpP.
Silicibacter sp. (strain TM1040) (taxid: 292414)

>sp\|Q5LUP9\|CLPX_RUEPO ATP-dependent Clp protease ATP-binding subunit ClpX OS=Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3) GN=clpX PE=3 SV=1	Back alignment and function description

>sp\|Q11J59\|CLPX_MESSB ATP-dependent Clp protease ATP-binding subunit ClpX OS=Mesorhizobium sp. (strain BNC1) GN=clpX PE=3 SV=1	Back alignment and function description

>sp\|Q165G0\|CLPX_ROSDO ATP-dependent Clp protease ATP-binding subunit ClpX OS=Roseobacter denitrificans (strain ATCC 33942 / OCh 114) GN=clpX PE=3 SV=1	Back alignment and function description

>sp\|O67356\|CLPX_AQUAE ATP-dependent Clp protease ATP-binding subunit ClpX OS=Aquifex aeolicus (strain VF5) GN=clpX PE=3 SV=1	Back alignment and function description

>sp\|Q89KG2\|CLPX_BRAJA ATP-dependent Clp protease ATP-binding subunit ClpX OS=Bradyrhizobium japonicum (strain USDA 110) GN=clpX PE=3 SV=1	Back alignment and function description

>sp\|B3Q7P4\|CLPX_RHOPT ATP-dependent Clp protease ATP-binding subunit ClpX OS=Rhodopseudomonas palustris (strain TIE-1) GN=clpX PE=3 SV=1	Back alignment and function description

>sp\|Q6N5L4\|CLPX_RHOPA ATP-dependent Clp protease ATP-binding subunit ClpX OS=Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009) GN=clpX PE=3 SV=1	Back alignment and function description

>sp\|A5EKA7\|CLPX_BRASB ATP-dependent Clp protease ATP-binding subunit ClpX OS=Bradyrhizobium sp. (strain BTAi1 / ATCC BAA-1182) GN=clpX PE=3 SV=1	Back alignment and function description

>sp\|Q2W3I0\|CLPX_MAGSA ATP-dependent Clp protease ATP-binding subunit ClpX OS=Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) GN=clpX PE=3 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		678
255557853		698	ATP-dependent clp protease ATP-binding s	0.964	0.936	0.696	0.0
449447519		699	PREDICTED: ATP-dependent Clp protease AT	0.961	0.932	0.678	0.0
359493519		685	PREDICTED: ATP-dependent Clp protease AT	0.967	0.957	0.719	0.0
147770637		730	hypothetical protein VITISV_013764 [Viti	0.967	0.898	0.676	0.0
356529352		713	PREDICTED: ATP-dependent Clp protease AT	0.966	0.918	0.639	0.0
356561766		711	PREDICTED: ATP-dependent Clp protease AT	0.966	0.921	0.647	0.0
215769357		645	unnamed protein product [Oryza sativa Ja	0.924	0.972	0.653	0.0
357149618		640	PREDICTED: ATP-dependent Clp protease AT	0.837	0.887	0.686	0.0
413937331		642	hypothetical protein ZEAMMB73_870207 [Ze	0.923	0.975	0.626	0.0
46390353		666	putative ATP-dependent Clp protease ATP-	0.924	0.941	0.634	0.0

>gi\|255557853\|ref\|XP_002519956.1\| ATP-dependent clp protease ATP-binding subunit clpx, putative [Ricinus communis] gi\|223541002\|gb\|EEF42560.1\| ATP-dependent clp protease ATP-binding subunit clpx, putative [Ricinus communis]	Back alignment and taxonomy information

 Score =  890 bits (2301), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 498/715 (69%), Positives = 556/715 (77%), Gaps = 61/715 (8%)

Query: 6   RWKR--QLSDIASSSMLPSSRT--RFTPL--VAGPVNYLSNNSIGRAAGGHRRQPFFIGI 59
           RWKR  ++  + S     S+R   R+ P+  ++   NYL+        G +RR+   IG+
Sbjct: 3   RWKRVKEIPKLLSYPDHLSNRDLHRWMPVSTISTYFNYLN-------IGCNRRRESLIGL 55

Query: 60  QERYKWDHGGDT------FRKIRAEANCPRCSKHMDLLFSN----------PSNLSPPVP 103
           QERYKWD  GD        RKIRAE+NCPRCSKHMDLLFSN            NL     
Sbjct: 56  QERYKWDGNGDGNNNNSDVRKIRAESNCPRCSKHMDLLFSNRHFPSPSSNNNPNLDSTSN 115

Query: 104 APAVDGSGGYQAVNICPNCKSAYYFRPHRIAPLQGSFVEISISANNHNNNNTNKRLKKL- 162
               + +  YQAVN CP+CK+AYYFRP++I PLQGSF+EI    NN  NN +  R+  L 
Sbjct: 116 NNNCNTNNTYQAVNFCPSCKTAYYFRPYKITPLQGSFIEIGRVGNNSPNNKSRNRIGSLT 175

Query: 163 --------------SSGGSGKL--SFWDTLRSYGGELPPLPSGDVTSNSKGNGNGNGLAV 206
                         S+  SG+L  SFW+TLRSY G+          +      NGNGLAV
Sbjct: 176 KQHPSTEDLEEGFDSNAISGRLRASFWNTLRSYAGD-------PPENWPPPPLNGNGLAV 228

Query: 207 HLPPGPPFAPGVEAVRKMGPSNGGGSGGNGGGGGSSGGGGGGGSRWGGSNLGEDLPTPKE 266
           H PPGPPFAPGV  +R       G  GG GG GG    GGGGG  WGGSNLG+DLPTPKE
Sbjct: 229 HTPPGPPFAPGVNVIRA-----NGPGGGGGGEGGGEKSGGGGGGGWGGSNLGKDLPTPKE 283

Query: 267 ICKGLDKFVIGQEKAKKVLSVAVYNHYKRIYHANLKKGSGAEPKTAAAVDNDDNVELEKS 326
           IC+GLDKFVIGQ++AKKVLSVAVYNHYKRIYHA+LKKG G E  ++ AVD+DDNVELEKS
Sbjct: 284 ICRGLDKFVIGQDRAKKVLSVAVYNHYKRIYHASLKKGPGEESGSSDAVDDDDNVELEKS 343

Query: 327 NVLLMGPTGSGKTLLAKTLARHVNVPFVIADATTLTQAGYVGEDVESILYKLLAQAEFNV 386
           NVLLMGPTGSGKTLLAKTLAR VNVPFVIADAT LTQAGYVGEDVESILYKLL+ AEFNV
Sbjct: 344 NVLLMGPTGSGKTLLAKTLARFVNVPFVIADATALTQAGYVGEDVESILYKLLSVAEFNV 403

Query: 387 EAAQQGMVYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLEGTIVNVPEKGARKHPRG 446
           +AAQQG+VYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLEGTIVNVPEKGARKHPRG
Sbjct: 404 QAAQQGIVYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLEGTIVNVPEKGARKHPRG 463

Query: 447 DSIQMDTKDILFICGGAFVDLEKTISERRQDSSIGFGAPVRANMRA-GVTDAAVTSSLLE 505
           D+IQ+DTKDILFICGGAFVDLEKTISERRQDSSIGFGAPVRANMRA GVT+AAVTSSLLE
Sbjct: 464 DNIQIDTKDILFICGGAFVDLEKTISERRQDSSIGFGAPVRANMRAGGVTNAAVTSSLLE 523

Query: 506 SVESSDLIAYGLIPEFVGRFPILVSLTALTEDQLVKVLTEPKNALGKQYKRLFSMNNVKL 565
           SVES+DLIAYGLIPEF+GRFPILVSL+ALTEDQLV+VLTEPKNALGKQYK+LFSMN VKL
Sbjct: 524 SVESADLIAYGLIPEFIGRFPILVSLSALTEDQLVRVLTEPKNALGKQYKKLFSMNKVKL 583

Query: 566 HFTEKALRVIAKKATAKNTGARGLRAILESILTEAMYEIPDVKTGSDGVDAVVVDEESVG 625
           HFTEKALR+IAKKA AKNTGARGLRAILES LTEAMYEIPDVKTGSD VDAV+VDEES+G
Sbjct: 584 HFTEKALRLIAKKAMAKNTGARGLRAILESTLTEAMYEIPDVKTGSDRVDAVIVDEESIG 643

Query: 626 SVDAPGCGGKILRGEGALERYLVEAERRESAEN--ASERELQESEAEISTRAMSM 678
           SV+A G GGKILRG+GALE YL E + +ESAEN  A + ELQ+ E E+S+RAMSM
Sbjct: 644 SVNASGHGGKILRGDGALESYLAEYKLKESAENVEAGDTELQDGEPEVSSRAMSM 698

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|449447519\|ref\|XP_004141515.1\| PREDICTED: ATP-dependent Clp protease ATP-binding subunit ClpX-like [Cucumis sativus] gi\|449510687\|ref\|XP_004163734.1\| PREDICTED: ATP-dependent Clp protease ATP-binding subunit ClpX-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|359493519\|ref\|XP_002264217.2\| PREDICTED: ATP-dependent Clp protease ATP-binding subunit ClpX-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|147770637\|emb\|CAN64542.1\| hypothetical protein VITISV_013764 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356529352\|ref\|XP_003533258.1\| PREDICTED: ATP-dependent Clp protease ATP-binding subunit ClpX-like [Glycine max]	Back alignment and taxonomy information

>gi\|356561766\|ref\|XP_003549149.1\| PREDICTED: ATP-dependent Clp protease ATP-binding subunit ClpX-like [Glycine max]	Back alignment and taxonomy information

>gi\|215769357\|dbj\|BAH01586.1\| unnamed protein product [Oryza sativa Japonica Group] gi\|218190998\|gb\|EEC73425.1\| hypothetical protein OsI_07697 [Oryza sativa Indica Group]	Back alignment and taxonomy information

>gi\|357149618\|ref\|XP_003575174.1\| PREDICTED: ATP-dependent Clp protease ATP-binding subunit ClpX-like isoform 1 [Brachypodium distachyon]	Back alignment and taxonomy information

>gi\|413937331\|gb\|AFW71882.1\| hypothetical protein ZEAMMB73_870207 [Zea mays]	Back alignment and taxonomy information

>gi\|46390353\|dbj\|BAD15818.1\| putative ATP-dependent Clp protease ATP-binding subunit ClpX1 (CLPX) [Oryza sativa Japonica Group]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		678
TAIR\|locus:2006942		656	AT1G33360 [Arabidopsis thalian	0.564	0.583	0.773	8.4e-175
TAIR\|locus:2155446		608	AT5G49840 [Arabidopsis thalian	0.570	0.636	0.686	1.3e-154
TAIR\|locus:2154257		579	CLPX "CLP protease regulatory	0.572	0.670	0.766	1.8e-151
TIGR_CMR\|SPO_1004		424	SPO_1004 "ATP-dependent Clp pr	0.483	0.773	0.564	3.5e-98
TIGR_CMR\|SO_1795		426	SO_1795 "ATP-dependent Clp pro	0.483	0.769	0.574	9.4e-98
TIGR_CMR\|CHY_0326		418	CHY_0326 "ATP-dependent Clp pr	0.483	0.784	0.58	3.2e-97
UNIPROTKB\|P0CAU2		420	clpX "ATP-dependent Clp protea	0.479	0.773	0.570	5.9e-96
UNIPROTKB\|P0A6H1		424	clpX "ClpX" [Escherichia coli	0.482	0.771	0.553	1.4e-94
TIGR_CMR\|CPS_3784		424	CPS_3784 "ATP-dependent Clp pr	0.483	0.773	0.542	6.1e-94
TIGR_CMR\|CBU_0739		422	CBU_0739 "ATP-dependent Clp pr	0.482	0.774	0.556	7.8e-94

TAIR\|locus:2006942 AT1G33360 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1494 (531.0 bits), Expect = 8.4e-175, Sum P(2) = 8.4e-175
 Identities = 301/389 (77%), Positives = 326/389 (83%)

Query:   260 DLPTPKEICKGLDKFVIGQEKAKKVLSVAVYNHYKRIYHANLKKGSGAEPKTAAAVDNDD 319
             D PTPKEICK LDKFVIGQ +AKKVLSVAVYNHYKRIYH ++KKGS A+P     +D+DD
Sbjct:   248 DFPTPKEICKWLDKFVIGQSRAKKVLSVAVYNHYKRIYHTSMKKGSAAQP-----IDDDD 302

Query:   320 NVELEKSNVLLMGPTGSGKTLLAKTLARHVNVPFVIADATTLTQAGYVGEDVESILYKLL 379
             NVEL+KSNVLLMGPTGSGKTLLAKTLAR VNVPFVIADATTLTQAGYVG+DVESIL+KLL
Sbjct:   303 NVELDKSNVLLMGPTGSGKTLLAKTLARLVNVPFVIADATTLTQAGYVGDDVESILHKLL 362

Query:   380 AQAEFNVEAAQQGMVYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLEGTIVNVPEKG 439
               AEFNV+AAQQG+VYIDEVDKITKKAESLNISRDVSGEGVQQALLK+LEGTIVNVP KG
Sbjct:   363 TVAEFNVQAAQQGIVYIDEVDKITKKAESLNISRDVSGEGVQQALLKLLEGTIVNVPGKG 422

Query:   440 ARKHPRGDSIQMDTKDILFICGGAFVDLEKTISERRQDSSIGFGAPVRANMR-AGVTDAA 498
             ARKHPRGD IQ+DTKDILFICGGAFVDLEKTI +RRQDSSIGFGAPVRANM  +GVT  A
Sbjct:   423 ARKHPRGDHIQIDTKDILFICGGAFVDLEKTIVDRRQDSSIGFGAPVRANMATSGVTSGA 482

Query:   499 XXXXXXXXXXXXDLIAYGLIPEFVGRFPILVSLTALTEDQLVKVLTEPKNALGKQYKRLF 558
                         DL AYGLIPEFVGRFPILVSL+ALTEDQL++VL EPKNALGKQYK+LF
Sbjct:   483 ITSSLLESVESADLTAYGLIPEFVGRFPILVSLSALTEDQLIRVLVEPKNALGKQYKKLF 542

Query:   559 SMNNVKLHFTEKALRVIAKKATAKNTGARGLRAILESILTEAMYEIPDVKTXXXXXXXXX 618
             SMNNVKLHFTEKAL +I+K+A  KNTGARGLRA+LESILTEAM+EIPD K          
Sbjct:   543 SMNNVKLHFTEKALEIISKQAMVKNTGARGLRALLESILTEAMFEIPDDKKGDERIDAVI 602

Query:   619 XXXXXXXXXXXPGCGGKILRGEGALERYL 647
                         GC  KILRG+GA ERYL
Sbjct:   603 VDEESTSSEASRGCTAKILRGDGAFERYL 631

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0006457 "protein folding" evidence=IEA

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0051082 "unfolded protein binding" evidence=IEA

TAIR\|locus:2155446 AT5G49840 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2154257 CLPX "CLP protease regulatory subunit X" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TIGR_CMR\|SPO_1004 SPO_1004 "ATP-dependent Clp protease, ATP-binding subunit ClpX" [Ruegeria pomeroyi DSS-3 (taxid:246200)]	Back alignment and assigned GO terms

TIGR_CMR\|SO_1795 SO_1795 "ATP-dependent Clp protease, ATP-binding subunit ClpX" [Shewanella oneidensis MR-1 (taxid:211586)]	Back alignment and assigned GO terms

TIGR_CMR\|CHY_0326 CHY_0326 "ATP-dependent Clp protease, ATP-binding subunit ClpX" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]	Back alignment and assigned GO terms

UNIPROTKB\|P0CAU2 clpX "ATP-dependent Clp protease ATP-binding subunit ClpX" [Caulobacter crescentus CB15 (taxid:190650)]	Back alignment and assigned GO terms

UNIPROTKB\|P0A6H1 clpX "ClpX" [Escherichia coli K-12 (taxid:83333)]	Back alignment and assigned GO terms

TIGR_CMR\|CPS_3784 CPS_3784 "ATP-dependent Clp protease, ATP-binding subunit ClpX" [Colwellia psychrerythraea 34H (taxid:167879)]	Back alignment and assigned GO terms

TIGR_CMR\|CBU_0739 CBU_0739 "ATP-dependent Clp protease, ATP-binding subunit ClpX" [Coxiella burnetii RSA 493 (taxid:227377)]	Back alignment and assigned GO terms

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

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.7.1	0.691

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	Alignment Graph	Length	Definition	E-value
Query		678
PRK05342		412	PRK05342, clpX, ATP-dependent protease ATP-binding	0.0
COG1219		408	COG1219, ClpX, ATP-dependent protease Clp, ATPase	0.0
TIGR00382		413	TIGR00382, clpX, endopeptidase Clp ATP-binding reg	1e-171
PRK05201		443	PRK05201, hslU, ATP-dependent protease ATP-binding	2e-38
COG1220		444	COG1220, HslU, ATP-dependent protease HslVU (ClpYQ	4e-36
TIGR00390		441	TIGR00390, hslU, ATP-dependent protease HslVU, ATP	7e-32
pfam07724		168	pfam07724, AAA_2, AAA domain (Cdc48 subfamily)	5e-31
COG1220		444	COG1220, HslU, ATP-dependent protease HslVU (ClpYQ	7e-23
smart01086		90	smart01086, ClpB_D2-small, C-terminal, D2-small do	2e-22
PRK05201		443	PRK05201, hslU, ATP-dependent protease ATP-binding	4e-22
TIGR00390		441	TIGR00390, hslU, ATP-dependent protease HslVU, ATP	2e-20
cd00009		151	cd00009, AAA, The AAA+ (ATPases Associated with a	6e-14
pfam00004		131	pfam00004, AAA, ATPase family associated with vari	5e-13
pfam10431		81	pfam10431, ClpB_D2-small, C-terminal, D2-small dom	3e-12
COG0542		786	COG0542, clpA, ATP-binding subunits of Clp proteas	4e-11
COG1223		368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	3e-10
COG0714		329	COG0714, COG0714, MoxR-like ATPases [General funct	5e-09
COG0464		494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	7e-09
TIGR01243		733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	2e-07
smart00382		148	smart00382, AAA, ATPases associated with a variety	4e-07
PTZ00454		398	PTZ00454, PTZ00454, 26S protease regulatory subuni	4e-06
TIGR01242		364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	1e-05
PRK13342		413	PRK13342, PRK13342, recombination factor protein R	3e-05
pfam13401		124	pfam13401, AAA_22, AAA domain	4e-05
COG1222		406	COG1222, RPT1, ATP-dependent 26S proteasome regula	6e-05
PTZ00361		438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	8e-05
PRK03992		389	PRK03992, PRK03992, proteasome-activating nucleoti	1e-04
COG2256		436	COG2256, MGS1, ATPase related to the helicase subu	3e-04
pfam12810		248	pfam12810, Gly_rich, Glycine rich protein	4e-04
TIGR02639		730	TIGR02639, ClpA, ATP-dependent Clp protease ATP-bi	4e-04
pfam13191		154	pfam13191, AAA_16, AAA ATPase domain	5e-04
COG1203		733	COG1203, COG1203, CRISPR-associated helicase Cas3	6e-04
PHA00370		297	PHA00370, III, attachment protein	6e-04
COG0542		786	COG0542, clpA, ATP-binding subunits of Clp proteas	7e-04
PRK10733		644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	7e-04
cd02021		150	cd02021, GntK, Gluconate kinase (GntK) catalyzes t	8e-04
TIGR01241		495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	8e-04
CHL00176		638	CHL00176, ftsH, cell division protein; Validated	0.001
pfam13207		114	pfam13207, AAA_17, AAA domain	0.001
pfam05496		231	pfam05496, RuvB_N, Holliday junction DNA helicase	0.001
PLN02748		468	PLN02748, PLN02748, tRNA dimethylallyltransferase	0.001
COG1512		271	COG1512, COG1512, Beta-propeller domains of methan	0.001
PHA00370		297	PHA00370, III, attachment protein	0.002
PLN03138		796	PLN03138, PLN03138, Protein TOC75; Provisional	0.002
PRK00091		307	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosp	0.002
TIGR01243		733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	0.003
cd00464		154	cd00464, SK, Shikimate kinase (SK) is the fifth en	0.004
pfam07728		135	pfam07728, AAA_5, AAA domain (dynein-related subfa	0.004

>gnl\|CDD\|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX; Provisional	Back alignment and domain information

 Score =  611 bits (1579), Expect = 0.0
 Identities = 212/366 (57%), Positives = 275/366 (75%), Gaps = 24/366 (6%)

Query: 259 EDLPTPKEICKGLDKFVIGQEKAKKVLSVAVYNHYKRIYHANLKKGSGAEPKTAAAVDND 318
           ++LPTPKEI   LD++VIGQE+AKKVLSVAVYNHYKR+ H +                 D
Sbjct: 57  KELPTPKEIKAHLDQYVIGQERAKKVLSVAVYNHYKRLRHGD---------------KKD 101

Query: 319 DNVELEKSNVLLMGPTGSGKTLLAKTLARHVNVPFVIADATTLTQAGYVGEDVESILYKL 378
           D+VEL+KSN+LL+GPTGSGKTLLA+TLAR ++VPF IADATTLT+AGYVGEDVE+IL KL
Sbjct: 102 DDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVGEDVENILLKL 161

Query: 379 LAQAEFNVEAAQQGMVYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLEGTIVNVPEK 438
           L  A+++VE AQ+G+VYIDE+DKI +K+E+ +I+RDVSGEGVQQALLK+LEGT+ +VP +
Sbjct: 162 LQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQ 221

Query: 439 GARKHPRGDSIQMDTKDILFICGGAFVDLEKTISERRQDSSIGFGAPVRANMRAGVTDAA 498
           G RKHP+ + IQ+DT +ILFICGGAF  LEK I +R     IGFGA V++       +  
Sbjct: 222 GGRKHPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSK-----KEKR 276

Query: 499 VTSSLLESVESSDLIAYGLIPEFVGRFPILVSLTALTEDQLVKVLTEPKNALGKQYKRLF 558
               LL+ VE  DLI +GLIPEF+GR P++ +L  L E+ LV++LTEPKNAL KQY++LF
Sbjct: 277 TEGELLKQVEPEDLIKFGLIPEFIGRLPVVATLEELDEEALVRILTEPKNALVKQYQKLF 336

Query: 559 SMNNVKLHFTEKALRVIAKKATAKNTGARGLRAILESILTEAMYEIPDVKTGSDGVDAVV 618
            M+ V+L FT++AL  IAKKA  + TGARGLR+ILE IL + M+E+P      + V+ VV
Sbjct: 337 EMDGVELEFTDEALEAIAKKAIERKTGARGLRSILEEILLDVMFELPS----REDVEKVV 392

Query: 619 VDEESV 624
           + +E V
Sbjct: 393 ITKEVV 398

Length = 412

>gnl\|CDD\|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>gnl\|CDD\|232949 TIGR00382, clpX, endopeptidase Clp ATP-binding regulatory subunit (clpX)	Back alignment and domain information

>gnl\|CDD\|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU; Provisional	Back alignment and domain information

>gnl\|CDD\|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>gnl\|CDD\|213527 TIGR00390, hslU, ATP-dependent protease HslVU, ATPase subunit	Back alignment and domain information

>gnl\|CDD\|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily)	Back alignment and domain information

>gnl\|CDD\|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>gnl\|CDD\|198154 smart01086, ClpB_D2-small, C-terminal, D2-small domain, of ClpB protein	Back alignment and domain information

>gnl\|CDD\|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU; Provisional	Back alignment and domain information

>gnl\|CDD\|213527 TIGR00390, hslU, ATP-dependent protease HslVU, ATPase subunit	Back alignment and domain information

>gnl\|CDD\|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold	Back alignment and domain information

>gnl\|CDD\|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)	Back alignment and domain information

>gnl\|CDD\|204486 pfam10431, ClpB_D2-small, C-terminal, D2-small domain, of ClpB protein	Back alignment and domain information

>gnl\|CDD\|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>gnl\|CDD\|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General function prediction only]	Back alignment and domain information

>gnl\|CDD\|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction only]	Back alignment and domain information

>gnl\|CDD\|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>gnl\|CDD\|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily	Back alignment and domain information

>gnl\|CDD\|214640 smart00382, AAA, ATPases associated with a variety of cellular activities	Back alignment and domain information

>gnl\|CDD\|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like protein; Provisional	Back alignment and domain information

>gnl\|CDD\|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family	Back alignment and domain information

>gnl\|CDD\|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed	Back alignment and domain information

>gnl\|CDD\|222104 pfam13401, AAA_22, AAA domain	Back alignment and domain information

>gnl\|CDD\|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>gnl\|CDD\|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like protein; Provisional	Back alignment and domain information

>gnl\|CDD\|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional	Back alignment and domain information

>gnl\|CDD\|225165 COG2256, MGS1, ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]	Back alignment and domain information

>gnl\|CDD\|221784 pfam12810, Gly_rich, Glycine rich protein	Back alignment and domain information

>gnl\|CDD\|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit clpA	Back alignment and domain information

>gnl\|CDD\|221970 pfam13191, AAA_16, AAA ATPase domain	Back alignment and domain information

>gnl\|CDD\|224124 COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	Back alignment and domain information

>gnl\|CDD\|164795 PHA00370, III, attachment protein	Back alignment and domain information

>gnl\|CDD\|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>gnl\|CDD\|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed	Back alignment and domain information

>gnl\|CDD\|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate	Back alignment and domain information

>gnl\|CDD\|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH	Back alignment and domain information

>gnl\|CDD\|214386 CHL00176, ftsH, cell division protein; Validated	Back alignment and domain information

>gnl\|CDD\|221983 pfam13207, AAA_17, AAA domain	Back alignment and domain information

>gnl\|CDD\|203260 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus	Back alignment and domain information

>gnl\|CDD\|215399 PLN02748, PLN02748, tRNA dimethylallyltransferase	Back alignment and domain information

>gnl\|CDD\|224429 COG1512, COG1512, Beta-propeller domains of methanol dehydrogenase type [General function prediction only]	Back alignment and domain information

>gnl\|CDD\|164795 PHA00370, III, attachment protein	Back alignment and domain information

>gnl\|CDD\|215598 PLN03138, PLN03138, Protein TOC75; Provisional	Back alignment and domain information

>gnl\|CDD\|234626 PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	Back alignment and domain information

>gnl\|CDD\|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily	Back alignment and domain information

>gnl\|CDD\|238260 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants	Back alignment and domain information

>gnl\|CDD\|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily)	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		678
KOG0745		564	consensus Putative ATP-dependent Clp-type protease	100.0
COG1219		408	ClpX ATP-dependent protease Clp, ATPase subunit [P	100.0
PRK05342		412	clpX ATP-dependent protease ATP-binding subunit Cl	100.0
TIGR00382		413	clpX endopeptidase Clp ATP-binding regulatory subu	100.0
TIGR00390		441	hslU ATP-dependent protease HslVU, ATPase subunit.	100.0
PRK05201		443	hslU ATP-dependent protease ATP-binding subunit Hs	100.0
COG1220		444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	100.0
COG0542		786	clpA ATP-binding subunits of Clp protease and DnaK	100.0
PRK11034		758	clpA ATP-dependent Clp protease ATP-binding subuni	99.97
CHL00095		821	clpC Clp protease ATP binding subunit	99.97
TIGR02639		731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.96
TIGR03345		852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.96
TIGR03346		852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.94
PRK10865		857	protein disaggregation chaperone; Provisional	99.94
COG0466		782	Lon ATP-dependent Lon protease, bacterial type [Po	99.92
KOG1051		898	consensus Chaperone HSP104 and related ATP-depende	99.91
TIGR00763		775	lon ATP-dependent protease La. This protein is ind	99.9
KOG2004		906	consensus Mitochondrial ATP-dependent protease PIM	99.9
PRK10787		784	DNA-binding ATP-dependent protease La; Provisional	99.9
TIGR02881		261	spore_V_K stage V sporulation protein K. Members o	99.88
TIGR02880		284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.88
CHL00181		287	cbbX CbbX; Provisional	99.88
PF07724		171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.88
COG1223		368	Predicted ATPase (AAA+ superfamily) [General funct	99.88
KOG0738		491	consensus AAA+-type ATPase [Posttranslational modi	99.87
KOG0730		693	consensus AAA+-type ATPase [Posttranslational modi	99.86
PF05496		233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.86
COG1222		406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.86
KOG0736		953	consensus Peroxisome assembly factor 2 containing	99.84
COG2256		436	MGS1 ATPase related to the helicase subunit of the	99.83
KOG0734		752	consensus AAA+-type ATPase containing the peptidas	99.83
KOG0731		774	consensus AAA+-type ATPase containing the peptidas	99.83
KOG0733		802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.82
COG2204		464	AtoC Response regulator containing CheY-like recei	99.81
COG3604		550	FhlA Transcriptional regulator containing GAF, AAA	99.8
COG3829		560	RocR Transcriptional regulator containing PAS, AAA	99.8
KOG0739		439	consensus AAA+-type ATPase [Posttranslational modi	99.8
CHL00195		489	ycf46 Ycf46; Provisional	99.77
KOG2028		554	consensus ATPase related to the helicase subunit o	99.77
KOG0733		802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.76
TIGR01241		495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.76
COG2255		332	RuvB Holliday junction resolvasome, helicase subun	99.76
COG0464		494	SpoVK ATPases of the AAA+ class [Posttranslational	99.75
KOG0728		404	consensus 26S proteasome regulatory complex, ATPas	99.75
TIGR01243		733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.75
PTZ00454		398	26S protease regulatory subunit 6B-like protein; P	99.74
TIGR02974		329	phageshock_pspF psp operon transcriptional activat	99.74
PRK03992		389	proteasome-activating nucleotidase; Provisional	99.73
CHL00176		638	ftsH cell division protein; Validated	99.72
TIGR03689		512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.72
COG0465		596	HflB ATP-dependent Zn proteases [Posttranslational	99.71
TIGR01817		534	nifA Nif-specific regulatory protein. This model r	99.7
PTZ00361		438	26 proteosome regulatory subunit 4-like protein; P	99.69
COG1221		403	PspF Transcriptional regulators containing an AAA-	99.69
PLN00020		413	ribulose bisphosphate carboxylase/oxygenase activa	99.69
PRK11608		326	pspF phage shock protein operon transcriptional ac	99.69
KOG0735		952	consensus AAA+-type ATPase [Posttranslational modi	99.67
PRK05022		509	anaerobic nitric oxide reductase transcription reg	99.66
TIGR01242		364	26Sp45 26S proteasome subunit P45 family. Many pro	99.66
KOG0727		408	consensus 26S proteasome regulatory complex, ATPas	99.65
PRK11388		638	DNA-binding transcriptional regulator DhaR; Provis	99.65
PRK13342		413	recombination factor protein RarA; Reviewed	99.65
PRK14956		484	DNA polymerase III subunits gamma and tau; Provisi	99.65
PRK00080		328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.64
TIGR00635		305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.64
PRK07003		830	DNA polymerase III subunits gamma and tau; Validat	99.64
PRK15424		538	propionate catabolism operon regulatory protein Pr	99.63
TIGR02329		526	propionate_PrpR propionate catabolism operon regul	99.63
PRK10820		520	DNA-binding transcriptional regulator TyrR; Provis	99.63
TIGR02902		531	spore_lonB ATP-dependent protease LonB. Members of	99.63
KOG0737		386	consensus AAA+-type ATPase [Posttranslational modi	99.62
TIGR02639		731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.62
PRK10733		644	hflB ATP-dependent metalloprotease; Reviewed	99.62
PRK15429		686	formate hydrogenlyase transcriptional activator Fh	99.61
PRK12323		700	DNA polymerase III subunits gamma and tau; Provisi	99.61
PRK14962		472	DNA polymerase III subunits gamma and tau; Provisi	99.6
PRK14960		702	DNA polymerase III subunits gamma and tau; Provisi	99.59
CHL00206		2281	ycf2 Ycf2; Provisional	99.59
PRK13341		725	recombination factor protein RarA/unknown domain f	99.59
PLN03025		319	replication factor C subunit; Provisional	99.58
KOG0652		424	consensus 26S proteasome regulatory complex, ATPas	99.58
PRK14958		509	DNA polymerase III subunits gamma and tau; Provisi	99.58
PRK14949		944	DNA polymerase III subunits gamma and tau; Provisi	99.58
PRK07764		824	DNA polymerase III subunits gamma and tau; Validat	99.57
PRK07994		647	DNA polymerase III subunits gamma and tau; Validat	99.56
PRK10923		469	glnG nitrogen regulation protein NR(I); Provisiona	99.56
KOG0989		346	consensus Replication factor C, subunit RFC4 [Repl	99.55
KOG0729		435	consensus 26S proteasome regulatory complex, ATPas	99.55
TIGR03345		852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.55
PF00158		168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.55
PRK14964		491	DNA polymerase III subunits gamma and tau; Provisi	99.55
PRK15115		444	response regulator GlrR; Provisional	99.55
PF00004		132	AAA: ATPase family associated with various cellula	99.55
KOG0744		423	consensus AAA+-type ATPase [Posttranslational modi	99.54
PF01078		206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.54
PRK06645		507	DNA polymerase III subunits gamma and tau; Validat	99.54
TIGR02915		445	PEP_resp_reg putative PEP-CTERM system response re	99.54
PRK14952		584	DNA polymerase III subunits gamma and tau; Provisi	99.54
KOG0741		744	consensus AAA+-type ATPase [Posttranslational modi	99.54
PRK14957		546	DNA polymerase III subunits gamma and tau; Provisi	99.53
KOG0726		440	consensus 26S proteasome regulatory complex, ATPas	99.53
PRK14961		363	DNA polymerase III subunits gamma and tau; Provisi	99.52
PRK08691		709	DNA polymerase III subunits gamma and tau; Validat	99.52
TIGR01243		733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.52
PRK14959		624	DNA polymerase III subunits gamma and tau; Provisi	99.51
PRK14951		618	DNA polymerase III subunits gamma and tau; Provisi	99.51
KOG0740		428	consensus AAA+-type ATPase [Posttranslational modi	99.51
TIGR01818		463	ntrC nitrogen regulation protein NR(I). This model	99.5
COG0714		329	MoxR-like ATPases [General function prediction onl	99.5
COG3283		511	TyrR Transcriptional regulator of aromatic amino a	99.49
TIGR02640		262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.49
PRK14963		504	DNA polymerase III subunits gamma and tau; Provisi	99.49
CHL00095		821	clpC Clp protease ATP binding subunit	99.48
PRK11361		457	acetoacetate metabolism regulatory protein AtoC; P	99.48
PRK14969		527	DNA polymerase III subunits gamma and tau; Provisi	99.48
TIGR00368		499	Mg chelatase-related protein. The N-terminal end m	99.47
COG2812		515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.47
PRK14965		576	DNA polymerase III subunits gamma and tau; Provisi	99.47
PRK10865		857	protein disaggregation chaperone; Provisional	99.47
PRK11034		758	clpA ATP-dependent Clp protease ATP-binding subuni	99.47
PRK14955		397	DNA polymerase III subunits gamma and tau; Provisi	99.46
TIGR02030		337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.46
KOG0651		388	consensus 26S proteasome regulatory complex, ATPas	99.46
CHL00081		350	chlI Mg-protoporyphyrin IX chelatase	99.46
TIGR02442		633	Cob-chelat-sub cobaltochelatase subunit. A number	99.46
PRK13407		334	bchI magnesium chelatase subunit I; Provisional	99.45
PRK05563		559	DNA polymerase III subunits gamma and tau; Validat	99.45
TIGR01650		327	PD_CobS cobaltochelatase, CobS subunit. This model	99.44
TIGR02903		615	spore_lon_C ATP-dependent protease, Lon family. Me	99.44
PRK09111		598	DNA polymerase III subunits gamma and tau; Validat	99.44
smart00350		509	MCM minichromosome maintenance proteins.	99.43
PHA02544		316	44 clamp loader, small subunit; Provisional	99.43
PRK13531		498	regulatory ATPase RavA; Provisional	99.43
PRK08451		535	DNA polymerase III subunits gamma and tau; Validat	99.42
PRK05896		605	DNA polymerase III subunits gamma and tau; Validat	99.42
PRK10365		441	transcriptional regulatory protein ZraR; Provision	99.42
PRK12402		337	replication factor C small subunit 2; Reviewed	99.42
COG3284		606	AcoR Transcriptional activator of acetoin/glycerol	99.42
PRK06647		563	DNA polymerase III subunits gamma and tau; Validat	99.41
PRK04195		482	replication factor C large subunit; Provisional	99.41
PRK07133		725	DNA polymerase III subunits gamma and tau; Validat	99.41
PRK06305		451	DNA polymerase III subunits gamma and tau; Validat	99.41
KOG0732		1080	consensus AAA+-type ATPase containing the bromodom	99.4
TIGR03346		852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.4
KOG0742		630	consensus AAA+-type ATPase [Posttranslational modi	99.4
PRK14953		486	DNA polymerase III subunits gamma and tau; Provisi	99.4
PRK14954		620	DNA polymerase III subunits gamma and tau; Provisi	99.4
TIGR02397		355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.39
PRK14970		367	DNA polymerase III subunits gamma and tau; Provisi	99.39
PRK14948		620	DNA polymerase III subunits gamma and tau; Provisi	99.39
KOG0991		333	consensus Replication factor C, subunit RFC2 [Repl	99.38
PRK07940		394	DNA polymerase III subunit delta'; Validated	99.37
TIGR03420		226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.37
PRK14950		585	DNA polymerase III subunits gamma and tau; Provisi	99.37
KOG0730		693	consensus AAA+-type ATPase [Posttranslational modi	99.36
COG0542		786	clpA ATP-binding subunits of Clp protease and DnaK	99.34
PRK14971		614	DNA polymerase III subunits gamma and tau; Provisi	99.33
PRK00440		319	rfc replication factor C small subunit; Reviewed	99.33
PTZ00111		915	DNA replication licensing factor MCM4; Provisional	99.32
PF07726		131	AAA_3: ATPase family associated with various cellu	99.32
PRK00411		394	cdc6 cell division control protein 6; Reviewed	99.31
COG0606		490	Predicted ATPase with chaperone activity [Posttran	99.31
TIGR02928		365	orc1/cdc6 family replication initiation protein. M	99.3
PRK08084		235	DNA replication initiation factor; Provisional	99.28
PHA02244		383	ATPase-like protein	99.27
PTZ00112		1164	origin recognition complex 1 protein; Provisional	99.27
TIGR00764		608	lon_rel lon-related putative ATP-dependent proteas	99.27
PRK08903		227	DnaA regulatory inactivator Hda; Validated	99.26
TIGR02031		589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.24
COG1224		450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.24
PF07728		139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.22
PRK09112		351	DNA polymerase III subunit delta'; Validated	99.22
KOG0743		457	consensus AAA+-type ATPase [Posttranslational modi	99.21
PRK09862		506	putative ATP-dependent protease; Provisional	99.21
PRK14086		617	dnaA chromosomal replication initiation protein; P	99.2
KOG2170		344	consensus ATPase of the AAA+ superfamily [General	99.19
PRK08727		233	hypothetical protein; Validated	99.18
PRK00149		450	dnaA chromosomal replication initiation protein; R	99.17
PRK06893		229	DNA replication initiation factor; Validated	99.16
PF06068		398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.16
TIGR00362		405	DnaA chromosomal replication initiator protein Dna	99.15
PRK13765		637	ATP-dependent protease Lon; Provisional	99.12
PRK05642		234	DNA replication initiation factor; Validated	99.11
KOG1969		877	consensus DNA replication checkpoint protein CHL12	99.11
PRK07471		365	DNA polymerase III subunit delta'; Validated	99.1
TIGR00678		188	holB DNA polymerase III, delta' subunit. At positi	99.09
cd00009		151	AAA The AAA+ (ATPases Associated with a wide varie	99.06
PF14532		138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	99.05
smart00763		361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	99.04
PRK12422		445	chromosomal replication initiation protein; Provis	99.04
COG1474		366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.04
COG1239		423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	99.03
PRK04132		846	replication factor C small subunit; Provisional	99.02
PRK14088		440	dnaA chromosomal replication initiation protein; P	99.02
PF05673		249	DUF815: Protein of unknown function (DUF815); Inte	99.01
PRK14087		450	dnaA chromosomal replication initiation protein; P	99.0
PF00308		219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.99
PRK13406		584	bchD magnesium chelatase subunit D; Provisional	98.98
PRK07399		314	DNA polymerase III subunit delta'; Validated	98.96
TIGR03015		269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.95
COG0470		325	HolB ATPase involved in DNA replication [DNA repli	98.95
COG1241		682	MCM2 Predicted ATPase involved in replication cont	98.94
PRK05564		313	DNA polymerase III subunit delta'; Validated	98.94
PRK08058		329	DNA polymerase III subunit delta'; Validated	98.93
PRK06620		214	hypothetical protein; Validated	98.92
PRK09087		226	hypothetical protein; Validated	98.84
KOG0735		952	consensus AAA+-type ATPase [Posttranslational modi	98.83
PF00493		331	MCM: MCM2/3/5 family This family extends the MCM d	98.82
PF13177		162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.8
KOG1942		456	consensus DNA helicase, TBP-interacting protein [R	98.79
KOG0480		764	consensus DNA replication licensing factor, MCM6 c	98.79
PRK05707		328	DNA polymerase III subunit delta'; Validated	98.77
PRK11331		459	5-methylcytosine-specific restriction enzyme subun	98.71
KOG0478		804	consensus DNA replication licensing factor, MCM4 c	98.7
TIGR00602		637	rad24 checkpoint protein rad24. This family is bas	98.64
COG4650		531	RtcR Sigma54-dependent transcription regulator con	98.63
smart00382		148	AAA ATPases associated with a variety of cellular	98.58
PRK06964		342	DNA polymerase III subunit delta'; Validated	98.57
KOG0741		744	consensus AAA+-type ATPase [Posttranslational modi	98.56
COG2607		287	Predicted ATPase (AAA+ superfamily) [General funct	98.53
PRK06871		325	DNA polymerase III subunit delta'; Validated	98.52
PRK08769		319	DNA polymerase III subunit delta'; Validated	98.52
KOG2680		454	consensus DNA helicase TIP49, TBP-interacting prot	98.51
COG5271		4600	MDN1 AAA ATPase containing von Willebrand factor t	98.49
PF13173		128	AAA_14: AAA domain	98.45
KOG0736		953	consensus Peroxisome assembly factor 2 containing	98.44
) 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	98.42
PRK07993		334	DNA polymerase III subunit delta'; Validated	98.42
PRK08699		325	DNA polymerase III subunit delta'; Validated	98.41
KOG2227		529	consensus Pre-initiation complex, subunit CDC6, AA	98.41
COG0593		408	DnaA ATPase involved in DNA replication initiation	98.41
KOG0990		360	consensus Replication factor C, subunit RFC5 [Repl	98.4
PRK06090		319	DNA polymerase III subunit delta'; Validated	98.38
PF01637		234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.35
PF12774		231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.34
KOG2035		351	consensus Replication factor C, subunit RFC3 [Cell	98.33
COG5271		4600	MDN1 AAA ATPase containing von Willebrand factor t	98.32
KOG1514		767	consensus Origin recognition complex, subunit 1, a	98.22
PRK12377		248	putative replication protein; Provisional	98.21
PRK08116		268	hypothetical protein; Validated	98.2
PF05621		302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.19
PRK15455		644	PrkA family serine protein kinase; Provisional	98.17
KOG0477		854	consensus DNA replication licensing factor, MCM2 c	98.14
PF13401		131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.13
PF10431		81	ClpB_D2-small: C-terminal, D2-small domain, of Clp	98.12
PF12775		272	AAA_7: P-loop containing dynein motor region D3; P	98.1
KOG0481		729	consensus DNA replication licensing factor, MCM5 c	98.07
PF03215		519	Rad17: Rad17 cell cycle checkpoint protein	98.05
KOG0479		818	consensus DNA replication licensing factor, MCM3 c	98.0
PRK08181		269	transposase; Validated	97.97
PRK07276		290	DNA polymerase III subunit delta'; Validated	97.93
PRK06526		254	transposase; Provisional	97.91
PRK05917		290	DNA polymerase III subunit delta'; Validated	97.9
KOG0482		721	consensus DNA replication licensing factor, MCM7 c	97.87
PRK07132		299	DNA polymerase III subunit delta'; Validated	97.82
PF00910		107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.81
PRK07952		244	DNA replication protein DnaC; Validated	97.8
COG1484		254	DnaC DNA replication protein [DNA replication, rec	97.78
PF01695		178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.77
PRK09183		259	transposase/IS protein; Provisional	97.77
PF08298		358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	97.7
PF05729		166	NACHT: NACHT domain	97.7
KOG1051		898	consensus Chaperone HSP104 and related ATP-depende	97.69
PRK06921		266	hypothetical protein; Provisional	97.69
PF07693		325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.64
PRK06835		329	DNA replication protein DnaC; Validated	97.62
KOG1808		1856	consensus AAA ATPase containing von Willebrand fac	97.62
PRK05818		261	DNA polymerase III subunit delta'; Validated	97.6
PF13191		185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.56
PF13207		121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.53
COG3267		269	ExeA Type II secretory pathway, component ExeA (pr	97.47
cd01120		165	RecA-like_NTPases RecA-like NTPases. This family i	97.47
PRK08939		306	primosomal protein DnaI; Reviewed	97.38
PF03969		362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	97.38
PRK00131		175	aroK shikimate kinase; Reviewed	97.36
PHA00729		226	NTP-binding motif containing protein	97.33
COG0464		494	SpoVK ATPases of the AAA+ class [Posttranslational	97.3
PRK13947		171	shikimate kinase; Provisional	97.27
PHA02774		613	E1; Provisional	97.24
PRK07261		171	topology modulation protein; Provisional	97.22
PRK08118		167	topology modulation protein; Reviewed	97.2
TIGR02688		449	conserved hypothetical protein TIGR02688. Members	97.17
PRK10536		262	hypothetical protein; Provisional	97.17
PRK00625		173	shikimate kinase; Provisional	97.17
PRK03839		180	putative kinase; Provisional	97.16
cd00464		154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.14
KOG2543		438	consensus Origin recognition complex, subunit 5 [R	97.14
PF13604		196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.07
PRK00771		437	signal recognition particle protein Srp54; Provisi	97.06
PRK09376		416	rho transcription termination factor Rho; Provisio	97.05
COG0703		172	AroK Shikimate kinase [Amino acid transport and me	97.04
TIGR01618		220	phage_P_loop phage nucleotide-binding protein. Thi	97.0
cd01128		249	rho_factor Transcription termination factor rho is	97.0
PF03266		168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.99
PRK06217		183	hypothetical protein; Validated	96.99
COG3854		308	SpoIIIAA ncharacterized protein conserved in bacte	96.99
PRK13948		182	shikimate kinase; Provisional	96.99
PRK13949		169	shikimate kinase; Provisional	96.98
PRK14532		188	adenylate kinase; Provisional	96.96
KOG3347		176	consensus Predicted nucleotide kinase/nuclear prot	96.94
PRK14530		215	adenylate kinase; Provisional	96.92
COG1373		398	Predicted ATPase (AAA+ superfamily) [General funct	96.9
PF13671		143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.89
PRK13946		184	shikimate kinase; Provisional	96.86
PRK05057		172	aroK shikimate kinase I; Reviewed	96.84
cd02020		147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.83
PRK14531		183	adenylate kinase; Provisional	96.83
TIGR01425		429	SRP54_euk signal recognition particle protein SRP5	96.81
PRK14974		336	cell division protein FtsY; Provisional	96.8
TIGR01359		183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.8
cd01428		194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.8
PRK03731		171	aroL shikimate kinase II; Reviewed	96.78
cd02021		150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.78
cd01124		187	KaiC KaiC is a circadian clock protein primarily f	96.77
TIGR00767		415	rho transcription termination factor Rho. Members	96.75
PRK06762		166	hypothetical protein; Provisional	96.73
PF14516		331	AAA_35: AAA-like domain	96.73
PRK04296		190	thymidine kinase; Provisional	96.72
TIGR01313		163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.72
PRK08154		309	anaerobic benzoate catabolism transcriptional regu	96.7
PF01583		156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.68
PF13521		163	AAA_28: AAA domain; PDB: 1LW7_A.	96.67
cd00227		175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.67
COG1618		179	Predicted nucleotide kinase [Nucleotide transport	96.64
cd02027		149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.62
PTZ00088		229	adenylate kinase 1; Provisional	96.6
PRK05480		209	uridine/cytidine kinase; Provisional	96.6
PRK12723		388	flagellar biosynthesis regulator FlhF; Provisional	96.53
PRK14528		186	adenylate kinase; Provisional	96.52
cd01131		198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.45
PRK02496		184	adk adenylate kinase; Provisional	96.42
COG1102		179	Cmk Cytidylate kinase [Nucleotide transport and me	96.41
TIGR01360		188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.4
PF05272		198	VirE: Virulence-associated protein E; InterPro: IP	96.39
PRK06547		172	hypothetical protein; Provisional	96.38
TIGR02237		209	recomb_radB DNA repair and recombination protein R	96.36
TIGR01351		210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.34
COG0529		197	CysC Adenylylsulfate kinase and related kinases [I	96.33
PF13238		129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.31
PHA02624		647	large T antigen; Provisional	96.3
PRK00279		215	adk adenylate kinase; Reviewed	96.26
KOG1968		871	consensus Replication factor C, subunit RFC1 (larg	96.25
COG0563		178	Adk Adenylate kinase and related kinases [Nucleoti	96.25
TIGR03574		249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.22
TIGR03499		282	FlhF flagellar biosynthetic protein FlhF.	96.21
PLN02200		234	adenylate kinase family protein	96.2
PF10923		416	DUF2791: P-loop Domain of unknown function (DUF279	96.16
TIGR00235		207	udk uridine kinase. Model contains a number of lon	96.14
KOG1970		634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	96.14
PF13245		76	AAA_19: Part of AAA domain	96.08
PF08433		270	KTI12: Chromatin associated protein KTI12 ; InterP	96.07
PLN02199		303	shikimate kinase	96.06
TIGR01526		325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	96.05
COG1936		180	Predicted nucleotide kinase (related to CMP and AM	96.05
PHA01747		425	putative ATP-dependent protease	96.04
PRK06067		234	flagellar accessory protein FlaH; Validated	96.03
PF00448		196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.02
PF00931		287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	96.01
cd02019		69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.01
PRK04182		180	cytidylate kinase; Provisional	96.0
PRK14527		191	adenylate kinase; Provisional	95.99
PLN02674		244	adenylate kinase	95.99
PHA02530		300	pseT polynucleotide kinase; Provisional	95.98
PRK04220		301	2-phosphoglycerate kinase; Provisional	95.95
PRK14526		211	adenylate kinase; Provisional	95.94
PRK04040		188	adenylate kinase; Provisional	95.94
TIGR02173		171	cyt_kin_arch cytidylate kinase, putative. Proteins	95.92
PRK10867		433	signal recognition particle protein; Provisional	95.91
PF09848		352	DUF2075: Uncharacterized conserved protein (DUF207	95.91
TIGR01448		720	recD_rel helicase, putative, RecD/TraA family. Thi	95.88
PRK01184		184	hypothetical protein; Provisional	95.88
PF12780		268	AAA_8: P-loop containing dynein motor region D4; I	95.87
PRK08233		182	hypothetical protein; Provisional	95.87
COG0572		218	Udk Uridine kinase [Nucleotide transport and metab	95.86
PRK10078		186	ribose 1,5-bisphosphokinase; Provisional	95.85
PRK03846		198	adenylylsulfate kinase; Provisional	95.82
COG1116		248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	95.82
PF05970		364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	95.79
TIGR01420		343	pilT_fam pilus retraction protein PilT. This model	95.78
PF01745		233	IPT: Isopentenyl transferase; InterPro: IPR002648	95.78
PF00406		151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	95.77
PRK14722		374	flhF flagellar biosynthesis regulator FlhF; Provis	95.77
KOG3354		191	consensus Gluconate kinase [Carbohydrate transport	95.77
PF13479		213	AAA_24: AAA domain	95.69
cd03115		173	SRP The signal recognition particle (SRP) mediates	95.69
smart00534		185	MUTSac ATPase domain of DNA mismatch repair MUTS f	95.69
PLN02165		334	adenylate isopentenyltransferase	95.68
PRK14529		223	adenylate kinase; Provisional	95.66
cd01121		372	Sms Sms (bacterial radA) DNA repair protein. This	95.66
cd01130		186	VirB11-like_ATPase Type IV secretory pathway compo	95.64
PRK06696		223	uridine kinase; Validated	95.63
PRK12608		380	transcription termination factor Rho; Provisional	95.59
PRK11823		446	DNA repair protein RadA; Provisional	95.58
PLN02459		261	probable adenylate kinase	95.55
cd01129		264	PulE-GspE PulE/GspE The type II secretory pathway	95.54
PRK14021		542	bifunctional shikimate kinase/3-dehydroquinate syn	95.52
PLN03210		1153	Resistant to P. syringae 6; Provisional	95.52
PTZ00301		210	uridine kinase; Provisional	95.52
smart00487		201	DEXDc DEAD-like helicases superfamily.	95.52
PRK00091		307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	95.52
PRK05800		170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.49
PRK08099		399	bifunctional DNA-binding transcriptional repressor	95.47
PRK10416		318	signal recognition particle-docking protein FtsY;	95.46
PRK11889		436	flhF flagellar biosynthesis regulator FlhF; Provis	95.44
TIGR00064		272	ftsY signal recognition particle-docking protein F	95.41
PF01443		234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	95.41
TIGR02782		299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	95.39
cd03281		213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	95.39
COG2805		353	PilT Tfp pilus assembly protein, pilus retraction	95.37
PF10443		431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	95.35
cd03221		144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.3
PRK09361		225	radB DNA repair and recombination protein RadB; Pr	95.29
TIGR00959		428	ffh signal recognition particle protein. This mode	95.28
COG1067		647	LonB Predicted ATP-dependent protease [Posttransla	95.27
PRK00889		175	adenylylsulfate kinase; Provisional	95.27
PRK05541		176	adenylylsulfate kinase; Provisional	95.25
PRK11860		661	bifunctional 3-phosphoshikimate 1-carboxyvinyltran	95.23
PRK13808		333	adenylate kinase; Provisional	95.23
PF00437		270	T2SE: Type II/IV secretion system protein; InterPr	95.21
PRK12339		197	2-phosphoglycerate kinase; Provisional	95.2
PF13086		236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.19
TIGR00455		184	apsK adenylylsulfate kinase (apsK). Important resi	95.15
COG1485		367	Predicted ATPase [General function prediction only	95.15
PRK13900		332	type IV secretion system ATPase VirB11; Provisiona	95.13
TIGR02322		179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.12
PRK06581		263	DNA polymerase III subunit delta'; Validated	95.03
PRK13975		196	thymidylate kinase; Provisional	95.02
PRK09825		176	idnK D-gluconate kinase; Provisional	95.02
cd03287		222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	94.98
cd02022		179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	94.98
PRK08533		230	flagellar accessory protein FlaH; Reviewed	94.98
cd01123		235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	94.96
PRK04841		903	transcriptional regulator MalT; Provisional	94.95
cd03280		200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	94.94
PF13337		457	Lon_2: Putative ATP-dependent Lon protease	94.93
PRK13951		488	bifunctional shikimate kinase/3-dehydroquinate syn	94.93
TIGR00150		133	HI0065_YjeE ATPase, YjeE family. Members of this f	94.92
PRK13764		602	ATPase; Provisional	94.91
cd03222		177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	94.91
TIGR02768		744	TraA_Ti Ti-type conjugative transfer relaxase TraA	94.88
PTZ00202		550	tuzin; Provisional	94.87
PF07931		174	CPT: Chloramphenicol phosphotransferase-like prote	94.86
TIGR00174		287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	94.86
cd02023		198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	94.84
cd03216		163	ABC_Carb_Monos_I This family represents the domain	94.84
PRK05537		568	bifunctional sulfate adenylyltransferase subunit 1	94.84
cd00071		137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.82
cd02024		187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	94.79
PF00488		235	MutS_V: MutS domain V C-terminus.; InterPro: IPR00	94.78
cd03243		202	ABC_MutS_homologs The MutS protein initiates DNA m	94.78
TIGR02788		308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	94.76
PLN02840		421	tRNA dimethylallyltransferase	94.76
PRK12337		475	2-phosphoglycerate kinase; Provisional	94.74
cd00544		169	CobU Adenosylcobinamide kinase / adenosylcobinamid	94.74
cd02028		179	UMPK_like Uridine monophosphate kinase_like (UMPK_	94.71
PRK12727		559	flagellar biosynthesis regulator FlhF; Provisional	94.7
PF06048		286	DUF927: Domain of unknown function (DUF927); Inter	94.69
cd03284		216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	94.69
TIGR02525		372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	94.69
PRK14730		195	coaE dephospho-CoA kinase; Provisional	94.67
TIGR02012		321	tigrfam_recA protein RecA. This model describes or	94.65
cd03283		199	ABC_MutS-like MutS-like homolog in eukaryotes. The	94.64
cd03282		204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	94.63
PRK11545		163	gntK gluconate kinase 1; Provisional	94.62
cd00267		157	ABC_ATPase ABC (ATP-binding cassette) transporter	94.62
TIGR03263		180	guanyl_kin guanylate kinase. Members of this famil	94.6
PRK08356		195	hypothetical protein; Provisional	94.6
KOG0922		674	consensus DEAH-box RNA helicase [RNA processing an	94.58
COG2804		500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	94.57
PRK12338		319	hypothetical protein; Provisional	94.54
PRK00300		205	gmk guanylate kinase; Provisional	94.53
COG4088		261	Predicted nucleotide kinase [Nucleotide transport	94.5
TIGR01613		304	primase_Cterm phage/plasmid primase, P4 family, C-	94.49
PRK14700		300	recombination factor protein RarA; Provisional	94.45
TIGR03878		259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	94.44
PF00485		194	PRK: Phosphoribulokinase / Uridine kinase family;	94.43
PRK14723		767	flhF flagellar biosynthesis regulator FlhF; Provis	94.43
cd00983		325	recA RecA is a bacterial enzyme which has roles in	94.41
COG1125		309	OpuBA ABC-type proline/glycine betaine transport s	94.41
PF01926		116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.4
COG0324		308	MiaA tRNA delta(2)-isopentenylpyrophosphate transf	94.4
TIGR00017		217	cmk cytidylate kinase. This family consists of cyt	94.38
PF02562		205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	94.37
PF01202		158	SKI: Shikimate kinase; InterPro: IPR000623 Shikima	94.37
PRK00023		225	cmk cytidylate kinase; Provisional	94.33
PRK12678		672	transcription termination factor Rho; Provisional	94.3
PRK06761		282	hypothetical protein; Provisional	94.28
cd01394		218	radB RadB. The archaeal protein radB shares simila	94.28
PF06745		226	KaiC: KaiC; InterPro: IPR014774 This entry represe	94.26
KOG2228		408	consensus Origin recognition complex, subunit 4 [R	94.24
TIGR01447		586	recD exodeoxyribonuclease V, alpha subunit. This f	94.23
PRK14737		186	gmk guanylate kinase; Provisional	94.21
PRK06851		367	hypothetical protein; Provisional	94.2
cd01672		200	TMPK Thymidine monophosphate kinase (TMPK), also k	94.19
cd01393		226	recA_like RecA is a bacterial enzyme which has rol	94.18
PRK09270		229	nucleoside triphosphate hydrolase domain-containin	94.17
PF06414		199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	94.14
PRK00081		194	coaE dephospho-CoA kinase; Reviewed	94.12
COG4608		268	AppF ABC-type oligopeptide transport system, ATPas	94.09
PLN02748		468	tRNA dimethylallyltransferase	94.07

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

Probab=100.00  E-value=9.5e-81  Score=660.08  Aligned_cols=390  Identities=68%  Similarity=1.042  Sum_probs=356.5

Q ss_pred             CCCCHHHHHHhhhhcccCHHHHHHHHHHHHHHHHHHHHH--hhccCCCC-CC-------------------hh------h
Q 005762          260 DLPTPKEICKGLDKFVIGQEKAKKVLSVAVYNHYKRIYH--ANLKKGSG-AE-------------------PK------T  311 (678)
Q Consensus       260 ~~~~p~el~~~Ld~~VvGQe~ak~~L~~av~~~~~rl~~--~~~~~~~g-~s-------------------~~------~  311 (678)
                      ..++|++|+++||++||||+.||+.|+++|||||+||++  ..+++.+. .+                   .|      .
T Consensus       132 ~~P~PkeI~~~Ldk~VVGQe~AKKvLsVAVYnHYkRI~hn~~s~~~~~a~~s~~~~~~~~P~~~~~~~~~a~~~~~~r~~  211 (564)
T KOG0745|consen  132 PPPTPKEICEYLDKFVVGQEKAKKVLSVAVYNHYKRIYHNEPSRQKELAEASKSAKDRDNPIELEISESNAQWPNNQRQI  211 (564)
T ss_pred             CCCChHHHHHHhhhheechhhhhheeeehhhHHHHHHhcchHHHHHHHhhhhhcccCCCCcccccccccccccccccchh
Confidence            478999999999999999999999999999999999998  33222210 00                   01      2


Q ss_pred             hhhcccc-ccccccCCcEEEEcCCCcHHHHHHHHHHHHhCCCEEEEeccccccccccccchHHHHHHHHHhhchhHhhhc
Q 005762          312 AAAVDND-DNVELEKSNVLLMGPTGSGKTLLAKTLARHVNVPFVIADATTLTQAGYVGEDVESILYKLLAQAEFNVEAAQ  390 (678)
Q Consensus       312 ~~~~~~~-~~v~~~~~~iLL~GPpGtGKT~LAralA~~l~~~fv~id~s~l~~sgyvG~~~~~~l~~l~~~a~~~v~~a~  390 (678)
                      ....+.. .++.+.++||||.||+|+|||+||+.||+.+++||+..||+.|+++||+|++++..+.+++..+.++|+.++
T Consensus       212 ~~~ld~~~~dv~LeKSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQ  291 (564)
T KOG0745|consen  212 AKALDEDDEDVELEKSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQ  291 (564)
T ss_pred             cccccccccceeeecccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHh
Confidence            2233333 489999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcEEEEcCccchhhhhccccccCCCchhHHHHHHHHHHhcceeecCCCCcccCCCCCeEEEecCcceEEecCCCcCHHHH
Q 005762          391 QGMVYIDEVDKITKKAESLNISRDVSGEGVQQALLKMLEGTIVNVPEKGARKHPRGDSIQMDTKDILFICGGAFVDLEKT  470 (678)
Q Consensus       391 ~gILfIDEIDkl~~~~~~~~~~~d~s~~~vq~~LL~~LEg~~v~v~~~g~~~~~~~~~i~idtsNilfI~tGaf~~Le~~  470 (678)
                      .|||||||+||+.....+.+..+|+|||++|++||++|||++|+||+++.++..+++.|+|||+||+|||+|+|.+|+++
T Consensus       292 qGIVflDEvDKi~~~~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGAF~~Ldk~  371 (564)
T KOG0745|consen  292 QGIVFLDEVDKITKKAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGAFVGLDKI  371 (564)
T ss_pred             cCeEEEehhhhhcccCccccccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEEEecccccchHHH
Confidence            99999999999998888888899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcccCCCCcCcc----ccccccc--CCCchHhH-HHHHhhcchhhhhhhcCCcccccccceEEecCCcCHHHHHHHH
Q 005762          471 ISERRQDSSIGFGAP----VRANMRA--GVTDAAVT-SSLLESVESSDLIAYGLIPEFVGRFPILVSLTALTEDQLVKVL  543 (678)
Q Consensus       471 i~~r~~~~~igF~~~----~~~~~~~--~~~~~~~~-~~ll~~v~~edLi~~g~~Pefl~R~~~iv~f~~LseeeL~~Il  543 (678)
                      |.+|..++++||+++    .+.++.+  ..+..... ..+|+.+++.||+++|++|||++|||+++.|++|++++|++||
T Consensus       372 I~rR~~d~slGFg~~s~~~vr~~~~~~s~~~~~~~~~~~lL~~~~~~DLisfGmIPEfVGRfPVlVplh~L~~~~Lv~VL  451 (564)
T KOG0745|consen  372 ISRRLDDKSLGFGAPSSKGVRANMATKSGVENDAEKRDELLEKVESGDLISFGMIPEFVGRFPVLVPLHSLDEDQLVRVL  451 (564)
T ss_pred             HHHhhcchhcccCCCCCccchhhcccccCcchhHHHHHHHHhhccccchhhhcCcHHHhcccceEeeccccCHHHHHHHH
Confidence            999999999999999    5556555  33444444 4499999999999999999999999999999999999999999


Q ss_pred             hchHHHHHHHHHHHHhcCCceeeeCHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCcceEEEcccc
Q 005762          544 TEPKNALGKQYKRLFSMNNVKLHFTEKALRVIAKKATAKNTGARGLRAILESILTEAMYEIPDVKTGSDGVDAVVVDEES  623 (678)
Q Consensus       544 ~~~ln~L~~q~~~~~~~~gv~l~~t~eal~~La~~a~~~~~GAR~Lr~iIE~il~~a~~~~p~~~~~~~~i~~v~v~~e~  623 (678)
                      ++|.|+|++||+++|.+++++|+||++|++.||+.++.+++|||+||+|+|.+|+++||++|..     .|+.|+||+|.
T Consensus       452 tEPknaL~~Qyk~lf~~~nV~L~fTe~Al~~IAq~Al~r~TGARgLRsIlE~~LleamfevPGS-----dI~~V~Vdee~  526 (564)
T KOG0745|consen  452 TEPKNALGKQYKKLFGMDNVELHFTEKALEAIAQLALKRKTGARGLRSILESLLLEAMFEVPGS-----DIKAVLVDEEA  526 (564)
T ss_pred             hcchhhHHHHHHHHhccCCeeEEecHHHHHHHHHHHHhhccchHHHHHHHHHHHhhhcccCCCC-----ceEEEEecHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999944     49999999999


Q ss_pred             cCCCCCCCCcceeecCCchHHHHHHHHhhhh
Q 005762          624 VGSVDAPGCGGKILRGEGALERYLVEAERRE  654 (678)
Q Consensus       624 v~~~~~~~~~~k~l~~~~~~~~~~~~~~~~~  654 (678)
                      |.+...++|+.+++.+++.+++|+...+.++
T Consensus       527 v~g~~~~~~s~~~~~~~~~~~~~~se~~~~~  557 (564)
T KOG0745|consen  527 VKGEKEPGYSRKILKGDEVLERYVSETESKD  557 (564)
T ss_pred             hcccCCCccchhhhcccchhhhhcccccccc
Confidence            9999999999999999999999988766554

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional	Back alignment and domain information

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)	Back alignment and domain information

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit	Back alignment and domain information

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional	Back alignment and domain information

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

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

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional	Back alignment and domain information

>CHL00095 clpC Clp protease ATP binding subunit	Back alignment and domain information

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA	Back alignment and domain information

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family	Back alignment and domain information

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB	Back alignment and domain information

>PRK10865 protein disaggregation chaperone; Provisional	Back alignment and domain information

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR00763 lon ATP-dependent protease La	Back alignment and domain information

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK10787 DNA-binding ATP-dependent protease La; Provisional	Back alignment and domain information

>TIGR02881 spore_V_K stage V sporulation protein K	Back alignment and domain information

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX	Back alignment and domain information

>CHL00181 cbbX CbbX; Provisional	Back alignment and domain information

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []	Back alignment and domain information

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]	Back alignment and domain information

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>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	Back alignment and domain information

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

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

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

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

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

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]	Back alignment and domain information

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]	Back alignment and domain information

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	Back alignment and domain information

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>CHL00195 ycf46 Ycf46; Provisional	Back alignment and domain information

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

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH	Back alignment and domain information

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

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily	Back alignment and domain information

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional	Back alignment and domain information

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF	Back alignment and domain information

>PRK03992 proteasome-activating nucleotidase; Provisional	Back alignment and domain information

>CHL00176 ftsH cell division protein; Validated	Back alignment and domain information

>TIGR03689 pup_AAA proteasome ATPase	Back alignment and domain information

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR01817 nifA Nif-specific regulatory protein	Back alignment and domain information

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional	Back alignment and domain information

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]	Back alignment and domain information

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional	Back alignment and domain information

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional	Back alignment and domain information

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional	Back alignment and domain information

>TIGR01242 26Sp45 26S proteasome subunit P45 family	Back alignment and domain information

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional	Back alignment and domain information

>PRK13342 recombination factor protein RarA; Reviewed	Back alignment and domain information

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed	Back alignment and domain information

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit	Back alignment and domain information

>PRK07003 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional	Back alignment and domain information

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR	Back alignment and domain information

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional	Back alignment and domain information

>TIGR02902 spore_lonB ATP-dependent protease LonB	Back alignment and domain information

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA	Back alignment and domain information

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed	Back alignment and domain information

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional	Back alignment and domain information

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>CHL00206 ycf2 Ycf2; Provisional	Back alignment and domain information

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed	Back alignment and domain information

>PLN03025 replication factor C subunit; Provisional	Back alignment and domain information

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK07764 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK07994 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional	Back alignment and domain information

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]	Back alignment and domain information

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family	Back alignment and domain information

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor	Back alignment and domain information

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK15115 response regulator GlrR; Provisional	Back alignment and domain information

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport	Back alignment and domain information

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX	Back alignment and domain information

>PRK06645 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator	Back alignment and domain information

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK08691 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily	Back alignment and domain information

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR01818 ntrC nitrogen regulation protein NR(I)	Back alignment and domain information

>COG0714 MoxR-like ATPases [General function prediction only]	Back alignment and domain information

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]	Back alignment and domain information

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN	Back alignment and domain information

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>CHL00095 clpC Clp protease ATP binding subunit	Back alignment and domain information

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional	Back alignment and domain information

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>TIGR00368 Mg chelatase-related protein	Back alignment and domain information

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK10865 protein disaggregation chaperone; Provisional	Back alignment and domain information

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional	Back alignment and domain information

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I	Back alignment and domain information

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>CHL00081 chlI Mg-protoporyphyrin IX chelatase	Back alignment and domain information

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit	Back alignment and domain information

>PRK13407 bchI magnesium chelatase subunit I; Provisional	Back alignment and domain information

>PRK05563 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit	Back alignment and domain information

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family	Back alignment and domain information

>PRK09111 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>smart00350 MCM minichromosome maintenance proteins	Back alignment and domain information

>PHA02544 44 clamp loader, small subunit; Provisional	Back alignment and domain information

>PRK13531 regulatory ATPase RavA; Provisional	Back alignment and domain information

>PRK08451 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK05896 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK10365 transcriptional regulatory protein ZraR; Provisional	Back alignment and domain information

>PRK12402 replication factor C small subunit 2; Reviewed	Back alignment and domain information

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]	Back alignment and domain information

>PRK06647 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK04195 replication factor C large subunit; Provisional	Back alignment and domain information

>PRK07133 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK06305 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB	Back alignment and domain information

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau	Back alignment and domain information

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]	Back alignment and domain information

>PRK07940 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda	Back alignment and domain information

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

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

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK00440 rfc replication factor C small subunit; Reviewed	Back alignment and domain information

>PTZ00111 DNA replication licensing factor MCM4; Provisional	Back alignment and domain information

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model	Back alignment and domain information

>PRK00411 cdc6 cell division control protein 6; Reviewed	Back alignment and domain information

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR02928 orc1/cdc6 family replication initiation protein	Back alignment and domain information

>PRK08084 DNA replication initiation factor; Provisional	Back alignment and domain information

>PHA02244 ATPase-like protein	Back alignment and domain information

>PTZ00112 origin recognition complex 1 protein; Provisional	Back alignment and domain information

>TIGR00764 lon_rel lon-related putative ATP-dependent protease	Back alignment and domain information

>PRK08903 DnaA regulatory inactivator Hda; Validated	Back alignment and domain information

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D	Back alignment and domain information

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]	Back alignment and domain information

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []	Back alignment and domain information

>PRK09112 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK09862 putative ATP-dependent protease; Provisional	Back alignment and domain information

>PRK14086 dnaA chromosomal replication initiation protein; Provisional	Back alignment and domain information

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]	Back alignment and domain information

>PRK08727 hypothetical protein; Validated	Back alignment and domain information

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed	Back alignment and domain information

>PRK06893 DNA replication initiation factor; Validated	Back alignment and domain information

>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	Back alignment and domain information

>TIGR00362 DnaA chromosomal replication initiator protein DnaA	Back alignment and domain information

>PRK13765 ATP-dependent protease Lon; Provisional	Back alignment and domain information

>PRK05642 DNA replication initiation factor; Validated	Back alignment and domain information

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

>PRK07471 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>TIGR00678 holB DNA polymerase III, delta' subunit	Back alignment and domain information

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold	Back alignment and domain information

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H	Back alignment and domain information

>smart00763 AAA_PrkA PrkA AAA domain	Back alignment and domain information

>PRK12422 chromosomal replication initiation protein; Provisional	Back alignment and domain information

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

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]	Back alignment and domain information

>PRK04132 replication factor C small subunit; Provisional	Back alignment and domain information

>PRK14088 dnaA chromosomal replication initiation protein; Provisional	Back alignment and domain information

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

>PRK14087 dnaA chromosomal replication initiation protein; Provisional	Back alignment and domain information

>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	Back alignment and domain information

>PRK13406 bchD magnesium chelatase subunit D; Provisional	Back alignment and domain information

>PRK07399 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily	Back alignment and domain information

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]	Back alignment and domain information

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK05564 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PRK08058 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PRK06620 hypothetical protein; Validated	Back alignment and domain information

>PRK09087 hypothetical protein; Validated	Back alignment and domain information

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite	Back alignment and domain information

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A	Back alignment and domain information

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]	Back alignment and domain information

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]	Back alignment and domain information

>PRK05707 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional	Back alignment and domain information

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]	Back alignment and domain information

>TIGR00602 rad24 checkpoint protein rad24	Back alignment and domain information

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]	Back alignment and domain information

>smart00382 AAA ATPases associated with a variety of cellular activities	Back alignment and domain information

>PRK06964 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]	Back alignment and domain information

>PRK06871 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PRK08769 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]	Back alignment and domain information

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]	Back alignment and domain information

>PF13173 AAA_14: AAA domain	Back alignment and domain information

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

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins	Back alignment and domain information

>PRK07993 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PRK08699 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]	Back alignment and domain information

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]	Back alignment and domain information

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]	Back alignment and domain information

>PRK06090 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP	Back alignment and domain information

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A	Back alignment and domain information

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]	Back alignment and domain information

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]	Back alignment and domain information

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]	Back alignment and domain information

>PRK12377 putative replication protein; Provisional	Back alignment and domain information

>PRK08116 hypothetical protein; Validated	Back alignment and domain information

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins	Back alignment and domain information

>PRK15455 PrkA family serine protein kinase; Provisional	Back alignment and domain information

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]	Back alignment and domain information

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B	Back alignment and domain information

>PF10431 ClpB_D2-small: C-terminal, D2-small domain, of ClpB protein ; InterPro: IPR019489 Most Clp ATPases form complexes with peptidase subunits and are involved in protein degradation, though some, such as ClpB, do not associate with peptidases and are involved in protein disaggregation []	Back alignment and domain information

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A	Back alignment and domain information

>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]	Back alignment and domain information

>PF03215 Rad17: Rad17 cell cycle checkpoint protein	Back alignment and domain information

>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]	Back alignment and domain information

>PRK08181 transposase; Validated	Back alignment and domain information

>PRK07276 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PRK06526 transposase; Provisional	Back alignment and domain information

>PRK05917 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>KOG0482 consensus DNA replication licensing factor, MCM7 component [Replication, recombination and repair]	Back alignment and domain information

>PRK07132 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)	Back alignment and domain information

>PRK07952 DNA replication protein DnaC; Validated	Back alignment and domain information

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]	Back alignment and domain information

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif	Back alignment and domain information

>PRK09183 transposase/IS protein; Provisional	Back alignment and domain information

>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	Back alignment and domain information

>PF05729 NACHT: NACHT domain	Back alignment and domain information

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK06921 hypothetical protein; Provisional	Back alignment and domain information

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals	Back alignment and domain information

>PRK06835 DNA replication protein DnaC; Validated	Back alignment and domain information

>KOG1808 consensus AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]	Back alignment and domain information

>PRK05818 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A	Back alignment and domain information

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

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	Back alignment and domain information

>cd01120 RecA-like_NTPases RecA-like NTPases	Back alignment and domain information

>PRK08939 primosomal protein DnaI; Reviewed	Back alignment and domain information

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP	Back alignment and domain information

>PRK00131 aroK shikimate kinase; Reviewed	Back alignment and domain information

>PHA00729 NTP-binding motif containing protein	Back alignment and domain information

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK13947 shikimate kinase; Provisional	Back alignment and domain information

>PHA02774 E1; Provisional	Back alignment and domain information

>PRK07261 topology modulation protein; Provisional	Back alignment and domain information

>PRK08118 topology modulation protein; Reviewed	Back alignment and domain information

>TIGR02688 conserved hypothetical protein TIGR02688	Back alignment and domain information

>PRK10536 hypothetical protein; Provisional	Back alignment and domain information

>PRK00625 shikimate kinase; Provisional	Back alignment and domain information

>PRK03839 putative kinase; Provisional	Back alignment and domain information

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants	Back alignment and domain information

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]	Back alignment and domain information

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A	Back alignment and domain information

>PRK00771 signal recognition particle protein Srp54; Provisional	Back alignment and domain information

>PRK09376 rho transcription termination factor Rho; Provisional	Back alignment and domain information

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]	Back alignment and domain information

>TIGR01618 phage_P_loop phage nucleotide-binding protein	Back alignment and domain information

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase	Back alignment and domain information

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []	Back alignment and domain information

>PRK06217 hypothetical protein; Validated	Back alignment and domain information

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]	Back alignment and domain information

>PRK13948 shikimate kinase; Provisional	Back alignment and domain information

>PRK13949 shikimate kinase; Provisional	Back alignment and domain information

>PRK14532 adenylate kinase; Provisional	Back alignment and domain information

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]	Back alignment and domain information

>PRK14530 adenylate kinase; Provisional	Back alignment and domain information

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]	Back alignment and domain information

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

>PRK13946 shikimate kinase; Provisional	Back alignment and domain information

>PRK05057 aroK shikimate kinase I; Reviewed	Back alignment and domain information

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor	Back alignment and domain information

>PRK14531 adenylate kinase; Provisional	Back alignment and domain information

>TIGR01425 SRP54_euk signal recognition particle protein SRP54	Back alignment and domain information

>PRK14974 cell division protein FtsY; Provisional	Back alignment and domain information

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family	Back alignment and domain information

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)	Back alignment and domain information

>PRK03731 aroL shikimate kinase II; Reviewed	Back alignment and domain information

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate	Back alignment and domain information

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

>TIGR00767 rho transcription termination factor Rho	Back alignment and domain information

>PRK06762 hypothetical protein; Provisional	Back alignment and domain information

>PF14516 AAA_35: AAA-like domain	Back alignment and domain information

>PRK04296 thymidine kinase; Provisional	Back alignment and domain information

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family	Back alignment and domain information

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed	Back alignment and domain information

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases	Back alignment and domain information

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A	Back alignment and domain information

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)	Back alignment and domain information

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]	Back alignment and domain information

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)	Back alignment and domain information

>PTZ00088 adenylate kinase 1; Provisional	Back alignment and domain information

>PRK05480 uridine/cytidine kinase; Provisional	Back alignment and domain information

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>PRK14528 adenylate kinase; Provisional	Back alignment and domain information

>cd01131 PilT Pilus retraction ATPase PilT	Back alignment and domain information

>PRK02496 adk adenylate kinase; Provisional	Back alignment and domain information

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]	Back alignment and domain information

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily	Back alignment and domain information

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins	Back alignment and domain information

>PRK06547 hypothetical protein; Provisional	Back alignment and domain information

>TIGR02237 recomb_radB DNA repair and recombination protein RadB	Back alignment and domain information

>TIGR01351 adk adenylate kinases	Back alignment and domain information

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]	Back alignment and domain information

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C	Back alignment and domain information

>PHA02624 large T antigen; Provisional	Back alignment and domain information

>PRK00279 adk adenylate kinase; Reviewed	Back alignment and domain information

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]	Back alignment and domain information

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]	Back alignment and domain information

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal	Back alignment and domain information

>TIGR03499 FlhF flagellar biosynthetic protein FlhF	Back alignment and domain information

>PLN02200 adenylate kinase family protein	Back alignment and domain information

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria	Back alignment and domain information

>TIGR00235 udk uridine kinase	Back alignment and domain information

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]	Back alignment and domain information

>PF13245 AAA_19: Part of AAA domain	Back alignment and domain information

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []	Back alignment and domain information

>PLN02199 shikimate kinase	Back alignment and domain information

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type	Back alignment and domain information

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]	Back alignment and domain information

>PHA01747 putative ATP-dependent protease	Back alignment and domain information

>PRK06067 flagellar accessory protein FlaH; Validated	Back alignment and domain information

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]	Back alignment and domain information

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []	Back alignment and domain information

>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	Back alignment and domain information

>PRK04182 cytidylate kinase; Provisional	Back alignment and domain information

>PRK14527 adenylate kinase; Provisional	Back alignment and domain information

>PLN02674 adenylate kinase	Back alignment and domain information

>PHA02530 pseT polynucleotide kinase; Provisional	Back alignment and domain information

>PRK04220 2-phosphoglycerate kinase; Provisional	Back alignment and domain information

>PRK14526 adenylate kinase; Provisional	Back alignment and domain information

>PRK04040 adenylate kinase; Provisional	Back alignment and domain information

>TIGR02173 cyt_kin_arch cytidylate kinase, putative	Back alignment and domain information

>PRK10867 signal recognition particle protein; Provisional	Back alignment and domain information

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function	Back alignment and domain information

>TIGR01448 recD_rel helicase, putative, RecD/TraA family	Back alignment and domain information

>PRK01184 hypothetical protein; Provisional	Back alignment and domain information

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases	Back alignment and domain information

>PRK08233 hypothetical protein; Provisional	Back alignment and domain information

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]	Back alignment and domain information

>PRK10078 ribose 1,5-bisphosphokinase; Provisional	Back alignment and domain information

>PRK03846 adenylylsulfate kinase; Provisional	Back alignment and domain information

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

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins	Back alignment and domain information

>TIGR01420 pilT_fam pilus retraction protein PilT	Back alignment and domain information

>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid []	Back alignment and domain information

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells	Back alignment and domain information

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]	Back alignment and domain information

>PF13479 AAA_24: AAA domain	Back alignment and domain information

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes	Back alignment and domain information

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family	Back alignment and domain information

>PLN02165 adenylate isopentenyltransferase	Back alignment and domain information

>PRK14529 adenylate kinase; Provisional	Back alignment and domain information

>cd01121 Sms Sms (bacterial radA) DNA repair protein	Back alignment and domain information

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases	Back alignment and domain information

>PRK06696 uridine kinase; Validated	Back alignment and domain information

>PRK12608 transcription termination factor Rho; Provisional	Back alignment and domain information

>PRK11823 DNA repair protein RadA; Provisional	Back alignment and domain information

>PLN02459 probable adenylate kinase	Back alignment and domain information

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)	Back alignment and domain information

>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional	Back alignment and domain information

>PLN03210 Resistant to P	Back alignment and domain information

>PTZ00301 uridine kinase; Provisional	Back alignment and domain information

>smart00487 DEXDc DEAD-like helicases superfamily	Back alignment and domain information

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	Back alignment and domain information

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated	Back alignment and domain information

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional	Back alignment and domain information

>PRK10416 signal recognition particle-docking protein FtsY; Provisional	Back alignment and domain information

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>TIGR00064 ftsY signal recognition particle-docking protein FtsY	Back alignment and domain information

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases	Back alignment and domain information

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB	Back alignment and domain information

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes	Back alignment and domain information

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]	Back alignment and domain information

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]	Back alignment and domain information

>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	Back alignment and domain information

>PRK09361 radB DNA repair and recombination protein RadB; Provisional	Back alignment and domain information

>TIGR00959 ffh signal recognition particle protein	Back alignment and domain information

>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK00889 adenylylsulfate kinase; Provisional	Back alignment and domain information

>PRK05541 adenylylsulfate kinase; Provisional	Back alignment and domain information

>PRK11860 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional	Back alignment and domain information

>PRK13808 adenylate kinase; Provisional	Back alignment and domain information

>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 [, ]	Back alignment and domain information

>PRK12339 2-phosphoglycerate kinase; Provisional	Back alignment and domain information

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A	Back alignment and domain information

>TIGR00455 apsK adenylylsulfate kinase (apsK)	Back alignment and domain information

>COG1485 Predicted ATPase [General function prediction only]	Back alignment and domain information

>PRK13900 type IV secretion system ATPase VirB11; Provisional	Back alignment and domain information

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN	Back alignment and domain information

>PRK06581 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PRK13975 thymidylate kinase; Provisional	Back alignment and domain information

>PRK09825 idnK D-gluconate kinase; Provisional	Back alignment and domain information

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes	Back alignment and domain information

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2	Back alignment and domain information

>PRK08533 flagellar accessory protein FlaH; Reviewed	Back alignment and domain information

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B	Back alignment and domain information

>PRK04841 transcriptional regulator MalT; Provisional	Back alignment and domain information

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes	Back alignment and domain information

>PF13337 Lon_2: Putative ATP-dependent Lon protease	Back alignment and domain information

>PRK13951 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional	Back alignment and domain information

>TIGR00150 HI0065_YjeE ATPase, YjeE family	Back alignment and domain information

>PRK13764 ATPase; Provisional	Back alignment and domain information

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

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA	Back alignment and domain information

>PTZ00202 tuzin; Provisional	Back alignment and domain information

>PF07931 CPT: Chloramphenicol phosphotransferase-like protein; InterPro: IPR012853 The members of this family are all similar to chloramphenicol 3-O phosphotransferase (CPT, Q56148 from SWISSPROT) expressed by Streptomyces venezuelae	Back alignment and domain information

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)	Back alignment and domain information

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2	Back alignment and domain information

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

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated	Back alignment and domain information

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2	Back alignment and domain information

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)	Back alignment and domain information

>PF00488 MutS_V: MutS domain V C-terminus	Back alignment and domain information

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch	Back alignment and domain information

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11	Back alignment and domain information

>PLN02840 tRNA dimethylallyltransferase	Back alignment and domain information

>PRK12337 2-phosphoglycerate kinase; Provisional	Back alignment and domain information

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)	Back alignment and domain information

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2	Back alignment and domain information

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>PF06048 DUF927: Domain of unknown function (DUF927); InterPro: IPR009270 This entry is represented by Bacteriophage PT1028, Orf1	Back alignment and domain information

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes	Back alignment and domain information

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ	Back alignment and domain information

>PRK14730 coaE dephospho-CoA kinase; Provisional	Back alignment and domain information

>TIGR02012 tigrfam_recA protein RecA	Back alignment and domain information

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes	Back alignment and domain information

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes	Back alignment and domain information

>PRK11545 gntK gluconate kinase 1; Provisional	Back alignment and domain information

>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	Back alignment and domain information

>TIGR03263 guanyl_kin guanylate kinase	Back alignment and domain information

>PRK08356 hypothetical protein; Provisional	Back alignment and domain information

>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]	Back alignment and domain information

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]	Back alignment and domain information

>PRK12338 hypothetical protein; Provisional	Back alignment and domain information

>PRK00300 gmk guanylate kinase; Provisional	Back alignment and domain information

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]	Back alignment and domain information

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain	Back alignment and domain information

>PRK14700 recombination factor protein RarA; Provisional	Back alignment and domain information

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family	Back alignment and domain information

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2	Back alignment and domain information

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

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

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	Back alignment and domain information

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse	Back alignment and domain information

>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR00017 cmk cytidylate kinase	Back alignment and domain information

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []	Back alignment and domain information

>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2	Back alignment and domain information

>PRK00023 cmk cytidylate kinase; Provisional	Back alignment and domain information

>PRK12678 transcription termination factor Rho; Provisional	Back alignment and domain information

>PRK06761 hypothetical protein; Provisional	Back alignment and domain information

>cd01394 radB RadB	Back alignment and domain information

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

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]	Back alignment and domain information

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit	Back alignment and domain information

>PRK14737 gmk guanylate kinase; Provisional	Back alignment and domain information

>PRK06851 hypothetical protein; Provisional	Back alignment and domain information

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor	Back alignment and domain information

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

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed	Back alignment and domain information

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []	Back alignment and domain information

>PRK00081 coaE dephospho-CoA kinase; Reviewed	Back alignment and domain information

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

>PLN02748 tRNA dimethylallyltransferase	Back alignment and domain information

Homologous Structure Templates