Citrus Sinensis ID: 041795

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-
Protein Sequence
MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEKGVLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKNK
Secondary Structure (PSIPRED)
cccccccccccEEEEEcccccccccccHHHHHHHHHccccEEEEccccccccccccHHHHHHHHHccEEEEEEccccccHHHHHHHHHHHHHcccccccEEEEEEccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHccccccEEEEEEEcccccHHHHHHHHHHHHHHccccccEEcHHHHHHHcccccccccHHHHHHHHHccccccccccEEEEEcccHHHHHHHccccccEEEEccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccccHHHHHHHHccccccHHHHHHHHEEEEccccccHHHHHHHHccccccccHHHccccccEEEccccEEEccHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccccEEEEcccccHHHHHHHHHHHHHHHHHccccEEEccccccccccccHHHHHHHHHccEEEEEEEccccccHHHHHHHHHHHHHHHHcccEEEEEEEEccHHHHHHccccHHHHHHHHHHccHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHHHHccHHHHHHHHHHccccEccccccHHHHHHHHHccccccccccEEEEEEccHHHHHHccccccEEEEEccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHcccHHHHHHHHHccEEEEEccccEEEHHHHHHHHHHHHHHHcccccccccEEEccHHHHHHHHHccc
Coil and Loop (DISEMBL)
mastsfsssskydvslsfrggdtrdnFTSHLYAALCRKKIKtfingdeirrgddispaLFTAIQGSKISVIVLSKHYASSKWCLHELVKILeckstngqivvpvfyhvdpsdvrkqtgsFRDAFVKHKKQMAEKVQKWRDALTEasnlsgwnsmtirSEAELVDVIVKDILKKLENItvstnfdglvglNSRIEKIKSLLcigrpdfrivgiwgmggtgkttLAGAIFNLIYKEfegncflgnvreesekgvlddvnkiGQLQYLtcgldrfgpgsriiitTRDKWIldkfgvhdtnvyevnglRYHEALELFCncafkenhcpsgflasSKRVLKVLGSFFHRKSKLDWEKALENisrisdpdiyDVLKISYndlsleeksIFLDIACFFAGEEKDYVtrmldpnfphnglnILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECikepgkrsrlwyHEDVYHVLKKNK
Flexible Loop (DISEMBL)
mastsfsssskydvslsfrggdtrdNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQMAEKVQKWRDALTEasnlsgwnsmtirSEAELVDVIVKDILKKlenitvstnfdglvglnSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEKGVLDDVNKIGQLQYLtcgldrfgpgsrIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKVLGSFfhrkskldwekalenisrisdpdiydVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECikepgkrsrlwyhedvyhvlkknk
Low Complexity Region (SEG)
MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEKGVLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKNK
Disordered region (IsUnstruct)
**********************TRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKH******KVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEKGVLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVL****
Disordered Region (DISOPRED)
********SSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEKGVLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKN*
Disordered Region (DISEMBL)
*************VSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVK**********KWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEKGVLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKNK
Disordered Region (DISPRO)
********SSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEKGVLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKN*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHxxxxxxxxxxxxxxxxxxxxxSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEKGVLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKNK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	471	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.983	0.404	0.421	2e-95
O82500	1095	Putative disease resistan	no	no	0.985	0.423	0.391	1e-86
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.974	0.352	0.346	9e-76
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.904	0.224	0.317	1e-52
Q9FL92	1372	Probable WRKY transcripti	no	no	0.859	0.295	0.308	1e-51
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.864	0.252	0.284	6e-39
Q9FH83	1288	Probable WRKY transcripti	no	no	0.868	0.317	0.299	8e-39
Q9FHE9	354	Protein PHLOEM PROTEIN 2-	no	no	0.380	0.505	0.349	2e-22
Q9C5Q9	411	Protein PHLOEM PROTEIN 2-	no	no	0.337	0.386	0.363	1e-17
Q9FHE8	392	Protein PHLOEM PROTEIN 2-	no	no	0.414	0.497	0.314	5e-17

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

 Score =  349 bits (896), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 224/531 (42%), Positives = 306/531 (57%), Gaps = 68/531 (12%)

Query: 1   MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF 60
           MAS+S SS   YDV LSFRG DTR  FTSHLY  L  K IKTF +   +  G  I   L 
Sbjct: 1   MASSSSSSRWSYDVFLSFRGEDTRKTFTSHLYEVLNDKGIKTFQDDKRLEYGATIPGELC 60

Query: 61  TAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSF 120
            AI+ S+ +++V S++YA+S+WCL+ELVKI+ECK+   Q V+P+FY VDPS VR Q  SF
Sbjct: 61  KAIEESQFAIVVFSENYATSRWCLNELVKIMECKTRFKQTVIPIFYDVDPSHVRNQKESF 120

Query: 121 RDAFVKHK---KQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENI 177
             AF +H+   K   E +Q+WR AL EA+NL G      +++A+ +  IV  I  KL  I
Sbjct: 121 AKAFEEHETKYKDDVEGIQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKLCKI 180

Query: 178 TVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK---- 233
           ++S     +VG+++ +EKI+SLL IG    RI+GIWGMGG GKTT+A AIF+ +      
Sbjct: 181 SLSY-LQNIVGIDTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTLLGRMDS 239

Query: 234 --EFEGNCFLGNVRE------------------------ESEKG---------------V 252
             +F+G CFL +++E                          E G               V
Sbjct: 240 SYQFDGACFLKDIKENKRGMHSLQNALLSELLREKANYNNEEDGKHQMASRLRSKKVLIV 299

Query: 253 LDDV-NKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALE 311
           LDD+ NK   L+YL   LD FG GSRIIITTRDK +++K  +    +YEV  L  HE+++
Sbjct: 300 LDDIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI----IYEVTALPDHESIQ 355

Query: 312 LFCNCAFKENHCPSGFLASSKRV----------LKVLGSFFHRKSKLDWEKALENISRIS 361
           LF   AF +      F   S  V          LKV GS  H     +W+ A+E++   S
Sbjct: 356 LFKQHAFGKEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNS 415

Query: 362 DPDIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNF--PHNGLNILIAKS 419
              I D LKISY+ L  +++ +FLDIACF  GEEKDY+ ++L+        GL ILI KS
Sbjct: 416 YSGIIDKLKISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKS 475

Query: 420 LVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKN 470
           LV +S  N++QMHDL+Q+MG+ +V  +  K+PG+RSRLW  ++V  V+  N
Sbjct: 476 LVFISEYNQVQMHDLIQDMGKYIVNFQ--KDPGERSRLWLAKEVEEVMSNN 524

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

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

 Score =  320 bits (820), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 207/529 (39%), Positives = 295/529 (55%), Gaps = 65/529 (12%)

Query: 1   MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF 60
           MAS+S S+S +YDV  SFRG D R+NF SHL      K I TF   D I+R   I   L 
Sbjct: 1   MASSS-SNSWRYDVFPSFRGEDVRNNFLSHLLKEFESKGIVTF-RDDHIKRSHTIGHELR 58

Query: 61  TAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSF 120
            AI+ SKISV++ S++YASS WCL EL++I++CK   G  V+PVFY VDPSD+RKQTG F
Sbjct: 59  AAIRESKISVVLFSENYASSSWCLDELIEIMKCKEEQGLKVMPVFYKVDPSDIRKQTGKF 118

Query: 121 RDAFVKH-KKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITV 179
             +F++    +  E+   WR ALT+A+N+ G +     +EA  +  I KD+L+KL N T 
Sbjct: 119 GMSFLETCCGKTEERQHNWRRALTDAANILGDHPQNWDNEAYKITTISKDVLEKL-NATP 177

Query: 180 STNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC 239
           S +F+ LVG+ + I K++SLLC+     RIVGIWG  G GKTT+A A++N  ++ F  + 
Sbjct: 178 SRDFNDLVGMEAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTIARALYNQYHENFNLSI 237

Query: 240 FLGNVREE-SEKG-------------------------------------------VLDD 255
           F+ NVRE   E G                                           +LDD
Sbjct: 238 FMENVRESYGEAGLDDYGLKLHLQQRFLSKLLDQKDLRVRHLGAIEERLKSQKVLIILDD 297

Query: 256 VNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTN-VYEVNGLRYHEALELFC 314
           V+ I QL+ L      FG  SRI++TT++K +L     HD N +Y+V      EAL +FC
Sbjct: 298 VDNIEQLKALAKENQWFGNKSRIVVTTQNKQLLVS---HDINHMYQVAYPSKQEALTIFC 354

Query: 315 NCAFKEN-------HCPSGFLASSKRV---LKVLGSFFHRKSKLDWEKALENISRISDPD 364
             AFK++       H    F   +  +   L+VLGSF   K K +WE +L  +    D +
Sbjct: 355 QHAFKQSSPSDDLKHLAIEFTTLAGHLPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGE 414

Query: 365 IYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPN---FPHNGLNILIAKSLV 421
           +  VLK+ Y+ L   EK +FL IAC F+G+ ++Y+ +M+  N   +   GL +L  KSL+
Sbjct: 415 VEKVLKVGYDGLHDHEKDLFLHIACIFSGQHENYLKQMIIANNDTYVSFGLQVLADKSLI 474

Query: 422 TVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKN 470
               + +I+MH LL+++G+EVVR++ I EPGKR  L   ++   VL  N
Sbjct: 475 QKFENGRIEMHSLLRQLGKEVVRKQSIYEPGKRQFLMNAKETCGVLSNN 523

Arabidopsis thaliana (taxid: 3702)

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

 Score =  284 bits (727), Expect = 9e-76,   Method: Compositional matrix adjust.
 Identities = 181/522 (34%), Positives = 282/522 (54%), Gaps = 63/522 (12%)

Query: 1   MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF 60
           M   S S S +YDV  SFRG D RD+F SHL   L R K  TFI+ DEI R   I P L 
Sbjct: 1   MEIASSSGSRRYDVFPSFRGEDVRDSFLSHLLKEL-RGKAITFID-DEIERSRSIGPELL 58

Query: 61  TAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSF 120
           +AI+ S+I++++ SK+YASS WCL+ELV+I +C +   Q+V+P+F+HVD S+V+KQTG F
Sbjct: 59  SAIKESRIAIVIFSKNYASSTWCLNELVEIHKCYTNLNQMVIPIFFHVDASEVKKQTGEF 118

Query: 121 RDAFVKHKKQMAE-KVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITV 179
              F +  K  +E + Q W+ AL   + ++G++     SEA +++ + +D+L+K   +T 
Sbjct: 119 GKVFEETCKAKSEDEKQSWKQALAAVAVMAGYDLRKWPSEAAMIEELAEDVLRK--TMTP 176

Query: 180 STNFDGLVGLNSRIEKIKSLLCIGRPDFRI-VGIWGMGGTGKTTLAGAIFNLIYKEFEGN 238
           S +F  LVG+ + IE IKS+LC+   + RI VGIWG  G GK+T+  A+++ +  +F   
Sbjct: 177 SDDFGDLVGIENHIEAIKSVLCLESKEARIMVGIWGQSGIGKSTIGRALYSKLSIQFHHR 236

Query: 239 CFLG----------------------------------------NVREESEKGVLDDVNK 258
            F+                                          ++++    +LDDV+ 
Sbjct: 237 AFITYKSTSGSDVSGMKLRWEKELLSEILGQKDIKIEHFGVVEQRLKQQKVLILLDDVDS 296

Query: 259 IGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTN-VYEVNGLRYHEALELFCNCA 317
           +  L+ L    + FG GSRII+ T+D+ +L     H+ + +YEV     H AL + C  A
Sbjct: 297 LEFLKTLVGKAEWFGSGSRIIVITQDRQLLK---AHEIDLIYEVEFPSEHLALTMLCRSA 353

Query: 318 FKENHCPSGFLASSKRV----------LKVLGSFFHRKSKLDWEKALENISRISDPDIYD 367
           F ++  P  F   +  V          L VLGS    ++K  W + +  +    + DI  
Sbjct: 354 FGKDSPPDDFKELAFEVAKLAGNLPLGLSVLGSSLKGRTKEWWMEMMPRLRNGLNGDIMK 413

Query: 368 VLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNGLNILIAKSLVTVSNDN 427
            L++SY+ L  +++ +FL IAC F G E  YV  +L  N    G  +L  KSL+ ++ D 
Sbjct: 414 TLRVSYDRLHQKDQDMFLYIACLFNGFEVSYVKDLLKDNV---GFTMLTEKSLIRITPDG 470

Query: 428 KIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKK 469
            I+MH+LL+++GRE+ R +    PGKR  L   ED++ V+ +
Sbjct: 471 YIEMHNLLEKLGREIDRAKSKGNPGKRRFLTNFEDIHEVVTE 512

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  207 bits (527), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 165/519 (31%), Positives = 253/519 (48%), Gaps = 93/519 (17%)

Query: 6    FSSSSKYDVSLSFRGGD-TRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQ 64
            FSSS  YDV + +   D + ++F SHL A+LCR+ I  +   +E+            A+ 
Sbjct: 662  FSSSKDYDVVIRYGRADISNEDFISHLRASLCRRGISVYEKFNEV-----------DALP 710

Query: 65   GSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAF 124
              ++ +IVL+  Y  S      L+ ILE + T  ++V P+FY + P D    + ++   +
Sbjct: 711  KCRVLIIVLTSTYVPSN-----LLNILEHQHTEDRVVYPIFYRLSPYDFVCNSKNYERFY 765

Query: 125  VKHKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFD 184
            ++      ++ +KW+ AL E + + G+ ++T +SE+EL+D IV+D LK L     S +  
Sbjct: 766  LQ------DEPKKWQAALKEITQMPGY-TLTDKSESELIDEIVRDALKVL----CSADKV 814

Query: 185  GLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNV 244
             ++G++ ++E+I SLLCI   D R +GIWG  G GKTT+A  IF  I  ++E    L ++
Sbjct: 815  NMIGMDMQVEEILSLLCIESLDVRSIGIWGTVGIGKTTIAEEIFRKISVQYETCVVLKDL 874

Query: 245  REESE-KG-----------------------------------------VLDDVNKIGQL 262
             +E E KG                                         +LDDVN    +
Sbjct: 875  HKEVEVKGHDAVRENFLSEVLEVEPHVIRISDIKTSFLRSRLQRKRILVILDDVNDYRDV 934

Query: 263  QYLTCGLDRFGPGSRIIITTRDK--WILDKFGVHDTNVYEVNGLRYHEALELF----CNC 316
                  L+ FGPGSRII+T+R++  ++L K      +VYEV  L   ++L L     C  
Sbjct: 935  DTFLGTLNYFGPGSRIIMTSRNRRVFVLCKI----DHVYEVKPLDIPKSLLLLDRGTCQI 990

Query: 317  AFKENHCPS------GFLASSKRVLKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLK 370
                    +       F   + +VL+ L S     +KL  E  ++  S I  P I++   
Sbjct: 991  VLSPEVYKTLSLELVKFSNGNPQVLQFLSSIDREWNKLSQE--VKTTSPIYIPGIFEKSC 1048

Query: 371  ISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDP-NF-PHNGLNILIAKSLVTVSNDNK 428
               +D    E+ IFLDIACFF   +KD V  +LD   F  H G   L+ KSL+T+S  N 
Sbjct: 1049 CGLDD---NERGIFLDIACFFNRIDKDNVAMLLDGCGFSAHVGFRGLVDKSLLTISQHNL 1105

Query: 429  IQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVL 467
            + M   +Q  GRE+VRQE    PG RSRLW  + + HV 
Sbjct: 1106 VDMLSFIQATGREIVRQESADRPGDRSRLWNADYIRHVF 1144

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  204 bits (519), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 154/499 (30%), Positives = 245/499 (49%), Gaps = 94/499 (18%)

Query: 22  DTRDNFTSHLYAALCRKKIK-TFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASS 80
           + R +F SHL  AL RK +   FI+ D     D +S    + ++ +++SV++L  +   S
Sbjct: 15  EVRYSFVSHLSKALQRKGVNDVFIDSD-----DSLSNESQSMVERARVSVMILPGNRTVS 69

Query: 81  KWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQMAEKVQKWRD 140
              L +LVK+L+C+    Q+VVPV Y V  S+                        +W  
Sbjct: 70  ---LDKLVKVLDCQKNKDQVVVPVLYGVRSSET-----------------------EWLS 103

Query: 141 ALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLL 200
           AL      S  +S    S+++LV   V+D+ +KL        +   +G+ S++ +I+ ++
Sbjct: 104 ALDSKGFSSVHHSRKECSDSQLVKETVRDVYEKL-------FYMERIGIYSKLLEIEKMI 156

Query: 201 CIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGN-VREESEKGV------- 252
                D R VGIWGM G GKTTLA A+F+ +  EF+ +CF+ +  +   EKGV       
Sbjct: 157 NKQPLDIRCVGIWGMPGIGKTTLAKAVFDQMSGEFDAHCFIEDYTKAIQEKGVYCLLEEQ 216

Query: 253 ------------------------------LDDVNKIGQLQYLTCGLDRFGPGSRIIITT 282
                                         LDDV     ++    G D FGP S IIIT+
Sbjct: 217 FLKENAGASGTVTKLSLLRDRLNNKRVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITS 276

Query: 283 RDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKVLG--- 339
           +DK +     V+   +YEV GL   EAL+LF  CA  ++         S +V+K      
Sbjct: 277 KDKSVFRLCRVN--QIYEVQGLNEKEALQLFSLCASIDDMAEQNLHEVSMKVIKYANGHP 334

Query: 340 --------SFFHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFF 391
                       +K   + E A   +         D +K SY+ L+  EK+IFLDIACFF
Sbjct: 335 LALNLYGRELMGKKRPPEMEIAFLKLKECPPAIFVDAIKSSYDTLNDREKNIFLDIACFF 394

Query: 392 AGEEKDYVTRMLDPN--FPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECIK 449
            GE  DYV ++L+    FPH G+++L+ KSLVT+S +N+++MH+L+Q++GR+++ +E  +
Sbjct: 395 QGENVDYVMQLLEGCGFFPHVGIDVLVEKSLVTIS-ENRVRMHNLIQDVGRQIINRE-TR 452

Query: 450 EPGKRSRLWYHEDVYHVLK 468
           +  +RSRLW    + ++L+
Sbjct: 453 QTKRRSRLWEPCSIKYLLE 471

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  162 bits (410), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 143/502 (28%), Positives = 226/502 (45%), Gaps = 95/502 (18%)

Query: 26  NFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAI-QGSKISVIVLSKHYASSKWCL 84
           +  SHL AAL R+ I  F++   ++     S      +  G+++ V+V+S          
Sbjct: 31  SLVSHLSAALRREGISVFVDACGLQETKFFSIKQNQPLTDGARVLVVVISDEVEFYDPWF 90

Query: 85  HELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQMAEKVQKWRDALTE 144
            + +K+++    NG +VVPVFY VD                        +V  W ++  E
Sbjct: 91  PKFLKVIQGWQNNGHVVVPVFYGVDS---------------------LTRVYGWANSWLE 129

Query: 145 ASNLSGWNSM----TIRSEAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLL 200
           A  L+   S      + +++ELV+ IV+D+  KL            VG+ +R+ +I+ LL
Sbjct: 130 AEKLTSHQSKILSNNVLTDSELVEEIVRDVYGKLYPAE-------RVGIYARLLEIEKLL 182

Query: 201 CIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEKG--------- 251
                D R +GIWGM G GKTTLA A+FN +  +++ +CF+ N  E   K          
Sbjct: 183 YKQHRDIRSIGIWGMPGIGKTTLAKAVFNHMSTDYDASCFIENFDEAFHKEGLHRLLKER 242

Query: 252 ---------------------------------VLDDVNKIGQLQYLTCGLDRFGPGSRI 278
                                            VLDDV      +     LD FG GS I
Sbjct: 243 IGKILKDEFDIESSYIMRPTLHRDKLYDKRILVVLDDVRDSLAAESFLKRLDWFGSGSLI 302

Query: 279 IITTRDKWILDKFGVHDTN-VYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKV 337
           IIT+ DK +   F     N +Y V GL  HEAL+LF    F  N         S +V+  
Sbjct: 303 IITSVDKQV---FAFCQINQIYTVQGLNVHEALQLFSQSVFGINEPEQNDRKLSMKVIDY 359

Query: 338 LG------SFFHRK---SKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIA 388
           +       S + R+    K + E A   +       I DVLK +Y+ LS  EK+I LDIA
Sbjct: 360 VNGNPLALSIYGRELMGKKSEMETAFFELKHCPPLKIQDVLKNAYSALSDNEKNIVLDIA 419

Query: 389 CFFAGEEKDYVTRMLDPN--FPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQE 446
            FF GE  +YV ++L+ +  FP   +++L+ K ++T+S +N +QM++L+Q+  +E+   E
Sbjct: 420 FFFKGETVNYVMQLLEESHYFPRLAIDVLVDKCVLTIS-ENTVQMNNLIQDTCQEIFNGE 478

Query: 447 CIKEPGKRSRLWYHEDVYHVLK 468
                   +R+W    + ++L+
Sbjct: 479 I----ETCTRMWEPSRIRYLLE 496

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3

 Score =  162 bits (409), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 151/505 (29%), Positives = 232/505 (45%), Gaps = 96/505 (19%)

Query: 22  DTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF-----TAIQGSKISVIVLSKH 76
           + R +F SHL  AL RK       G      D     L        I+ + +SV+VL  +
Sbjct: 18  EVRYSFVSHLSEALRRK-------GINNVVVDVDIDDLLFKESQAKIEKAGVSVMVLPGN 70

Query: 77  YASSKWCLHELVKILECKSTN-GQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQMAEKV 135
              S+  L +  K+LEC+  N  Q VV V Y               D+ ++         
Sbjct: 71  CDPSEVWLDKFAKVLECQRNNKDQAVVSVLYG--------------DSLLR--------- 107

Query: 136 QKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEK 195
            +W   L          S    S++ LV+ IV+D+ +       +  + G +G+ S++ +
Sbjct: 108 DQWLSELDFRGLSRIHQSRKECSDSILVEEIVRDVYE-------THFYVGRIGIYSKLLE 160

Query: 196 IKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNV-REESEKG--- 251
           I++++       R VGIWGM G GKTTLA A+F+ +   F+ +CF+ +  +   EKG   
Sbjct: 161 IENMVNKQPIGIRCVGIWGMPGIGKTTLAKAVFDQMSSAFDASCFIEDYDKSIHEKGLYC 220

Query: 252 -------------------------------VLDDVNKIGQLQYLTCGLDRFGPGSRIII 280
                                          VLDDV      +    G D  GPGS III
Sbjct: 221 LLEEQLLPGNDATIMKLSSLRDRLNSKRVLVVLDDVRNALVGESFLEGFDWLGPGSLIII 280

Query: 281 TTRDKWILDKFGVHDTNVYEVNGLRYHEALELFC-NCAFKENHCPSGFLASSKRVLK--- 336
           T+RDK +    G++   +YEV GL   EA +LF  + + KE+         S RV+    
Sbjct: 281 TSRDKQVFCLCGIN--QIYEVQGLNEKEARQLFLLSASIKEDMGEQNLQELSVRVINYAN 338

Query: 337 -------VLGSFFHRKSKL-DWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIA 388
                  V G     K KL + E A   + R     I D  K +Y+ LS  EK+IFLDIA
Sbjct: 339 GNPLAISVYGRELKGKKKLSEMETAFLKLKRRPPFKIVDAFKSTYDTLSDNEKNIFLDIA 398

Query: 389 CFFAGEEKDYVTRMLDPN--FPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQE 446
           CFF GE  +YV ++L+    FPH  +++L+ K LVT+S +N++ +H L Q++GRE++  E
Sbjct: 399 CFFQGENVNYVIQLLEGCGFFPHVEIDVLVDKCLVTIS-ENRVWLHKLTQDIGREIINGE 457

Query: 447 CIKEPGKRSRLWYHEDVYHVLKKNK 471
            + +  +R RLW    + ++L+ N+
Sbjct: 458 TV-QIERRRRLWEPWSIKYLLEYNE 481

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  107 bits (268), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 65/186 (34%), Positives = 102/186 (54%), Gaps = 7/186 (3%)

Query: 2   ASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFT 61
           +S+   + +   V ++FRG D R+ F S L  A+    I  FI+ DE+   D ++  LF 
Sbjct: 4   SSSVRPTPTGPQVFINFRGKDLRNGFLSFLEPAMREANINVFIDKDEVVGTDLVN--LFV 61

Query: 62  AIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFR 121
            IQ S+++V++ SK Y SS+WCL EL +I +C +  G   +P+FY + PS V +  G F 
Sbjct: 62  RIQESRVAVVIFSKDYTSSEWCLDELAEIKDCINQGGLNAIPIFYKLAPSSVLELKGGFG 121

Query: 122 DAF--VKHK-KQMAEKVQKWRDALTEASNLSGWN--SMTIRSEAELVDVIVKDILKKLEN 176
           D F  +K K K   E+ QKW++AL     L G      + R+E E ++ ++ +I K L  
Sbjct: 122 DTFRVLKEKYKNDPERTQKWQEALESIPKLKGLRLAEKSDRNEREFMNEMILEIQKALWQ 181

Query: 177 ITVSTN 182
           I +  N
Sbjct: 182 IAMKGN 187

Arabidopsis thaliana (taxid: 3702)

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

 Score = 91.3 bits (225), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 61/168 (36%), Positives = 90/168 (53%), Gaps = 9/168 (5%)

Query: 14  VSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVL 73
           V ++FRG D R  F S L  AL ++KI  FI+  E R    IS  LF  I  SKI++++ 
Sbjct: 24  VFINFRGKDLRKGFMSFLKPALKKEKINVFIDEQEERGKYLIS--LFDTIGESKIALVIF 81

Query: 74  SKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAF---VKHKKQ 130
           S+ Y  S WC+ ELVKI E    N  I++P+FY +D   V+  TG F D F   V   + 
Sbjct: 82  SEGYCESHWCMDELVKIKEYMDQNRLIIIPIFYRLDLDVVKDLTGKFGDNFWDLVDKYQP 141

Query: 131 MAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDV-IVKDILKKLENI 177
             +K+ KW +AL     L    S+ +   +++ D   VK I+K ++ +
Sbjct: 142 EPKKLHKWTEALFSVCELF---SLILPKHSDISDRDFVKSIVKAVKKV 186

Arabidopsis thaliana (taxid: 3702)

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

 Score = 89.4 bits (220), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 67/213 (31%), Positives = 106/213 (49%), Gaps = 18/213 (8%)

Query: 1   MASTSF---SSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISP 57
           MAS+S     + +   V + FRG D R +F S L  AL    I  FI+ +E   G +++ 
Sbjct: 1   MASSSSVVKPTPTGPQVFICFRGADVRKHFISFLVPALREANINVFIDENEFL-GSEMA- 58

Query: 58  ALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQT 117
            L T I+ S++++++ S  +  S  CL+EL KI E K     IV+P+FY V PS V+   
Sbjct: 59  NLLTRIEESELALVIFSVDFTRSHRCLNELAKIKERKDQGRLIVIPIFYKVKPSAVKFLE 118

Query: 118 GSFRD---AFVKHKKQMAEKVQKWRDALTEASNLSGWN--SMTIRSEAELVDVIVKDILK 172
           G F D   A  ++ + M    QKW++AL       G      + R++ + ++ +V  I +
Sbjct: 119 GKFGDNFRALERNNRHMLPITQKWKEALESIPGSIGMPLAEQSERTDNDFINSMVIKIQQ 178

Query: 173 KLENITVSTNFDGLVGLNSRIEKIKSLLCIGRP 205
            LEN+ V          N+ IE  + L+ I  P
Sbjct: 179 LLENMAVRR--------NNEIEAQRKLVSIVPP 203

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	471
255564976	944	TMV resistance protein N, putative [Rici	0.974	0.486	0.495	1e-128
224127917	1470	tir-nbs-lrr resistance protein [Populus	0.985	0.315	0.478	1e-125
255569048	1084	leucine-rich repeat-containing protein,	0.983	0.427	0.501	1e-124
255561496	876	TMV resistance protein N, putative [Rici	0.970	0.521	0.499	1e-123
356569977	833	PREDICTED: TMV resistance protein N-like	0.968	0.547	0.485	1e-123
147768286	1206	hypothetical protein VITISV_033530 [Viti	0.963	0.376	0.477	1e-119
359495270	1154	PREDICTED: TMV resistance protein N-like	0.970	0.396	0.479	1e-118
225460354	1174	PREDICTED: TMV resistance protein N-like	0.963	0.386	0.477	1e-118
255537139	1137	leucine-rich repeat-containing protein,	0.970	0.401	0.470	1e-117
147769268	1236	hypothetical protein VITISV_013549 [Viti	0.987	0.376	0.491	1e-117

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

 Score =  464 bits (1193), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 257/519 (49%), Positives = 345/519 (66%), Gaps = 60/519 (11%)

Query: 6   FSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQG 65
           F    KYDV +SFRG DTRDNFTSHLYAAL +K+IK F++ D++ RG++IS AL   I+ 
Sbjct: 10  FDPQLKYDVFVSFRGEDTRDNFTSHLYAALHQKQIKAFVD-DKLSRGEEISAALVKVIEE 68

Query: 66  SKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFV 125
           S +SVI+ S++YA S WCL ELVKILECK T GQIV+PVFYHVDPSDV +Q G F  AF+
Sbjct: 69  SMVSVIIFSENYAFSPWCLDELVKILECKKTVGQIVLPVFYHVDPSDVAEQKGGFGAAFI 128

Query: 126 KHKKQMAE---KVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTN 182
           +H+K   E   K+QKWR ALTEA+N+SGW+S  IRSE++L+  I +DILKKL +++ ST+
Sbjct: 129 EHEKCFKERIDKLQKWRAALTEAANISGWSSSVIRSESKLIQEIAEDILKKLNHMSSSTD 188

Query: 183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG 242
             GLVG+NSRI+KI+ LLC+   D R +G+WGMGG GKTT A  +FN I  +F+  CFL 
Sbjct: 189 SKGLVGINSRIDKIELLLCVELADVRFLGLWGMGGAGKTTTAEVVFNRISTQFDSCCFLA 248

Query: 243 NVREESEKG--------------------------------------VLDDVNKIGQLQY 264
           NV EESE+                                       VLDDVN + QL+ 
Sbjct: 249 NVNEESERYGLLKLQRQLFSKLLGQDNVNYAEGIFDKSRLKHRKVLIVLDDVNNLRQLEN 308

Query: 265 LTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCP 324
           L    + FGPGSRII+T+RDK +L         +Y++  L +HEAL+LF   AF++  CP
Sbjct: 309 LAGEHNWFGPGSRIILTSRDKDVLKN---KTDAIYKIEDLDHHEALQLFSLNAFRQE-CP 364

Query: 325 SG-FLASSKRV----------LKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLKISY 373
              ++  SKRV          LKVLGSF ++++  +WE AL  + R ++ +I +VLK+SY
Sbjct: 365 KADYMKLSKRVINYAKGNPLGLKVLGSFLYQRNIKEWESALHKLERSTNKEIQNVLKVSY 424

Query: 374 NDLSLEEKSIFLDIACFFAGEEKDYVTRMLDP-NFPHN-GLNILIAKSLVTVSNDNKIQM 431
           + L  EEK IFLD+ACFF GE++D+VTR+L+   F  +  +++L++KSL+T+SN N + +
Sbjct: 425 DGLDDEEKDIFLDVACFFNGEDRDFVTRILNGCGFSADIAISVLVSKSLLTISN-NTLAI 483

Query: 432 HDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKN 470
           H+LLQ+MG  +VRQE  KEPG+RSRL   EDV HVL KN
Sbjct: 484 HNLLQQMGWGIVRQESTKEPGRRSRLCTSEDVVHVLSKN 522

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127917|ref|XP_002329209.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222870990|gb|EEF08121.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  456 bits (1172), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 252/527 (47%), Positives = 336/527 (63%), Gaps = 63/527 (11%)

Query: 1   MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF 60
           ++S++ +   KYDV LSFRG DTRDNF SHL  ALCRK+IKTFI+ D++ RG++I+ AL 
Sbjct: 2   VSSSAVAQKWKYDVFLSFRGKDTRDNFVSHLRDALCRKQIKTFID-DKLERGEEITGALL 60

Query: 61  TAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSF 120
             I+ S+ISVI+ S++YASS WC+ ELVKILECK   GQIV+PVFYHVDPSDV +QTGSF
Sbjct: 61  RTIEESRISVIIFSRNYASSPWCVDELVKILECKKAYGQIVLPVFYHVDPSDVDQQTGSF 120

Query: 121 RDAFV---KHKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENI 177
            +AF    ++ KQ  +KV +WR  LT A+N+SGW+S   R E+ LV+ IV  ILKKL N 
Sbjct: 121 GNAFAELERNFKQKMDKVPRWRADLTSAANISGWDSQVTRPESSLVEQIVHHILKKL-NY 179

Query: 178 TVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG 237
             S++  GLVG++SR+E+I++ LC   P+F  VGIWGMGGTGKTT+AG IFN I +E+EG
Sbjct: 180 ASSSDLKGLVGMDSRMEQIEASLCTKLPEFCFVGIWGMGGTGKTTIAGEIFNKIAREYEG 239

Query: 238 NCFLGNVREESEKG------------------------------------------VLDD 255
           + FL NVRE  + G                                          V DD
Sbjct: 240 HYFLANVRESEKNGGLFRIRDELFSKITEEENLHIRTPRIGHPFIKDRICRKKILIVFDD 299

Query: 256 VNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCN 315
           VN + Q++ L  G + FGPGSRII+T+RDK +L K+      ++EV GL + EAL LF  
Sbjct: 300 VNDVDQIEMLLGGCESFGPGSRIILTSRDKQVLKKYA---DKIFEVEGLNHREALHLFSL 356

Query: 316 CAFKENHCPSGFLASSKR----------VLKVLGSFFHRKSKLDWEKALENISRISDPDI 365
            AFK+N  P  ++  S R           LKVLGS    ++  +WE AL  + +++   +
Sbjct: 357 HAFKDNQPPYNYMELSVRAINYAKGNPLALKVLGSSLFGRTTKEWESALNKVEKLTRQKV 416

Query: 366 YDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDP-NFPHN-GLNILIAKSLVTV 423
           + VL+ISY  L  EEKSIFLDIACFF G   D+V R+LD   F  + G ++LI + L+ +
Sbjct: 417 HSVLRISYEALDSEEKSIFLDIACFFRGHRVDFVKRILDGCGFKTDIGFSVLIDRCLIKI 476

Query: 424 SNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKN 470
           S D+K++MHDLLQEM  +VVR+E + E G +SRLW  +DVY VL  N
Sbjct: 477 S-DDKVEMHDLLQEMAHDVVRKESLDELGGQSRLWSPKDVYQVLTNN 522

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569048|ref|XP_002525493.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223535172|gb|EEF36851.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  450 bits (1158), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 263/524 (50%), Positives = 333/524 (63%), Gaps = 61/524 (11%)

Query: 1   MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF 60
           MAS+S S   K+DV LSFRG DTRDNFTSHLY ALCRKKIKTFI+ + + RG++I+PAL 
Sbjct: 1   MASSSNSPKRKFDVFLSFRGKDTRDNFTSHLYDALCRKKIKTFID-NGLERGEEITPALL 59

Query: 61  TAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSF 120
             I+ S ISVIV S++YASS WCL E+VKILEC+ T+GQ V+PVFYHVDPSDV +Q GSF
Sbjct: 60  RTIEESLISVIVFSENYASSPWCLDEMVKILECRETHGQAVLPVFYHVDPSDVEEQNGSF 119

Query: 121 RDAFVKHKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVS 180
               V+ +K   +KV KWR  L +A+++SGW+S  I SEA+LV  IV+ IL+KL N   S
Sbjct: 120 ALTLVELEKNFKDKVSKWRTDLMKAASISGWDSRAIGSEAKLVKHIVEHILQKL-NKASS 178

Query: 181 TNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF 240
           T+  GL+GL+S I KIK LL IG PD R VG+WGM G GKTT+AGAIFN +  +FEG CF
Sbjct: 179 TDLKGLIGLDSHIRKIKKLLQIGLPDIRTVGLWGMSGIGKTTIAGAIFNTLSSQFEGCCF 238

Query: 241 LGNVREESEKG------------------------------------------VLDDVNK 258
           L N++EESE+                                           VLDDVN 
Sbjct: 239 LENIKEESERCGLVPLRDKLLSEILMEGNVHIATPSIGSTSLKNRLRHKKVLLVLDDVND 298

Query: 259 IGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAF 318
           + Q++ L    D FG GSR+++T+RDK +L    V D  +YEV GL   EAL+LF   AF
Sbjct: 299 VDQIETLIGRCD-FGLGSRVLVTSRDKQVLK--NVVD-EIYEVEGLSDDEALQLFNLHAF 354

Query: 319 KENHCPSGFLASSKRV----------LKVLGSFFHRKSKLDWEKALENISRISDPDIYDV 368
           K+N   +  +  S RV          LKVLGS    +SK DWE ALE + R   P I+ V
Sbjct: 355 KDNCSTTDKIKLSYRVVKHAQGNPLALKVLGSSLFARSKQDWESALEKLERTPQPKIFHV 414

Query: 369 LKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNGLNI--LIAKSLVTVSND 426
           L+ S++ L  EEKSIFLDIACFF G++  +V ++L+      G+ I  L  K LV++  +
Sbjct: 415 LRSSFDALDDEEKSIFLDIACFFKGQQIGFVKKILNGCGLSAGIGISVLAGKCLVSI-QE 473

Query: 427 NKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKN 470
           NK++MHDLLQEM +E+V QE IKE GKRSRLW   D   VL KN
Sbjct: 474 NKLEMHDLLQEMAQEIVHQESIKELGKRSRLWSPSDACQVLTKN 517

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  449 bits (1155), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 261/523 (49%), Positives = 339/523 (64%), Gaps = 66/523 (12%)

Query: 7   SSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGS 66
           +S  KYDV LSFRG DTRDNFTSHLY+AL +KKI TF++  EI+RG++ISP++  AI+GS
Sbjct: 6   TSEKKYDVFLSFRGEDTRDNFTSHLYSALNKKKIFTFMD-KEIKRGEEISPSIAKAIKGS 64

Query: 67  KISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVK 126
           K+SVI+ S+ YA SKWCL EL KILECK  NGQIV+PVFY VDP  VR Q GSF  AF K
Sbjct: 65  KLSVIIFSEKYAFSKWCLDELTKILECKKMNGQIVIPVFYRVDPVHVRNQRGSFACAFAK 124

Query: 127 HK---KQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNF 183
           H+   K+  EKV+ WR AL EA ++SGWNS+  R E++L++ IVKDI KKL N T  ++ 
Sbjct: 125 HEETLKERMEKVESWRSALNEAGSISGWNSLVARPESKLIEEIVKDISKKL-NQTSPSHS 183

Query: 184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGN 243
            GLVG++SR+E+I+S+LC+   D RI+G+WGMGG GKTTLAGAIF+ I  ++E + FLGN
Sbjct: 184 IGLVGIDSRLEQIESMLCLDMSDVRIIGVWGMGGIGKTTLAGAIFDQISAQYESSYFLGN 243

Query: 244 VREESEKG------------------------------------------VLDDVNKIGQ 261
           VRE+ ++                                           VLDDV+   Q
Sbjct: 244 VREQLKRCLLAELREKLFSKILEEKNLDTRTPNLGNTFLKDRLSRKKILVVLDDVDSTMQ 303

Query: 262 LQYLTCGL-DRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKE 320
           LQ L  G  D FGPGSRII+T+RDK +L    V D  +Y+V GL  HEAL+LF   AFK+
Sbjct: 304 LQELLPGQHDLFGPGSRIIVTSRDKQVLK--NVVD-EIYKVEGLNQHEALQLFSLNAFKK 360

Query: 321 NHCPSGFLASSKRV----------LKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLK 370
           N   +  +  S RV          L+VLG     KSK DWE ALE +  + + +I  VL+
Sbjct: 361 NSPTNDRVEISTRVADYAKGNPLALRVLGCALFDKSKEDWESALEKLRNVPNGEIQKVLR 420

Query: 371 ISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNG--LNILIAKSLVTVSNDNK 428
            SY+ L  EE++IFLDIACFF GE+++Y T++LD  +   G  ++ LI KSLV+V   +K
Sbjct: 421 FSYDGLDREERNIFLDIACFFRGEDRNYATKILDGCYSSVGFIISTLIDKSLVSVYR-SK 479

Query: 429 IQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKNK 471
           ++MHDLLQE G  +VR+E   E  KRSRLW  +DVY+VL K K
Sbjct: 480 LEMHDLLQETGWSIVREE--PELEKRSRLWNPKDVYYVLTKKK 520

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  449 bits (1155), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 241/496 (48%), Positives = 326/496 (65%), Gaps = 40/496 (8%)

Query: 8   SSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSK 67
           S  KYDV LSFRG DTR NFTSHLY AL +KK++T+I+ + + +GD+ISPAL  AI+ S 
Sbjct: 16  SPKKYDVFLSFRGEDTRRNFTSHLYEALKQKKVETYID-EHLEKGDEISPALIKAIEDSH 74

Query: 68  ISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKH 127
           +S++V SK+YASSKWCL EL+KIL+CK   GQIV+PVFY +DPSDVRKQTGS+  AF KH
Sbjct: 75  VSIVVFSKNYASSKWCLVELIKILDCKKDRGQIVIPVFYEIDPSDVRKQTGSYEQAFAKH 134

Query: 128 KKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLV 187
           + + +    KW+ ALTEA+NL+GW+S T R++ EL+  IV D+L+KL          GLV
Sbjct: 135 EGEPS--CNKWKTALTEAANLAGWDSRTYRTDPELLKDIVADVLQKLPP-RYQNQRKGLV 191

Query: 188 GLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREE 247
           G+    + I+SLL IG  + R +GIWGMGG GKT LA  +++ +  EFEG+ FL NV E+
Sbjct: 192 GIEEHCKHIESLLKIGPTEVRTLGIWGMGGIGKTALATTLYDKLSHEFEGSSFLSNVNEK 251

Query: 248 SEKG--------------------VLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWI 287
           S+K                     VLDDV     L+ L    D   PGSR+I+TTR++ I
Sbjct: 252 SDKLENHCFGNSDMSTLRGKKALIVLDDVATSEHLEKLKVDYDFLEPGSRVIVTTRNREI 311

Query: 288 LDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRV----------LKV 337
           L   G +D  +Y+V  L  H +++LFC   F E     G+   S+RV          LKV
Sbjct: 312 L---GPND-EIYQVKELSSHHSVQLFCLTVFGEKQPKEGYEDLSERVLSYCKGIPLALKV 367

Query: 338 LGSFFHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKD 397
           +G+   RKSK  WE  L  + +IS  +I+ VLK+SY+ L   +K IFLDIACFF G E+D
Sbjct: 368 MGASLRRKSKEAWESELRKLQKISSMEIHTVLKLSYDGLDHSQKDIFLDIACFFKGRERD 427

Query: 398 YVTRMLDP--NFPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRS 455
           +VTR+LD    F  +G+ +L+ K+L+T+S  N I+MHDL+QEMG E+VRQECIK+PG++S
Sbjct: 428 WVTRVLDAFDFFAASGIEVLLDKALITISEGNHIEMHDLIQEMGWEIVRQECIKDPGRQS 487

Query: 456 RLWYHEDVYHVLKKNK 471
           RLW  E+V ++LK N+
Sbjct: 488 RLWRQEEVQNILKYNR 503

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147768286|emb|CAN64759.1| hypothetical protein VITISV_033530 [Vitis vinifera]

 Score =  433 bits (1113), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 247/517 (47%), Positives = 323/517 (62%), Gaps = 63/517 (12%)

Query: 11  KYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISV 70
           KYDV LSFRG DTR +FT HL+  L RK IKTF   D++RRG+ ISPAL  AI+ S+ S+
Sbjct: 22  KYDVFLSFRGEDTRKSFTDHLHRELRRKWIKTF-RDDQLRRGEQISPALLKAIEESRFSI 80

Query: 71  IVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKK- 129
           I+ SK+YASS WCL EL KIL+C    G   +PVFY+VDPS VRKQT SF +AF KH   
Sbjct: 81  IIFSKNYASSSWCLDELTKILDCVEVMGHTAIPVFYNVDPSHVRKQTESFAEAFAKHDHI 140

Query: 130 --QMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLV 187
               +EKV KWR ALT AS LSG++S   R E E++D +V  I  KL + + S+N +GLV
Sbjct: 141 YGDKSEKVLKWRKALTVASGLSGYDSRD-RHETEVIDEVVTMIFNKLIDAS-SSNMEGLV 198

Query: 188 GLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF-EGNCFLGNVRE 246
           G+ SR++ +  LL IG  D R+VGIWGM G GK+T+A  ++N IY +F EG CFL NVRE
Sbjct: 199 GMGSRLQDMAQLLDIGSVDVRMVGIWGMAGIGKSTIAYQVYNKIYAQFDEGYCFLPNVRE 258

Query: 247 ESEKG-----------------------------------------VLDDVNKIGQLQYL 265
           ES++                                          VLDDV+   QL+ L
Sbjct: 259 ESQRHGLAYLQEELLSQISGGNLNKGNFNRGINFIKERLHSRKVLIVLDDVDMYEQLEVL 318

Query: 266 TCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPS 325
               D FG GSRIIITT+DK +L+  GV    +Y V GL+Y+EAL+LFC CAFK +   +
Sbjct: 319 AGNHDWFGAGSRIIITTKDKTLLNMHGV--DAIYNVEGLKYNEALKLFCWCAFKHDLPTA 376

Query: 326 GFLASSKR----------VLKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLKISYND 375
            ++   K            +KVLGSF   K+  +W+ AL+ + RI   D+  VL+IS++ 
Sbjct: 377 DYMQLCKNFVKYIEGLPLAIKVLGSFVKNKTIDEWKSALDKLKRIPHKDVQKVLRISFDG 436

Query: 376 LSLEEKSIFLDIACFFAGEEKDYVTRMLDPN--FPHNGLNILIAKSLVTVSNDNKIQMHD 433
           L   +K IFLDIACFF G++KD+V ++L+    FP N + +L   SL+ VSN NK+ MHB
Sbjct: 437 LDDNQKDIFLDIACFFKGQDKDFVAKILESCDFFPANDIRVLEENSLILVSN-NKLCMHB 495

Query: 434 LLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKN 470
           LLQEMG E+VRQE +K PGKRSRLW+H++V HVL  N
Sbjct: 496 LLQEMGWEIVRQENVKYPGKRSRLWFHDEVNHVLTTN 532

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495270|ref|XP_002276075.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  432 bits (1111), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 246/513 (47%), Positives = 322/513 (62%), Gaps = 56/513 (10%)

Query: 10  SKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKIS 69
           ++YDV LSFRG DTR+NFT+HLY ALC+K I TFI+ D++ RG  ISPAL  AI+ S  S
Sbjct: 13  TRYDVFLSFRGEDTRNNFTAHLYHALCQKGINTFIDDDKLERGQVISPALVAAIENSMFS 72

Query: 70  VIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKK 129
           ++VLSK+YA S+WCL ELVKI+EC  +  Q VVP+FY+VDPSDVR+Q G F +A  KH++
Sbjct: 73  IVVLSKNYAFSRWCLQELVKIVECMKSRRQRVVPIFYNVDPSDVRRQRGIFGEALAKHEE 132

Query: 130 --QMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLV 187
             +  E+VQ W+DALT+ +NLSGW+S   ++E  L+  IV DIL KL + ++S + + LV
Sbjct: 133 NSENMERVQSWKDALTQVANLSGWDSRN-KNEPLLIKEIVTDILNKLLSTSIS-DTENLV 190

Query: 188 GLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREE 247
           G+++R+++I+  LC+G  DF +VGIWGMGG GKTTLA AI+  I  +FE  CF  NV E+
Sbjct: 191 GIDARMQEIEMRLCLGSDDFLMVGIWGMGGIGKTTLARAIYRKITCQFEACCFFENVGED 250

Query: 248 -----------------------------SEKG---------VLDDVNKIGQLQYLTCGL 269
                                        S KG         VLD+VN    L+ L    
Sbjct: 251 LAKEGLIGLQQKFLAQLLEEPNLNMKALTSIKGRLHSKKVLIVLDNVNDPIILKCLVGNY 310

Query: 270 DRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLA 329
           D FG GSRIIITTRDK +L   GV   N YE     Y EA E     + K       F+ 
Sbjct: 311 DWFGRGSRIIITTRDKRLLISHGV--LNYYEAQRFNYDEASEFLTPYSLKHKIPCDDFME 368

Query: 330 SSKRV----------LKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSLE 379
            SK V          L+VLGSF    +K +W   L+ +    +  I +VLK+SY+ L  +
Sbjct: 369 VSKEVIGYAQGLPLALEVLGSFLFSMTKEEWRNQLDKLKSTPNMKIQEVLKVSYDGLDDK 428

Query: 380 EKSIFLDIACFFAGEEKDYVTRMLDPN--FPHNGLNILIAKSLVTVSNDNKIQMHDLLQE 437
           EK+I LDIACFF GE+KDYV  +LD    F  +G+  LI KSLVT+S  N+I MHDL+QE
Sbjct: 429 EKNILLDIACFFKGEDKDYVMEILDGCGFFSLSGIRALIDKSLVTISWSNEIMMHDLIQE 488

Query: 438 MGREVVRQECIKEPGKRSRLWYHEDVYHVLKKN 470
           MGRE+VRQ+ ++EPGKRSRLW+HED+  VLKKN
Sbjct: 489 MGREIVRQQSLEEPGKRSRLWFHEDINGVLKKN 521

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460354|ref|XP_002263146.1| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  431 bits (1109), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 247/517 (47%), Positives = 323/517 (62%), Gaps = 63/517 (12%)

Query: 11  KYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISV 70
           KYDV LSFRG DTR +FT HL+  L RK IKTF   D++RRG+ ISPAL  AI+ S+ S+
Sbjct: 22  KYDVFLSFRGEDTRKSFTDHLHRELRRKWIKTF-RDDQLRRGEQISPALLKAIEESRFSI 80

Query: 71  IVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKK- 129
           I+ SK+YASS WCL EL KIL+C    G   +PVFY+VDPS VRKQT SF +AF KH   
Sbjct: 81  IIFSKNYASSSWCLDELTKILDCVEVMGHTAIPVFYNVDPSHVRKQTESFAEAFAKHDHI 140

Query: 130 --QMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLV 187
               +EKV KWR ALT AS LSG++S   R E E++D +V  I  KL + + S+N +GLV
Sbjct: 141 YGDKSEKVLKWRKALTVASGLSGYDSRD-RHETEVIDEVVTMIFNKLIDAS-SSNMEGLV 198

Query: 188 GLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF-EGNCFLGNVRE 246
           G+ SR++ +  LL IG  D R+VGIWGM G GK+T+A  ++N IY +F EG CFL NVRE
Sbjct: 199 GMGSRLQDMAQLLDIGSVDVRMVGIWGMAGIGKSTIAYQVYNKIYAQFDEGYCFLPNVRE 258

Query: 247 ESEKG-----------------------------------------VLDDVNKIGQLQYL 265
           ES++                                          VLDDV+   QL+ L
Sbjct: 259 ESQRHGLAYLQEELLSQISGGNLNKGNFNRGINFIKERLHSRKVLIVLDDVDMYEQLEVL 318

Query: 266 TCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPS 325
               D FG GSRIIITT+DK +L+  GV    +Y V GL+Y+EAL+LFC CAFK +   +
Sbjct: 319 AGNHDWFGAGSRIIITTKDKTLLNMHGV--DAIYNVEGLKYNEALKLFCWCAFKHDLPTA 376

Query: 326 GFLASSKR----------VLKVLGSFFHRKSKLDWEKALENISRISDPDIYDVLKISYND 375
            ++   K            +KVLGSF   K+  +W+ AL+ + RI   D+  VL+IS++ 
Sbjct: 377 DYMQLCKNFVKYIEGLPLAIKVLGSFVKNKTIDEWKSALDKLKRIPHKDVQKVLRISFDG 436

Query: 376 LSLEEKSIFLDIACFFAGEEKDYVTRMLDPN--FPHNGLNILIAKSLVTVSNDNKIQMHD 433
           L   +K IFLDIACFF G++KD+V ++L+    FP N + +L   SL+ VSN NK+ MH+
Sbjct: 437 LDDNQKDIFLDIACFFKGQDKDFVAKILESCDFFPANDIRVLEENSLILVSN-NKLCMHN 495

Query: 434 LLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKN 470
           LLQEMG E+VRQE +K PGKRSRLW+H++V HVL  N
Sbjct: 496 LLQEMGWEIVRQENVKYPGKRSRLWFHDEVNHVLTTN 532

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537139|ref|XP_002509636.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223549535|gb|EEF51023.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  429 bits (1103), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 249/529 (47%), Positives = 330/529 (62%), Gaps = 72/529 (13%)

Query: 3   STSFSSSS-----KYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISP 57
           +TS S+S      KYDV LSFRG DTRDNFTSHL+AAL RK + TF++ +++  G++I+P
Sbjct: 2   ATSLSTSHTTHQWKYDVFLSFRGEDTRDNFTSHLFAALSRKSVITFMDNNDLHVGEEITP 61

Query: 58  ALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQT 117
           A+  AI+ SKI++++ S+ YA S+WCL+E+V+I+ECK T GQ+V+PVFYHV PSDV    
Sbjct: 62  AISKAIEESKIAIVIFSERYAFSRWCLNEIVRIIECKETCGQLVLPVFYHVGPSDV---- 117

Query: 118 GSFRDAFVKHKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENI 177
             F +AF  + +   EKVQKW++AL++A+NLS ++S   R E++LVD IV   LK+L+  
Sbjct: 118 SVFAEAFPSYDQ--FEKVQKWKNALSKAANLSAFDSRVTRPESKLVDEIVMYTLKQLKQS 175

Query: 178 TVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG 237
             S   +G+VG++SRIE+IK LL IG  D R +GIWGMGG GKTTLA A+F  I  +FEG
Sbjct: 176 YSSDVVEGIVGVDSRIEQIKELLSIGSVDVRFLGIWGMGGIGKTTLAEAVFYQIAYQFEG 235

Query: 238 NCFLGNVREESEKG--------------------------------------------VL 253
           +CFL NVR   EK                                             V+
Sbjct: 236 SCFLANVRGNFEKNGGLARLQEELLSKTLEKRDFKIDTPNIGYSFWVKQMLKHRRVLIVV 295

Query: 254 DDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELF 313
           DD N   QL  L    D FGPGSRII+T+RDK +L K  V D  +YEV  L +HEAL+LF
Sbjct: 296 DDANDSEQLDLLVGSHDWFGPGSRIIVTSRDKQVLTKI-VDD--IYEVKELVHHEALQLF 352

Query: 314 CNCAFKENHCPSGFLASSKRV----------LKVLGSFFHRKSKLDWEKALENISRISDP 363
               FK+   P  +   S  V          LKVLGSF   KSK +WE AL+ + +    
Sbjct: 353 NQTTFKKKCVPEDYSYLSDLVIEYAKGVPLALKVLGSFLFGKSKTEWESALDKLKKAPHR 412

Query: 364 DIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDP-NFPHN-GLNILIAKSLV 421
              +VLKISY+ L  EEK+IFLDIACFF GE  + VT++LD   F    GL +L+ KSL+
Sbjct: 413 ATQNVLKISYDGLDAEEKNIFLDIACFFRGESVEMVTKILDGCGFSTKIGLCLLVDKSLI 472

Query: 422 TVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKN 470
           T+ ND K++MHDLLQEMG+E+V QE  K+P +R+RLW HED+ HV  +N
Sbjct: 473 TILND-KVEMHDLLQEMGKEIVLQES-KQPSQRTRLWNHEDILHVFSRN 519

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147769268|emb|CAN68108.1| hypothetical protein VITISV_013549 [Vitis vinifera]

 Score =  429 bits (1102), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 241/490 (49%), Positives = 324/490 (66%), Gaps = 25/490 (5%)

Query: 1   MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF 60
           + S+S     KYDV LSFRG DTR +FT+HL++AL +K I TF +   + RG+ ISPAL 
Sbjct: 10  VPSSSSPHRWKYDVFLSFRGEDTRQSFTAHLHSALSQKGINTFKDS-LLPRGEKISPALL 68

Query: 61  TAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSF 120
            AI+ S+ S+IVLS++YASS WCL EL KILEC    G   +PVF++VDPS+VRKQ GSF
Sbjct: 69  QAIEESRFSIIVLSENYASSSWCLEELTKILECVEEGGHTALPVFHNVDPSNVRKQEGSF 128

Query: 121 RDAFVKHK---KQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENI 177
             AF KH+   K   E+V KWRDALTEA+ ++GW++   R E+E+++ IV  IL +  + 
Sbjct: 129 AKAFAKHEQVYKDKMEQVVKWRDALTEAATIAGWDTRN-RDESEVIEQIVTRILNEPID- 186

Query: 178 TVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG 237
             S+N D LVG++SR+E + S LCIG  D R VGIWGM G GKTT+A AI++ IY +F+G
Sbjct: 187 AFSSNMDALVGMDSRMEDLLSRLCIGSDDVRFVGIWGMAGIGKTTIAEAIYDRIYTKFDG 246

Query: 238 NCFLGN------VREESEKGVLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKF 291
            CFL N      +R +    VLDDV    QL+ L    D FG GSRIIITTR+K +L + 
Sbjct: 247 CCFLKNDIYKARLRPKRVLIVLDDVVHRQQLEALAGNHDWFGSGSRIIITTREKRLLIEQ 306

Query: 292 GVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFL----------ASSKRVLKVLGSF 341
            V +  +Y+V  L Y EAL+LFC  AF+  H    F+                LKVLGS 
Sbjct: 307 EVDE--IYKVEKLEYDEALKLFCQYAFRYKHPTEDFMQLCHHAVDYTGGLPLALKVLGSC 364

Query: 342 FHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTR 401
            +RKS  +W+  L+ +++  + ++ +VLK S++ L   EK++FLDIA F+ GE+KD+V  
Sbjct: 365 LYRKSIHEWKSELDKLNQFPNKEVLNVLKTSFDGLDDNEKNMFLDIAFFYKGEDKDFVIE 424

Query: 402 MLDPNFPHNGLNILIAKSLVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHE 461
           +LD  FP + +  L+ KSL+T+S DNK+ MHDLLQEMG E+VRQE IK+PGKRSRL  HE
Sbjct: 425 VLDNFFPVSEIGNLVDKSLITIS-DNKLYMHDLLQEMGWEIVRQESIKDPGKRSRLRVHE 483

Query: 462 DVYHVLKKNK 471
           D++ VL  NK
Sbjct: 484 DIHDVLTTNK 493

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	471
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.530	0.218	0.467	5.3e-93
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.501	0.182	0.448	7.7e-92
TAIR|locus:2175075	1068	AT5G41750 [Arabidopsis thalian	0.554	0.244	0.432	1.2e-90
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.498	0.197	0.485	6.3e-90
TAIR|locus:2160487	1085	AT5G41550 [Arabidopsis thalian	0.511	0.222	0.442	4e-87
TAIR|locus:2136108	1095	AT4G11170 [Arabidopsis thalian	0.569	0.244	0.463	2.9e-86
TAIR|locus:2155189	980	AT5G49140 [Arabidopsis thalian	0.524	0.252	0.448	3.1e-83
TAIR|locus:2164486	1104	AT5G40910 [Arabidopsis thalian	0.511	0.218	0.447	1.5e-82
TAIR|locus:2147992	1189	AT5G11250 [Arabidopsis thalian	0.537	0.212	0.410	2.3e-82
TAIR|locus:2024588	997	RLM1 "RESISTANCE TO LEPTOSPHAE	0.579	0.273	0.424	2.5e-82

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

 Score = 549 (198.3 bits), Expect = 5.3e-93, Sum P(2) = 5.3e-93
 Identities = 122/261 (46%), Positives = 170/261 (65%)

Query:     1 MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF 60
             MAS+S SS   YDV LSFRG DTR  FTSHLY  L  K IKTF +   +  G  I   L 
Sbjct:     1 MASSSSSSRWSYDVFLSFRGEDTRKTFTSHLYEVLNDKGIKTFQDDKRLEYGATIPGELC 60

Query:    61 TAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSF 120
              AI+ S+ +++V S++YA+S+WCL+ELVKI+ECK+   Q V+P+FY VDPS VR Q  SF
Sbjct:    61 KAIEESQFAIVVFSENYATSRWCLNELVKIMECKTRFKQTVIPIFYDVDPSHVRNQKESF 120

Query:   121 RDAFVKHK---KQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENI 177
               AF +H+   K   E +Q+WR AL EA+NL G      +++A+ +  IV  I  KL  I
Sbjct:   121 AKAFEEHETKYKDDVEGIQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKLCKI 180

Query:   178 TVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK---- 233
             ++S     +VG+++ +EKI+SLL IG    RI+GIWGMGG GKTT+A AIF+ +      
Sbjct:   181 SLSY-LQNIVGIDTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTLLGRMDS 239

Query:   234 --EFEGNCFLGNVREESEKGV 252
               +F+G CFL +++E +++G+
Sbjct:   240 SYQFDGACFLKDIKE-NKRGM 259

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2175991 AT5G17680 [Arabidopsis thaliana (taxid:3702)]

 Score = 528 (190.9 bits), Expect = 7.7e-92, Sum P(2) = 7.7e-92
 Identities = 113/252 (44%), Positives = 169/252 (67%)

Query:     1 MASTSFSSSS---KYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISP 57
             + S+S SSSS   K DV +SFRG D R  F SHL+    R  IK F +  +++RG  ISP
Sbjct:     4 LPSSSSSSSSTVWKTDVFVSFRGEDVRKTFVSHLFCEFDRMGIKAFRDDLDLQRGKSISP 63

Query:    58 ALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQT 117
              L  AI+GS+ +++V+S++YA+S WCL EL+KI+EC   N   +VP+FY VDPSDVR+Q 
Sbjct:    64 ELIDAIKGSRFAIVVVSRNYAASSWCLDELLKIMEC---NKDTIVPIFYEVDPSDVRRQR 120

Query:   118 GSFRDAFVKHKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENI 177
             GSF +    H  +  EKV KW++AL + + +SG +S     +++L+  IVKDI  KL   
Sbjct:   121 GSFGEDVESHSDK--EKVGKWKEALKKLAAISGEDSRNW-DDSKLIKKIVKDISDKL--- 174

Query:   178 TVSTNFD---GLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE 234
              VST++D   GL+G++S ++ ++S++ I   D R++GIWGMGG GKTT+A  ++N +  +
Sbjct:   175 -VSTSWDDSKGLIGMSSHMDFLQSMISIVDKDVRMLGIWGMGGVGKTTIAKYLYNQLSGQ 233

Query:   235 FEGNCFLGNVRE 246
             F+ +CF+ NV+E
Sbjct:   234 FQVHCFMENVKE 245

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 552 (199.4 bits), Expect = 1.2e-90, Sum P(2) = 1.2e-90
 Identities = 115/266 (43%), Positives = 171/266 (64%)

Query:     3 STSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTA 62
             S+S S   +Y V  SF G D R  F SHL++    K I TF N  +I RG  I P L   
Sbjct:     4 SSSLSCIKRYQVFSSFHGPDVRKGFLSHLHSVFASKGITTF-NDQKIDRGQTIGPELIQG 62

Query:    63 IQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRD 122
             I+ +++S++VLSK YASS WCL ELV+IL+CK   GQIV+ VFY VDPSDV+KQ+G F +
Sbjct:    63 IREARVSIVVLSKKYASSSWCLDELVEILKCKEALGQIVMTVFYEVDPSDVKKQSGVFGE 122

Query:   123 AFVKHKKQMAEKVQ-KWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVST 181
             AF K  +   E+V+ +WR+AL   + ++G +S+   +EA+++  IV D+  KL N+T S 
Sbjct:   123 AFEKTCQGKNEEVKIRWRNALAHVATIAGEHSLNWDNEAKMIQKIVTDVSDKL-NLTPSR 181

Query:   182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL 241
             +F+G+VG+ + ++++ SLLC+   + +++GIWG  G GKTT+A  +FN I   F   CF+
Sbjct:   182 DFEGMVGMEAHLKRLNSLLCLESDEVKMIGIWGPAGIGKTTIARTLFNKISSIFPFKCFM 241

Query:   242 GNVREESEKGVLDDVNKIG-QLQYLT 266
              N++  S KG  +  +K+  Q Q L+
Sbjct:   242 ENLKG-SIKGGAEHYSKLSLQKQLLS 266

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2167457 AT5G36930 [Arabidopsis thaliana (taxid:3702)]

 Score = 540 (195.1 bits), Expect = 6.3e-90, Sum P(2) = 6.3e-90
 Identities = 118/243 (48%), Positives = 159/243 (65%)

Query:    12 YDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVI 71
             YDV +SFRG D R NF SHLY +L R  I TF++  E++RG+ ISP L  AI+ SKI ++
Sbjct:    17 YDVFVSFRGADVRKNFLSHLYDSLRRCGISTFMDDVELQRGEYISPELLNAIETSKILIV 76

Query:    72 VLSKHYASSKWCLHELVKILECKSTN-GQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQ 130
             VL+K YASS WCL ELV I++    N   +V P+F +VDPSD+R Q GS+  +F KHK  
Sbjct:    77 VLTKDYASSAWCLDELVHIMKSHKNNPSHMVFPIFLYVDPSDIRWQQGSYAKSFSKHKNS 136

Query:   131 MA-EKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKL--ENITVSTNFDGLV 187
                 K++ WR+ALT+ +N+SGW+    R+EAE +  I ++ILK+L  + + V +     V
Sbjct:   137 HPLNKLKDWREALTKVANISGWDIKN-RNEAECIADITREILKRLPCQYLHVPSY---AV 192

Query:   188 GLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREE 247
             GL SR++ I SLL IG    R++ I+GMGG GKTTLA   FN     FEG+ FL N RE 
Sbjct:   193 GLRSRLQHISSLLSIGSDGVRVIVIYGMGGIGKTTLAKVAFNEFSHLFEGSSFLENFREY 252

Query:   248 SEK 250
             S+K
Sbjct:   253 SKK 255

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2160487 AT5G41550 [Arabidopsis thaliana (taxid:3702)]

 Score = 547 (197.6 bits), Expect = 4.0e-87, Sum P(2) = 4.0e-87
 Identities = 108/244 (44%), Positives = 158/244 (64%)

Query:     3 STSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTA 62
             S+S S+  +Y V  SF G D R  F SHL+     K I TF    EI +G+ I P L  A
Sbjct:     4 SSSSSNIRRYHVFPSFHGPDVRKGFLSHLHYHFASKGITTF-KDQEIEKGNTIGPELVNA 62

Query:    63 IQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRD 122
             I+ S++S+++LSK YASS WCL ELV+IL+CK   GQIV+ +FY VDPS VRKQ G F  
Sbjct:    63 IRESRVSIVLLSKKYASSSWCLDELVEILKCKEDQGQIVMTIFYDVDPSSVRKQKGDFGS 122

Query:   123 AFVKHKKQMAEKV-QKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVST 181
              F+K  +  +E+V Q+W  ALT  +N+ G +S+   +EA+++  I  D+  KL ++T S 
Sbjct:   123 TFMKTCEGKSEEVKQRWTKALTHVANIKGEHSLNWANEADMIQKIATDVSTKL-SVTPSR 181

Query:   182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL 241
             +F+G+VGL + + K+ SLLC    D +++GIWG  G GK+T+A A++N +   F+  CF+
Sbjct:   182 DFEGMVGLEAHLTKLNSLLCFEGDDVKMIGIWGPAGIGKSTIARALYNQLSSSFQLKCFM 241

Query:   242 GNVR 245
             GN++
Sbjct:   242 GNLK 245

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 550 (198.7 bits), Expect = 2.9e-86, Sum P(2) = 2.9e-86
 Identities = 127/274 (46%), Positives = 175/274 (63%)

Query:     1 MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF 60
             MAS+S S+S +YDV  SFRG D R+NF SHL      K I TF   D I+R   I   L 
Sbjct:     1 MASSS-SNSWRYDVFPSFRGEDVRNNFLSHLLKEFESKGIVTF-RDDHIKRSHTIGHELR 58

Query:    61 TAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSF 120
              AI+ SKISV++ S++YASS WCL EL++I++CK   G  V+PVFY VDPSD+RKQTG F
Sbjct:    59 AAIRESKISVVLFSENYASSSWCLDELIEIMKCKEEQGLKVMPVFYKVDPSDIRKQTGKF 118

Query:   121 RDAFVKHKKQMAEKVQ-KWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITV 179
               +F++      E+ Q  WR ALT+A+N+ G +     +EA  +  I KD+L+KL N T 
Sbjct:   119 GMSFLETCCGKTEERQHNWRRALTDAANILGDHPQNWDNEAYKITTISKDVLEKL-NATP 177

Query:   180 STNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC 239
             S +F+ LVG+ + I K++SLLC+     RIVGIWG  G GKTT+A A++N  ++ F  + 
Sbjct:   178 SRDFNDLVGMEAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTIARALYNQYHENFNLSI 237

Query:   240 FLGNVREESEKGVLDDVN-KIG-QLQYLTCGLDR 271
             F+ NVRE   +  LDD   K+  Q ++L+  LD+
Sbjct:   238 FMENVRESYGEAGLDDYGLKLHLQQRFLSKLLDQ 271

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0010193 "response to ozone" evidence=IEP

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

 Score = 502 (181.8 bits), Expect = 3.1e-83, Sum P(2) = 3.1e-83
 Identities = 114/254 (44%), Positives = 158/254 (62%)

Query:     3 STSFSSSS-KYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFT 61
             S+S SSS  KYDV  SFRG D R NF SHL      K I TF   D I R   I   L  
Sbjct:     5 SSSGSSSCWKYDVFPSFRGEDVRGNFLSHLMKEFESKGIVTF-KDDLIERSQTIGLELKE 63

Query:    62 AIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFR 121
             A++ SKI V++ SK+YASS WCL ELV+IL+CK      ++P+FY V+PSDVR QTG F 
Sbjct:    64 AVRQSKIFVVIFSKNYASSSWCLDELVEILKCKEERR--LIPIFYKVNPSDVRNQTGKFG 121

Query:   122 DAFVKHKKQMAEKVQ-KWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVS 180
               F +  +   ++ Q KW+ ALTEA+N++G +S + ++EA+ +  I KDIL KL N T S
Sbjct:   122 RGFRETCEGKNDETQNKWKAALTEAANIAGEDSQSWKNEADFLTKIAKDILAKL-NGTPS 180

Query:   181 TNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF 240
              +F+ ++G+ S +EK+  LLC+   D R+VGIWG  G GKTT+A  + +    +F    F
Sbjct:   181 NDFENIIGIESHMEKMVQLLCLNDDDVRMVGIWGPAGIGKTTIARVLHSRFSGDFRFTVF 240

Query:   241 LGNVREESEKGVLD 254
             + NVR   ++ ++D
Sbjct:   241 MENVRGNYQR-IVD 253

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2164486 AT5G40910 [Arabidopsis thaliana (taxid:3702)]

 Score = 518 (187.4 bits), Expect = 1.5e-82, Sum P(2) = 1.5e-82
 Identities = 110/246 (44%), Positives = 152/246 (61%)

Query:     1 MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF 60
             MA +S S   +Y V  SF G D R  F SHL+     K I  F    EI RG  I P L 
Sbjct:     1 MAFSSPSDFKRYHVFSSFHGPDVRSGFLSHLHNHFESKGITPF-KDQEIERGHTIGPELI 59

Query:    61 TAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSF 120
              AI+ S++S++VLS+ YASS WCL ELV+IL+CK  +GQ+V+ +FY VDPSDVRKQ G F
Sbjct:    60 QAIRESRVSIVVLSEKYASSCWCLDELVEILKCKEASGQVVMTIFYKVDPSDVRKQRGDF 119

Query:   121 RDAFVK--HKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENIT 178
                F K    K    K Q+W  AL   + ++G +S++  +EAEL+  I  D+  KL N+T
Sbjct:   120 GSTFKKTCEGKTWIVK-QRWIKALEYIATVAGEHSLSWANEAELIQKIATDVSNKL-NLT 177

Query:   179 VSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN 238
              S +F+G+VGL + + K+ S LC+   D +++GIWG  G GKTT+A A+FN +   F  +
Sbjct:   178 PSRDFEGMVGLEAHLTKLDSFLCLESDDVKMIGIWGPAGIGKTTIARALFNQLSTGFRLS 237

Query:   239 CFLGNV 244
             CF+G +
Sbjct:   238 CFMGTI 243

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2147992 AT5G11250 [Arabidopsis thaliana (taxid:3702)]

 Score = 505 (182.8 bits), Expect = 2.3e-82, Sum P(2) = 2.3e-82
 Identities = 105/256 (41%), Positives = 159/256 (62%)

Query:    12 YDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVI 71
             + V  SF G D R +F SH+     R  I  F++ +EI+RG+ I P L  AI+GSKI++I
Sbjct:    62 HQVFPSFSGEDVRRDFLSHIQMEFQRMGITPFVD-NEIKRGESIGPELLRAIRGSKIAII 120

Query:    72 VLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQM 131
             +LS++YASSKWCL ELV+I++C+   GQ V+ +FY VDPSDV+  TG F   F K     
Sbjct:   121 LLSRNYASSKWCLDELVEIMKCREEYGQTVMAIFYKVDPSDVKNLTGDFGKVFRKTCAGK 180

Query:   132 AEK-VQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENITVSTNFDGLVGLN 190
              +K + +WR A  + + ++G++S+   +EA ++  I  DI   L N T S +FDGLVG+ 
Sbjct:   181 PKKDIGRWRQAWEKVATVAGYHSINWDNEAAMIKKIATDISNILINSTPSRDFDGLVGMR 240

Query:   191 SRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEK 250
             + +EK+K LLC+   + RI+GIWG  G GKTT+A  ++N +   F+ + F+ N++    +
Sbjct:   241 AHLEKMKPLLCLDTDEVRIIGIWGPPGIGKTTIARVVYNQLSHSFQLSVFMENIKANYTR 300

Query:   251 GV-LDDVNKIGQLQYL 265
                 DD +   QLQ +
Sbjct:   301 PTGSDDYSAKLQLQQM 316

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2024588 RLM1 "RESISTANCE TO LEPTOSPHAERIA MACULANS 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 500 (181.1 bits), Expect = 2.5e-82, Sum P(2) = 2.5e-82
 Identities = 120/283 (42%), Positives = 174/283 (61%)

Query:     1 MASTSFSSSS--KYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPA 58
             MAS+S S+S   +Y V  SF G D R +F SH         I T  +   I RG+ ISPA
Sbjct:     1 MASSSSSASRTWRYRVFTSFHGSDVRTSFLSHFRKQFNNNGI-TMFDDQRILRGETISPA 59

Query:    59 LFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTG 118
             L  AI+ S+IS+++LSK+YASS WCL EL++IL+CK   GQIV+ VFY VDPSDVRKQTG
Sbjct:    60 LTQAIRESRISIVLLSKNYASSGWCLDELLEILKCKDDMGQIVMTVFYGVDPSDVRKQTG 119

Query:   119 SFRDAFVKHKK-QMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENI 177
              F  AF +    +  E+ QKW  AL    N++G + +   +EA++++ I +D+ +KL N+
Sbjct:   120 EFGIAFNETCACRTEEERQKWSQALNYVGNIAGEHLLNWDNEAKMIEKIARDVSEKL-NV 178

Query:   178 TVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG 237
             T   +FDG+VG+ + + KI+SLL +   + ++V I G  G GK+T+  A+ +L+   F  
Sbjct:   179 TPCRDFDGMVGIEAHLRKIQSLLDLDNDEVKMVAISGPAGIGKSTIGRALHSLLSNRFHH 238

Query:   238 NCFLGNVREESEKGVLDDVN-KIG-QLQYLTCGLDRFGPGSRI 278
              CF+ N+R     G LD+   K+  Q Q L+  L++   GSRI
Sbjct:   239 TCFVDNLRGSHPIG-LDEYGLKLRLQEQLLSKILNQ--DGSRI 278

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0050832 "defense response to fungus" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	471
PLN03210	1153	PLN03210, PLN03210, Resistant to P	1e-98
pfam01582	135	pfam01582, TIR, TIR domain	3e-38
smart00255	140	smart00255, TIR, Toll - interleukin 1 - resistance	7e-38
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-24
PLN03194	187	PLN03194, PLN03194, putative disease resistance pr	3e-15
pfam13676	102	pfam13676, TIR_2, TIR domain	1e-06

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

 Score =  320 bits (821), Expect = 1e-98
 Identities = 202/536 (37%), Positives = 291/536 (54%), Gaps = 72/536 (13%)

Query: 1   MASTSFSSSS-KYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPAL 59
           MAS+S SS +  YDV  SF G D R  F SH    L RK I  F + +EI R   + P L
Sbjct: 1   MASSSSSSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKD-NEIERSQSLDPEL 59

Query: 60  FTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGS 119
             AI+ S+I+V+V SK+YASS WCL+EL++I+ CK   GQ+V+PVFY +DPS VRKQTG 
Sbjct: 60  KQAIRDSRIAVVVFSKNYASSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGD 119

Query: 120 FRDAFVK--HKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENI 177
           F +AF K    K   EK+Q W+ ALT+ +N+ G++S    +EA++++ I  D+L KL N+
Sbjct: 120 FGEAFEKTCQNKTEDEKIQ-WKQALTDVANILGYHSQNWPNEAKMIEEIANDVLGKL-NL 177

Query: 178 TVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG 237
           T S +F+  VG+   I K+ SLL +   + R+VGIWG  G GKTT+A A+F+ + ++F+ 
Sbjct: 178 TPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQS 237

Query: 238 NCFLGNV-----REESEKGVLDDVNKIGQLQ--YLTCGLDR------------------- 271
           + F+         E       DD N    LQ  +L+  LD+                   
Sbjct: 238 SVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRK 297

Query: 272 -----------------------FGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHE 308
                                  FG GSRII+ T+DK  L   G+   ++YEV       
Sbjct: 298 VLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGID--HIYEVCLPSNEL 355

Query: 309 ALELFCNCAFKENHCPSGFLASSKRV----------LKVLGSFFHRKSKLDWEKALENIS 358
           ALE+FC  AFK+N  P GF+  +  V          L VLGS+   + K DW   L  + 
Sbjct: 356 ALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLR 415

Query: 359 RISDPDIYDVLKISYNDLS-LEEKSIFLDIACFFAGEEKDYVTRML-DPNFPHN-GLNIL 415
              D  I   L++SY+ L+  ++K+IF  IAC F GE+ + +  +L + +   N GL  L
Sbjct: 416 NGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNL 475

Query: 416 IAKSLVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKNK 471
           + KSL+ V  ++ ++MH LLQEMG+E+VR +   EPG+R  L   +D+  VL+ N 
Sbjct: 476 VDKSLIHVR-EDIVEMHSLLQEMGKEIVRAQS-NEPGEREFLVDAKDICDVLEDNT 529

syringae 6; Provisional. Length = 1153

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

 Score =  135 bits (342), Expect = 3e-38
 Identities = 55/133 (41%), Positives = 81/133 (60%), Gaps = 5/133 (3%)

Query: 16  LSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSK 75
           +SF G D RD F SHL   L  K IK  I+  +   G+ I   LF AI+ S+ ++++ S 
Sbjct: 3   VSFSGKDDRDTFVSHLLKELEEKGIKLCIDDRDELPGESILENLFEAIEKSRRAIVIFSS 62

Query: 76  HYASSKWCLHELVKILECKST--NGQIVVPVFYHVDPSDVRKQTGSFRDAFVKH---KKQ 130
           +YASS+WCL ELV+I++C       ++++P+FY VDPSDVR Q+G F  AF+K       
Sbjct: 63  NYASSEWCLDELVEIVKCALEGGGKKVILPIFYKVDPSDVRPQSGKFGKAFLKTLKWSGD 122

Query: 131 MAEKVQKWRDALT 143
             +K++ W+ AL 
Sbjct: 123 KEDKIRFWKKALY 135

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

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

 Score =  134 bits (340), Expect = 7e-38
 Identities = 60/142 (42%), Positives = 79/142 (55%), Gaps = 6/142 (4%)

Query: 11  KYDVSLSFRGG-DTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKIS 69
           +YDV +S+ G  D R+ F SHL   L    +  FI+  E   GD     +  AI+ S+I+
Sbjct: 1   EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDLEE--IDEAIEKSRIA 58

Query: 70  VIVLSKHYASSKWCLHELVKILECK-STNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKH- 127
           ++VLS +YA S+WCL ELV  LE      G  V+P+FY V PSDVRKQ G FR  F K+ 
Sbjct: 59  IVVLSPNYAESEWCLDELVAALENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVFKKNY 118

Query: 128 -KKQMAEKVQKWRDALTEASNL 148
            K    EK Q W+ AL    + 
Sbjct: 119 LKWPEDEKEQFWKKALYAVPSK 140

Length = 140

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

 Score =  102 bits (256), Expect = 2e-24
 Identities = 65/257 (25%), Positives = 97/257 (37%), Gaps = 59/257 (22%)

Query: 193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFN--LIYKEFEGNCFLGNVREESEK 250
           IE +   L     +  +VGI GMGG GKTTLA  I+N   +   F+   ++   +  +E 
Sbjct: 5   IEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEF 64

Query: 251 G---------------------------------------VLDDVNKIGQLQYLTCGLDR 271
                                                   VLDDV +      +      
Sbjct: 65  RLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGVPFPD 124

Query: 272 FGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFL--- 328
              GSR+I+TTR + +  + G      +EV  L   E+ ELF N  F++   P   L   
Sbjct: 125 GENGSRVIVTTRSESVAGRMGGTSK-PHEVESLEPEESWELFSNKVFEKELPPCPELEEV 183

Query: 329 ----ASSKR----VLKVLGSFFHRKSKLD-WEKALENI-----SRISDPDIYDVLKISYN 374
                   +     LKVLG     KS +  WE  LE +      R    ++  +L +SY+
Sbjct: 184 AKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEVLSILSLSYD 243

Query: 375 DLSLEEKSIFLDIACFF 391
           +L +  K  FL +A F 
Sbjct: 244 NLPMHLKRCFLYLALFP 260

Length = 285

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

 Score = 73.7 bits (181), Expect = 3e-15
 Identities = 49/169 (28%), Positives = 86/169 (50%), Gaps = 19/169 (11%)

Query: 13  DVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIV 72
           DV ++ RG DT+    + LY  L R  ++ F++   ++ GD +   + +AI+  K+ V V
Sbjct: 28  DVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAV 87

Query: 73  LSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQMA 132
            S  Y  S +CLHEL  I+E K      V+P+F  V PS +R          V +     
Sbjct: 88  FSPRYCESYFCLHELALIMESKKR----VIPIFCDVKPSQLR---------VVDNGTCPD 134

Query: 133 EKVQKWRDALTEASNLSGWNSMTIRSE-AELV----DVIVKDILKKLEN 176
           E+++++  AL EA    G    +++   +E+V    D ++K+++ +LE 
Sbjct: 135 EEIRRFNWALEEAKYTVGLTFDSLKGNWSEVVTMASDAVIKNLI-ELEE 182

Length = 187

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

 Score = 46.8 bits (112), Expect = 1e-06
 Identities = 23/98 (23%), Positives = 47/98 (47%), Gaps = 9/98 (9%)

Query: 16  LSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSK 75
           +S+   D    +   L  AL    I+ +++ D I  G+D    +  A++ + + +++LS 
Sbjct: 3   ISYASADRE--WAEWLADALEAAGIRVWLDWD-IPPGEDWRDEIEEALRSADVVLVLLSP 59

Query: 76  HYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDV 113
            Y +S WC  E    LE     G+ ++PV   ++  ++
Sbjct: 60  AYLASPWCRAEWGAALE----RGKRLIPVR--LEDCEL 91

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	471
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PLN03194	187	putative disease resistance protein; Provisional	100.0
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.97
PF01582	141	TIR: TIR domain; InterPro: IPR000157 In Drosophila	99.83
smart00255	140	TIR Toll - interleukin 1 - resistance.	99.83
PF13676	102	TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_	99.65
PRK04841	903	transcriptional regulator MalT; Provisional	99.05
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.91
KOG3678	832	consensus SARM protein (with sterile alpha and arm	98.85
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.85
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.56
PF05729	166	NACHT: NACHT domain	98.55
PRK06893	229	DNA replication initiation factor; Validated	98.52
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.45
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.45
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.39
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.39
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.27
PF08937	130	DUF1863: MTH538 TIR-like domain (DUF1863); InterPr	98.24
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.2
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.13
PRK13342	413	recombination factor protein RarA; Reviewed	98.08
PF13173	128	AAA_14: AAA domain	98.07
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.04
COG3899	849	Predicted ATPase [General function prediction only	98.04
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.03
PRK08903	227	DnaA regulatory inactivator Hda; Validated	97.97
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.95
PRK12402	337	replication factor C small subunit 2; Reviewed	97.92
PRK08727	233	hypothetical protein; Validated	97.91
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.89
COG3903	414	Predicted ATPase [General function prediction only	97.89
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	97.88
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.87
PRK08084	235	DNA replication initiation factor; Provisional	97.87
PRK13341	725	recombination factor protein RarA/unknown domain f	97.86
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.85
PLN03025	319	replication factor C subunit; Provisional	97.85
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.84
PRK09087	226	hypothetical protein; Validated	97.82
PRK04195	482	replication factor C large subunit; Provisional	97.79
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.78
KOG2028	554	consensus ATPase related to the helicase subunit o	97.78
PRK07471	365	DNA polymerase III subunit delta'; Validated	97.77
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.76
PRK05642	234	DNA replication initiation factor; Validated	97.74
PF08357	150	SEFIR: SEFIR domain; InterPro: IPR013568 This doma	97.73
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.7
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.7
PHA02544	316	44 clamp loader, small subunit; Provisional	97.69
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.69
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.69
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.68
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.67
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.67
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.66
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.64
PRK06620	214	hypothetical protein; Validated	97.63
PTZ00202	550	tuzin; Provisional	97.61
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	97.59
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.58
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.57
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.57
PRK09112	351	DNA polymerase III subunit delta'; Validated	97.53
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.53
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.51
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.5
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.49
CHL00181	287	cbbX CbbX; Provisional	97.49
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.48
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	97.47
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.47
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.47
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	97.43
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.39
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.39
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.39
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.37
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.36
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.34
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	97.29
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.26
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	97.26
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.25
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.24
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.24
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.2
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.2
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.18
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.16
CHL00095	821	clpC Clp protease ATP binding subunit	97.12
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.12
PRK09376	416	rho transcription termination factor Rho; Provisio	97.12
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.11
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.1
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.06
PRK12422	445	chromosomal replication initiation protein; Provis	97.03
PRK10865	857	protein disaggregation chaperone; Provisional	97.0
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.0
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.0
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	96.99
PRK14088	440	dnaA chromosomal replication initiation protein; P	96.99
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.96
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	96.95
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.95
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	96.93
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.93
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	96.89
PRK05707	328	DNA polymerase III subunit delta'; Validated	96.89
cd01128	249	rho_factor Transcription termination factor rho is	96.87
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	96.86
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.84
PRK08118	167	topology modulation protein; Reviewed	96.81
PRK06696	223	uridine kinase; Validated	96.8
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	96.79
CHL00176	638	ftsH cell division protein; Validated	96.77
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.74
PRK08116	268	hypothetical protein; Validated	96.73
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.7
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	96.69
PRK07667	193	uridine kinase; Provisional	96.68
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	96.64
PRK08058	329	DNA polymerase III subunit delta'; Validated	96.63
PRK08181	269	transposase; Validated	96.63
PRK12377	248	putative replication protein; Provisional	96.62
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.62
PRK10536	262	hypothetical protein; Provisional	96.62
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.6
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.6
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.59
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.58
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	96.57
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.57
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.56
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	96.55
COG0593	408	DnaA ATPase involved in DNA replication initiation	96.51
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.47
PRK15455	644	PrkA family serine protein kinase; Provisional	96.46
PRK05541	176	adenylylsulfate kinase; Provisional	96.45
PRK09183	259	transposase/IS protein; Provisional	96.43
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.43
PRK06921	266	hypothetical protein; Provisional	96.42
PRK06526	254	transposase; Provisional	96.39
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.36
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.35
PRK07261	171	topology modulation protein; Provisional	96.31
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.3
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.29
PF00004	132	AAA: ATPase family associated with various cellula	96.26
PRK07399	314	DNA polymerase III subunit delta'; Validated	96.26
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.25
PRK06835	329	DNA replication protein DnaC; Validated	96.25
PRK10865	857	protein disaggregation chaperone; Provisional	96.23
TIGR00767	415	rho transcription termination factor Rho. Members	96.17
CHL00195	489	ycf46 Ycf46; Provisional	96.17
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.14
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.12
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.08
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.07
PRK06762	166	hypothetical protein; Provisional	96.06
PRK05480	209	uridine/cytidine kinase; Provisional	96.03
PRK08233	182	hypothetical protein; Provisional	96.03
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	96.02
smart00382	148	AAA ATPases associated with a variety of cellular	96.02
PRK03839	180	putative kinase; Provisional	96.01
PF10137	125	TIR-like: Predicted nucleotide-binding protein con	96.0
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	95.99
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	95.99
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	95.98
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.95
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.94
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	95.93
PTZ00301	210	uridine kinase; Provisional	95.91
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.91
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.89
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.87
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.86
TIGR02237	209	recomb_radB DNA repair and recombination protein R	95.86
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.81
PRK00131	175	aroK shikimate kinase; Reviewed	95.81
PRK00625	173	shikimate kinase; Provisional	95.79
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	95.78
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.77
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.77
PF07726	131	AAA_3: ATPase family associated with various cellu	95.77
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.76
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	95.71
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	95.68
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	95.68
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.66
CHL00095	821	clpC Clp protease ATP binding subunit	95.65
PRK08699	325	DNA polymerase III subunit delta'; Validated	95.64
PRK13531	498	regulatory ATPase RavA; Provisional	95.59
PRK04040	188	adenylate kinase; Provisional	95.56
COG1484	254	DnaC DNA replication protein [DNA replication, rec	95.55
PRK13947	171	shikimate kinase; Provisional	95.54
PRK00889	175	adenylylsulfate kinase; Provisional	95.52
PRK06547	172	hypothetical protein; Provisional	95.51
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	95.5
PRK08939	306	primosomal protein DnaI; Reviewed	95.43
PHA00729	226	NTP-binding motif containing protein	95.43
PRK03846	198	adenylylsulfate kinase; Provisional	95.4
PRK10416	318	signal recognition particle-docking protein FtsY;	95.4
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.39
PRK06871	325	DNA polymerase III subunit delta'; Validated	95.39
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	95.37
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	95.37
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	95.34
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.31
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.28
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.27
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.22
PRK06217	183	hypothetical protein; Validated	95.18
PRK14974	336	cell division protein FtsY; Provisional	95.17
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.17
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	95.17
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	95.15
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	95.15
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.14
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.13
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.11
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.1
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.07
PRK13949	169	shikimate kinase; Provisional	95.07
PRK08769	319	DNA polymerase III subunit delta'; Validated	95.07
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	95.04
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.03
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.02
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.01
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.0
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.0
PRK05022	509	anaerobic nitric oxide reductase transcription reg	94.99
PRK13948	182	shikimate kinase; Provisional	94.97
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	94.97
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	94.91
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	94.89
PRK05439	311	pantothenate kinase; Provisional	94.86
PRK13946	184	shikimate kinase; Provisional	94.85
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	94.76
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	94.75
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	94.73
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	94.73
PRK14530	215	adenylate kinase; Provisional	94.73
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	94.67
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	94.67
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.66
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	94.66
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	94.65
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	94.65
PRK05057	172	aroK shikimate kinase I; Reviewed	94.64
PRK14738	206	gmk guanylate kinase; Provisional	94.63
PRK12339	197	2-phosphoglycerate kinase; Provisional	94.63
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	94.6
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	94.59
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	94.56
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.56
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	94.55
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	94.53
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.52
PLN02318	656	phosphoribulokinase/uridine kinase	94.52
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	94.51
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	94.51
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	94.5
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	94.5
PRK06090	319	DNA polymerase III subunit delta'; Validated	94.47
PRK07993	334	DNA polymerase III subunit delta'; Validated	94.46
PRK13975	196	thymidylate kinase; Provisional	94.44
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	94.44
PRK04182	180	cytidylate kinase; Provisional	94.43
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	94.42
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	94.4
PRK07952	244	DNA replication protein DnaC; Validated	94.38
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	94.36
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	94.36
TIGR00959	428	ffh signal recognition particle protein. This mode	94.36
PRK00300	205	gmk guanylate kinase; Provisional	94.35
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	94.35
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	94.34
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	94.3
PRK03731	171	aroL shikimate kinase II; Reviewed	94.29
COG0714	329	MoxR-like ATPases [General function prediction onl	94.28
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	94.28
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	94.26
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	94.25
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	94.25
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	94.24
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	94.21
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	94.19
PRK15453	290	phosphoribulokinase; Provisional	94.18
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	94.18
cd00983	325	recA RecA is a bacterial enzyme which has roles in	94.16
PRK09435	332	membrane ATPase/protein kinase; Provisional	94.14
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	94.13
PRK14527	191	adenylate kinase; Provisional	94.12
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.11
PLN02200	234	adenylate kinase family protein	94.1
PRK06067	234	flagellar accessory protein FlaH; Validated	94.08
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	94.07
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	94.01
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	94.0
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.0
) 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	93.98
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	93.98
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	93.97
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	93.95
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	93.95
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	93.94
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	93.92
PLN02348	395	phosphoribulokinase	93.91
PRK14532	188	adenylate kinase; Provisional	93.89
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	93.83
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	93.82
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	93.81
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	93.8
PLN02796	347	D-glycerate 3-kinase	93.79
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	93.79
PRK09354	349	recA recombinase A; Provisional	93.79
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	93.77
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	93.77
PHA02244	383	ATPase-like protein	93.76
PRK14531	183	adenylate kinase; Provisional	93.75
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	93.68
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	93.67
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	93.65
PRK08533	230	flagellar accessory protein FlaH; Reviewed	93.63
PRK09825	176	idnK D-gluconate kinase; Provisional	93.61
PTZ00088	229	adenylate kinase 1; Provisional	93.6
PRK06761	282	hypothetical protein; Provisional	93.6
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	93.58
PRK04328	249	hypothetical protein; Provisional	93.56
PRK14737	186	gmk guanylate kinase; Provisional	93.56
PRK11608	326	pspF phage shock protein operon transcriptional ac	93.55
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	93.54
PHA02530	300	pseT polynucleotide kinase; Provisional	93.53
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	93.53
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	93.51
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	93.5
cd03116	159	MobB Molybdenum is an essential trace element in t	93.49
PRK13695	174	putative NTPase; Provisional	93.49
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	93.48
cd03115	173	SRP The signal recognition particle (SRP) mediates	93.48
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	93.47
PRK08356	195	hypothetical protein; Provisional	93.45
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	93.43
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	93.42
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	93.41
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	93.38
PRK01184	184	hypothetical protein; Provisional	93.37
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	93.31
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	93.29
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	93.28
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	93.25
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	93.25
PRK13768	253	GTPase; Provisional	93.2
KOG1969	877	consensus DNA replication checkpoint protein CHL12	93.2
PRK08099	399	bifunctional DNA-binding transcriptional repressor	93.15
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	93.15
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	93.13
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	93.11
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	93.1
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	93.09
PRK12338	319	hypothetical protein; Provisional	93.05
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	93.03
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	93.02
PLN02165	334	adenylate isopentenyltransferase	93.01
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	93.01
PRK11823	446	DNA repair protein RadA; Provisional	92.98
PRK00279	215	adk adenylate kinase; Reviewed	92.97
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	92.97
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	92.96
COG2884	223	FtsE Predicted ATPase involved in cell division [C	92.96
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	92.94
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	92.93
PRK02496	184	adk adenylate kinase; Provisional	92.91
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	92.9
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	92.89
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	92.88
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	92.88
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	92.87
PF00005	137	ABC_tran: ABC transporter This structure is on hol	92.87
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	92.85
cd03114	148	ArgK-like The function of this protein family is u	92.83
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	92.83
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	92.82
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	92.81
PRK05973	237	replicative DNA helicase; Provisional	92.78
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	92.76
PRK04301	317	radA DNA repair and recombination protein RadA; Va	92.75
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	92.75
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	92.74
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	92.74
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	92.74
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	92.74
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	92.73
cd02034	116	CooC The accessory protein CooC, which contains a	92.7
PF13245	76	AAA_19: Part of AAA domain	92.68
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	92.67
COG1100	219	GTPase SAR1 and related small G proteins [General	92.66
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	92.65
PRK10867	433	signal recognition particle protein; Provisional	92.63
PRK14528	186	adenylate kinase; Provisional	92.61
PRK00698	205	tmk thymidylate kinase; Validated	92.56
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	92.56
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	92.55
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	92.52
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	92.52
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	92.52
TIGR01287	275	nifH nitrogenase iron protein. This model describe	92.5
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	92.49
PRK07429	327	phosphoribulokinase; Provisional	92.48
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	92.48
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	92.45
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	92.45
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	92.44
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	92.43
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	92.42
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	92.41
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	92.4
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	92.4
PHA02774	613	E1; Provisional	92.39
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	92.38
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	92.38
COG2204	464	AtoC Response regulator containing CheY-like recei	92.34
PRK13765	637	ATP-dependent protease Lon; Provisional	92.32
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	92.32
cd02117	212	NifH_like This family contains the NifH (iron prot	92.28
PLN02674	244	adenylate kinase	92.25
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	92.23
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	92.22
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	92.2
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	92.19
TIGR00101	199	ureG urease accessory protein UreG. This model rep	92.18
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	92.16
PRK04220	301	2-phosphoglycerate kinase; Provisional	92.16
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	92.16
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	92.11
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	92.09
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	92.08
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	92.07
PRK14730	195	coaE dephospho-CoA kinase; Provisional	92.07
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	92.04
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	92.03
KOG3354	191	consensus Gluconate kinase [Carbohydrate transport	92.03
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	92.02
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	92.0
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	91.98
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	91.94
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	91.93
PRK13230	279	nitrogenase reductase-like protein; Reviewed	91.89
PRK14494	229	putative molybdopterin-guanine dinucleotide biosyn	91.89
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	91.88
PRK06851	367	hypothetical protein; Provisional	91.86
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	91.85
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	91.83
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	91.83
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	91.82
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	91.8
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	91.79
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	91.79
cd03269	210	ABC_putative_ATPase This subfamily is involved in	91.78
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	91.78
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	91.78
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	91.77
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	91.76
PRK06851	367	hypothetical protein; Provisional	91.75
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	91.74
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	91.74
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	91.73
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	91.7
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	91.68
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	91.67
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	91.66
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	91.64
PRK10646	153	ADP-binding protein; Provisional	91.62
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	91.6
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	91.59
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	91.58
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	91.58
PLN03046	460	D-glycerate 3-kinase; Provisional	91.56
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	91.55
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	91.55
PRK14526	211	adenylate kinase; Provisional	91.54
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	91.53
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	91.53
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	91.52
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	91.52
cd02040	270	NifH NifH gene encodes component II (iron protein)	91.48
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	91.47
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	91.45
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	91.45
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	91.43
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	91.41
TIGR02236	310	recomb_radA DNA repair and recombination protein R	91.39
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	91.39
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	91.39
PRK14489	366	putative bifunctional molybdopterin-guanine dinucl	91.38
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	91.37
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	91.36
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	91.35

>PLN03210 Resistant to P

Probab=100.00  E-value=4.4e-88  Score=767.20  Aligned_cols=465  Identities=41%  Similarity=0.692  Sum_probs=424.9

Q ss_pred             CCCC-CCCCCCceeEEEcccccccCcchHHHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCccc
Q 041795            1 MAST-SFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYAS   79 (471)
Q Consensus         1 ~~~~-~~~~~~~~dvFiS~~~~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~   79 (471)
                      |++| |+++.++|||||||||+|+|++|++||+++|.++||.+|+|+ ++++|+.|.+++.+||++|+++|||||++|++
T Consensus         1 ~~~~~~~~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~-~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~   79 (1153)
T PLN03210          1 MASSSSSSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDN-EIERSQSLDPELKQAIRDSRIAVVVFSKNYAS   79 (1153)
T ss_pred             CCCCCCCCCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccC-CccCCCcccHHHHHHHHhCeEEEEEecCCccc
Confidence            6665 556889999999999999999999999999999999999988 79999999999999999999999999999999


Q ss_pred             chhhHHHHHHHHHhhhcCCCeEEeEEeecCCCcccccCCchHHHHHHHHhhh-HHHHHHHHHHHhhccccCCCCCCCchh
Q 041795           80 SKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQM-AEKVQKWRDALTEASNLSGWNSMTIRS  158 (471)
Q Consensus        80 S~wc~~El~~~~~~~~~~~~~viPif~~v~ps~vr~q~~~~~~~f~~~~~~~-~~~v~~w~~al~~~~~~~g~~~~~~~~  158 (471)
                      |.||++||++|++|+++.++.|+||||+|+|++||+|+|.||++|.+++.+. .+++++||+||+++++++|+++..+..
T Consensus        80 s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~~~~~~~~w~~al~~~~~~~g~~~~~~~~  159 (1153)
T PLN03210         80 SSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNKTEDEKIQWKQALTDVANILGYHSQNWPN  159 (1153)
T ss_pred             chHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhcccchhHHHHHHHHHHHHhCcCceecCCCCC
Confidence            9999999999999999999999999999999999999999999999988764 456999999999999999999998888


Q ss_pred             hhHHHHHHHHhhhhcccccccccCCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccce
Q 041795          159 EAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN  238 (471)
Q Consensus       159 e~~~i~~i~~~v~~~l~~~~~~~~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~  238 (471)
                      |+++|++|+++|+.++...++. +.+++|||++++++|..+|..+.+++++|+|+||||+||||||+++|+++..+|++.
T Consensus       160 E~~~i~~Iv~~v~~~l~~~~~~-~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~  238 (1153)
T PLN03210        160 EAKMIEEIANDVLGKLNLTPSN-DFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSS  238 (1153)
T ss_pred             HHHHHHHHHHHHHHhhccccCc-ccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeE
Confidence            9999999999999999877766 778999999999999999987777899999999999999999999999999999999


Q ss_pred             Eeeehh-----hh-----------------------hhhc---------------------CcccccCCHhhHHHHhcCC
Q 041795          239 CFLGNV-----RE-----------------------ESEK---------------------GVLDDVNKIGQLQYLTCGL  269 (471)
Q Consensus       239 ~~~~~~-----~~-----------------------~~~~---------------------~VLDdv~~~~~~~~l~~~~  269 (471)
                      +|+...     ..                       ....                     -||||||+..+|+.+....
T Consensus       239 vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~  318 (1153)
T PLN03210        239 VFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQT  318 (1153)
T ss_pred             EEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhC
Confidence            887531     00                       0000                     0899999999999999888


Q ss_pred             CCCCCCcEEEEEeCChhhhhhhCcCCCceEEeCCCCHHHHHHHHHhccccCCCCCchHHHHHHHH----------HHHHh
Q 041795          270 DRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRV----------LKVLG  339 (471)
Q Consensus       270 ~~~~~gs~IiiTTR~~~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~l~~~i----------l~~lg  339 (471)
                      .++++||+||||||++.++..+++  ..+|+++.|+.++|++||+++||++..+++++.++++++          ++++|
T Consensus       319 ~~~~~GsrIIiTTrd~~vl~~~~~--~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlg  396 (1153)
T PLN03210        319 QWFGSGSRIIVITKDKHFLRAHGI--DHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLG  396 (1153)
T ss_pred             ccCCCCcEEEEEeCcHHHHHhcCC--CeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHH
Confidence            889999999999999999988776  789999999999999999999998877777888888877          89999


Q ss_pred             hhhcCCCHHHHHHHHHHhcCCCCCchHhHHHhhccCCCh-hHHHHHcccccccCCCCHHHHHHhhcc--cCccchHHHHh
Q 041795          340 SFFHRKSKLDWEKALENISRISDPDIYDVLKISYNDLSL-EEKSIFLDIACFFAGEEKDYVTRMLDP--NFPHNGLNILI  416 (471)
Q Consensus       340 ~~L~~~~~~~w~~~l~~l~~~~~~~i~~~l~~Sy~~L~~-~~k~~fl~ls~Fp~~~~~~~l~~lw~~--~~~~~~l~~L~  416 (471)
                      ++|++++..+|+.++++++...+.+|..+|++||++|++ .+|.||++|||||.+.+.+.+..++..  +.+..+++.|+
T Consensus       397 s~L~~k~~~~W~~~l~~L~~~~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~l~~~~~~~~~~l~~L~  476 (1153)
T PLN03210        397 SYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLV  476 (1153)
T ss_pred             HHHcCCCHHHHHHHHHHHHhCccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHHHHhcCCCchhChHHHH
Confidence            999999999999999999888888899999999999987 599999999999999988887776655  56777899999


Q ss_pred             hCCCeeecCCCeEEecHHHHHHHHHHHHhhccCCCCCcccccccchHHHHhhcCC
Q 041795          417 AKSLVTVSNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYHVLKKNK  471 (471)
Q Consensus       417 ~~sLi~~~~~~~~~mHdlv~~~a~~i~~~e~~~~~~~~~rl~~~~d~~~~l~~~~  471 (471)
                      ++|||+++ .+++.||||+|+||++++++++ ..||+++|||+++|+++++.+|+
T Consensus       477 ~ksLi~~~-~~~~~MHdLl~~~~r~i~~~~~-~~~~~r~~l~~~~di~~vl~~~~  529 (1153)
T PLN03210        477 DKSLIHVR-EDIVEMHSLLQEMGKEIVRAQS-NEPGEREFLVDAKDICDVLEDNT  529 (1153)
T ss_pred             hcCCEEEc-CCeEEhhhHHHHHHHHHHHhhc-CCCCcceeEeCHHHHHHHHHhCc
Confidence            99999997 5789999999999999999997 78999999999999999998864

syringae 6; Provisional

>PLN03194 putative disease resistance protein; Provisional

Probab=100.00  E-value=3.4e-42  Score=301.71  Aligned_cols=161  Identities=31%  Similarity=0.510  Sum_probs=146.0

Q ss_pred             CCCCCCCCCceeEEEcccccccCcchHHHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccch
Q 041795            2 ASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSK   81 (471)
Q Consensus         2 ~~~~~~~~~~~dvFiS~~~~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~   81 (471)
                      .|+|+++..+|||||||+|+|+|++|++||+++|+++||++|+|++++++|+.|.++|.+||++|+++|+|||++|++|.
T Consensus        17 ~~~~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~   96 (187)
T PLN03194         17 YPSSSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESY   96 (187)
T ss_pred             cccCCCCCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccch
Confidence            46788889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhhhcCCCeEEeEEeecCCCccccc-CCchHHHHHHHHhhhHHHHHHHHHHHhhccccCCCCCCC-chhh
Q 041795           82 WCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQ-TGSFRDAFVKHKKQMAEKVQKWRDALTEASNLSGWNSMT-IRSE  159 (471)
Q Consensus        82 wc~~El~~~~~~~~~~~~~viPif~~v~ps~vr~q-~~~~~~~f~~~~~~~~~~v~~w~~al~~~~~~~g~~~~~-~~~e  159 (471)
                      ||++||++|+++.    ..|+||||+|+|++||+| .|..          ..+++++||+||.+++++.|+.+.. ...|
T Consensus        97 WCLdEL~~I~e~~----~~ViPIFY~VdPsdVr~q~~~~~----------~~e~v~~Wr~AL~~va~l~G~~~~~~~~~e  162 (187)
T PLN03194         97 FCLHELALIMESK----KRVIPIFCDVKPSQLRVVDNGTC----------PDEEIRRFNWALEEAKYTVGLTFDSLKGNW  162 (187)
T ss_pred             hHHHHHHHHHHcC----CEEEEEEecCCHHHhhccccCCC----------CHHHHHHHHHHHHHHhccccccCCCCCCCH
Confidence            9999999999864    479999999999999997 4432          2467999999999999999987754 3459


Q ss_pred             hHHHHHHHHhhhhcccc
Q 041795          160 AELVDVIVKDILKKLEN  176 (471)
Q Consensus       160 ~~~i~~i~~~v~~~l~~  176 (471)
                      ++++++|++.|.+++-.
T Consensus       163 ~e~i~~iv~~v~k~l~~  179 (187)
T PLN03194        163 SEVVTMASDAVIKNLIE  179 (187)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999999999877644

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.3e-40  Score=362.51  Aligned_cols=254  Identities=31%  Similarity=0.425  Sum_probs=222.4

Q ss_pred             cccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh---hhccccceEeeehhhhhhhcC------------
Q 041795          187 VGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL---IYKEFEGNCFLGNVREESEKG------------  251 (471)
Q Consensus       187 vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~---~~~~f~~~~~~~~~~~~~~~~------------  251 (471)
                      ||.+..++.+.+.|..++.  .+++|+||||+||||||+.++|+   +..+|+..+|+..++++....            
T Consensus       161 VG~e~~~~kl~~~L~~d~~--~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~  238 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDV--GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLL  238 (889)
T ss_pred             ccHHHHHHHHHHHhccCCC--CEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccC
Confidence            9999999999999985543  89999999999999999999997   568899999998765444321            


Q ss_pred             ---------------------------cccccCCHhhHHHHhcCCCCCCCCcEEEEEeCChhhhhh-hCcCCCceEEeCC
Q 041795          252 ---------------------------VLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDK-FGVHDTNVYEVNG  303 (471)
Q Consensus       252 ---------------------------VLDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~-~~~~~~~~~~l~~  303 (471)
                                                 ||||||+...|+.+..+++....||+|++|||++.|+.. +++  ...++++.
T Consensus       239 ~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~--~~~~~v~~  316 (889)
T KOG4658|consen  239 DEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGV--DYPIEVEC  316 (889)
T ss_pred             CcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccC--Cccccccc
Confidence                                       999999999999999999988889999999999999998 777  78999999


Q ss_pred             CCHHHHHHHHHhccccCC-CCCchHHHHHHHH----------HHHHhhhhcCC-CHHHHHHHHHHhcCC-----C--CCc
Q 041795          304 LRYHEALELFCNCAFKEN-HCPSGFLASSKRV----------LKVLGSFFHRK-SKLDWEKALENISRI-----S--DPD  364 (471)
Q Consensus       304 L~~~ea~~Lf~~~a~~~~-~~~~~~~~l~~~i----------l~~lg~~L~~~-~~~~w~~~l~~l~~~-----~--~~~  364 (471)
                      |+.+|||.||.+.+|... ...+.+.++++++          ++++|+.|+.| +..+|+.+.+.+.+.     +  .+.
T Consensus       317 L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~  396 (889)
T KOG4658|consen  317 LTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEES  396 (889)
T ss_pred             cCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhh
Confidence            999999999999998763 3334577777777          88999999987 688999999988664     1  246


Q ss_pred             hHhHHHhhccCCChhHHHHHcccccccCCC--CHHHHHHhhcc--c------------CccchHHHHhhCCCeeecCC--
Q 041795          365 IYDVLKISYNDLSLEEKSIFLDIACFFAGE--EKDYVTRMLDP--N------------FPHNGLNILIAKSLVTVSND--  426 (471)
Q Consensus       365 i~~~l~~Sy~~L~~~~k~~fl~ls~Fp~~~--~~~~l~~lw~~--~------------~~~~~l~~L~~~sLi~~~~~--  426 (471)
                      +..+|++|||.||++.|.||+|||+||+|+  +.+.|+.+|+|  |            .++.++++|+++||+.....  
T Consensus       397 i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~  476 (889)
T KOG4658|consen  397 ILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEG  476 (889)
T ss_pred             hHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhccccc
Confidence            899999999999999999999999999997  78999999999  2            25678999999999998652  


Q ss_pred             --CeEEecHHHHHHHHHHHH
Q 041795          427 --NKIQMHDLLQEMGREVVR  444 (471)
Q Consensus       427 --~~~~mHdlv~~~a~~i~~  444 (471)
                        ..|+|||+|||||..+++
T Consensus       477 ~~~~~kmHDvvRe~al~ias  496 (889)
T KOG4658|consen  477 RKETVKMHDVVREMALWIAS  496 (889)
T ss_pred             ceeEEEeeHHHHHHHHHHhc
Confidence              469999999999999999

>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 []

Probab=99.97  E-value=2.2e-32  Score=267.35  Aligned_cols=216  Identities=32%  Similarity=0.467  Sum_probs=166.1

Q ss_pred             cchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh--hhccccceEeeehhhhhhhc----------------
Q 041795          189 LNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL--IYKEFEGNCFLGNVREESEK----------------  250 (471)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~--~~~~f~~~~~~~~~~~~~~~----------------  250 (471)
                      ||.++++|.+.|....++.++|+|+||||+||||||.+++++  +..+|+.++|+.........                
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            788999999999876678999999999999999999999998  88999999998633211100                


Q ss_pred             -----C-------------------cccccCCHhhHHHHhcCCCCCCCCcEEEEEeCChhhhhhhCcCCCceEEeCCCCH
Q 041795          251 -----G-------------------VLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRY  306 (471)
Q Consensus       251 -----~-------------------VLDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~~~~~~~~~~~l~~L~~  306 (471)
                           .                   ||||||+...|+.+...++.++.||+||||||+..++..++.. ...|+|++|+.
T Consensus        81 ~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~-~~~~~l~~L~~  159 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGT-DKVIELEPLSE  159 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSC-EEEEECSS--H
T ss_pred             cccccccccccccchhhhccccceeeeeeecccccccccccccccccccccccccccccccccccccc-ccccccccccc
Confidence                 0                   9999999999998888877777899999999999988766421 46899999999


Q ss_pred             HHHHHHHHhccccCC-C----CCchHHHHHHHH------HHHHhhhhcCC-CHHHHHHHHHHhcCCC------CCchHhH
Q 041795          307 HEALELFCNCAFKEN-H----CPSGFLASSKRV------LKVLGSFFHRK-SKLDWEKALENISRIS------DPDIYDV  368 (471)
Q Consensus       307 ~ea~~Lf~~~a~~~~-~----~~~~~~~l~~~i------l~~lg~~L~~~-~~~~w~~~l~~l~~~~------~~~i~~~  368 (471)
                      +||++||.+.++... .    ..+...++++.+      ++++|++|+.+ +..+|..+++.+....      ...+..+
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~  239 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSA  239 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            999999999987544 1    123334555544      88999999553 6788999998765432      3569999


Q ss_pred             HHhhccCCChhHHHHHcccccccCCC--CHHHHHHhhcc
Q 041795          369 LKISYNDLSLEEKSIFLDIACFFAGE--EKDYVTRMLDP  405 (471)
Q Consensus       369 l~~Sy~~L~~~~k~~fl~ls~Fp~~~--~~~~l~~lw~~  405 (471)
                      +..||+.||++.|+||++||+||.+.  +.+.|+++|.+
T Consensus       240 l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~  278 (287)
T PF00931_consen  240 LELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVA  278 (287)
T ss_dssp             HHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT
T ss_pred             ceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHH
Confidence            99999999999999999999999986  68999999987

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

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

Probab=99.83  E-value=3.5e-22  Score=174.12  Aligned_cols=129  Identities=34%  Similarity=0.587  Sum_probs=109.2

Q ss_pred             EEEcccccccCcchHHHHHHHHHhC--CcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccchhhHHHHHHHH
Q 041795           14 VSLSFRGGDTRDNFTSHLYAALCRK--KIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKIL   91 (471)
Q Consensus        14 vFiS~~~~D~~~~f~~~l~~~L~~~--g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~   91 (471)
                      |||||++.|.+..|+++|..+|++.  |+++|++++|+.+|..+.++|.++|++|+++|+|||++|+.|.||+.|+..|+
T Consensus         1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~   80 (141)
T PF01582_consen    1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL   80 (141)
T ss_dssp             EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred             cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence            7999999444555999999999999  99999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCC--CeEEeEEeecCCCccc-ccCCchHHHHHHHHhhhH-----HHHHHHHHHH
Q 041795           92 ECKSTNG--QIVVPVFYHVDPSDVR-KQTGSFRDAFVKHKKQMA-----EKVQKWRDAL  142 (471)
Q Consensus        92 ~~~~~~~--~~viPif~~v~ps~vr-~q~~~~~~~f~~~~~~~~-----~~v~~w~~al  142 (471)
                      ++....+  ..|+|+|+++.+++++ .+.+.|...|........     .....|++++
T Consensus        81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~  139 (141)
T PF01582_consen   81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLR  139 (141)
T ss_dssp             HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHH
T ss_pred             hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHh
Confidence            9996644  8999999999999999 688888877765443222     2477888765

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

>smart00255 TIR Toll - interleukin 1 - resistance

Probab=99.83  E-value=1.2e-20  Score=164.11  Aligned_cols=134  Identities=41%  Similarity=0.659  Sum_probs=112.1

Q ss_pred             ceeEEEcccc-cccCcchHHHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccchhhHHHHHH
Q 041795           11 KYDVSLSFRG-GDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVK   89 (471)
Q Consensus        11 ~~dvFiS~~~-~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~   89 (471)
                      +|||||||++ ++....|+.+|...|...|+.+|.|++.  +|.....+|.++|++|+++|+|+||+|+.|.||..|+..
T Consensus         1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~--~~~~~~~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~   78 (140)
T smart00255        1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFE--PGGGDLEEIDEAIEKSRIAIVVLSPNYAESEWCLDELVA   78 (140)
T ss_pred             CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcc--cccchHHHHHHHHHHCcEEEEEECcccccChhHHHHHHH
Confidence            5999999999 4556889999999999999999999753  343333499999999999999999999999999999999


Q ss_pred             HHHhhhc-CCCeEEeEEeecCCCcccccCCchHHHHHHHHhhhHHHH--HHHHHHHhhcc
Q 041795           90 ILECKST-NGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQMAEKV--QKWRDALTEAS  146 (471)
Q Consensus        90 ~~~~~~~-~~~~viPif~~v~ps~vr~q~~~~~~~f~~~~~~~~~~v--~~w~~al~~~~  146 (471)
                      ++++... ...+||||+++..|..+..+.+.++..+..+..+..+..  ..|++.+..++
T Consensus        79 a~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~~fW~~~~~~l~  138 (140)
T smart00255       79 ALENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKERFWKKALYAVP  138 (140)
T ss_pred             HHHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhHHHHHHHHHHhc
Confidence            9988754 668999999999998899999999999887644443333  58888776654

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

Probab=99.65  E-value=6.9e-17  Score=132.54  Aligned_cols=91  Identities=30%  Similarity=0.563  Sum_probs=77.1

Q ss_pred             EEEcccccccCcchHHHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccchhhHHHHHHHHHh
Q 041795           14 VSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKILEC   93 (471)
Q Consensus        14 vFiS~~~~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~~   93 (471)
                      |||||+++|  ..++.+|.+.|+.+|+++|+|. ++.+|+.+.+.|.++|++|+.+|+++|++|..|+||..|+..+.+ 
T Consensus         1 VFIS~~~~D--~~~a~~l~~~L~~~g~~v~~d~-~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~-   76 (102)
T PF13676_consen    1 VFISYSSED--REFAERLAERLESAGIRVFLDR-DIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK-   76 (102)
T ss_dssp             EEEEEEGGG--CCCHHHHHHHHHHTT--EE-GG-EE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC-
T ss_pred             eEEEecCCc--HHHHHHHHHHHhhcCCEEEEEE-eCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH-
Confidence            899999999  6699999999999999999997 999999999999999999999999999999999999999998843 


Q ss_pred             hhcCCCeEEeEEeecCCCcc
Q 041795           94 KSTNGQIVVPVFYHVDPSDV  113 (471)
Q Consensus        94 ~~~~~~~viPif~~v~ps~v  113 (471)
                         .+..|+||.  +++.++
T Consensus        77 ---~~~~iipv~--~~~~~~   91 (102)
T PF13676_consen   77 ---RGKPIIPVR--LDPCEL   91 (102)
T ss_dssp             ---TSESEEEEE--CSGGGS
T ss_pred             ---CCCEEEEEE--ECCcCC
Confidence               445899998  444443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.05  E-value=8e-09  Score=116.86  Aligned_cols=252  Identities=16%  Similarity=0.168  Sum_probs=151.6

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehh-----------------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNV-----------------  244 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~-----------------  244 (471)
                      ....++-|..-++.|.+     ....+++.|.|++|.||||++..+....    +.++|+.--                 
T Consensus        12 ~~~~~~~R~rl~~~l~~-----~~~~~~~~v~apaG~GKTtl~~~~~~~~----~~~~w~~l~~~d~~~~~f~~~l~~~l   82 (903)
T PRK04841         12 RLHNTVVRERLLAKLSG-----ANNYRLVLVTSPAGYGKTTLISQWAAGK----NNLGWYSLDESDNQPERFASYLIAAL   82 (903)
T ss_pred             CccccCcchHHHHHHhc-----ccCCCeEEEECCCCCCHHHHHHHHHHhC----CCeEEEecCcccCCHHHHHHHHHHHH
Confidence            44567777755544432     3357899999999999999999987542    246675310                 


Q ss_pred             h----h---hhh-------------------------c----CcccccCCH---hhHHHHhcCCCCCCCCcEEEEEeCCh
Q 041795          245 R----E---ESE-------------------------K----GVLDDVNKI---GQLQYLTCGLDRFGPGSRIIITTRDK  285 (471)
Q Consensus       245 ~----~---~~~-------------------------~----~VLDdv~~~---~~~~~l~~~~~~~~~gs~IiiTTR~~  285 (471)
                      .    .   ...                         .    -||||+...   ...+.+...+....++.++|||||..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~  162 (903)
T PRK04841         83 QQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNL  162 (903)
T ss_pred             HHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCC
Confidence            0    0   000                         0    089998542   22222222223334677899999984


Q ss_pred             hhhh--hhCcCCCceEEeC----CCCHHHHHHHHHhccccCCCCCchHHHHHHHH------HHHHhhhhcCCCHHHHHHH
Q 041795          286 WILD--KFGVHDTNVYEVN----GLRYHEALELFCNCAFKENHCPSGFLASSKRV------LKVLGSFFHRKSKLDWEKA  353 (471)
Q Consensus       286 ~v~~--~~~~~~~~~~~l~----~L~~~ea~~Lf~~~a~~~~~~~~~~~~l~~~i------l~~lg~~L~~~~~~~w~~~  353 (471)
                      .-..  .... .....++.    +|+.+|+..||.... +..-+++....+.+..      +..++..+...... -...
T Consensus       163 ~~~~~~~l~~-~~~~~~l~~~~l~f~~~e~~~ll~~~~-~~~~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~-~~~~  239 (903)
T PRK04841        163 PPLGIANLRV-RDQLLEIGSQQLAFDHQEAQQFFDQRL-SSPIEAAESSRLCDDVEGWATALQLIALSARQNNSS-LHDS  239 (903)
T ss_pred             CCCchHhHHh-cCcceecCHHhCCCCHHHHHHHHHhcc-CCCCCHHHHHHHHHHhCChHHHHHHHHHHHhhCCCc-hhhh
Confidence            2111  1111 12345666    999999999998654 2222333344444433      44444333322110 0111


Q ss_pred             HHHhcCCCCCchHhHHHhh-ccCCChhHHHHHcccccccCCCCHHHHHHhhcccCccchHHHHhhCCCeee-cC-C-CeE
Q 041795          354 LENISRISDPDIYDVLKIS-YNDLSLEEKSIFLDIACFFAGEEKDYVTRMLDPNFPHNGLNILIAKSLVTV-SN-D-NKI  429 (471)
Q Consensus       354 l~~l~~~~~~~i~~~l~~S-y~~L~~~~k~~fl~ls~Fp~~~~~~~l~~lw~~~~~~~~l~~L~~~sLi~~-~~-~-~~~  429 (471)
                      ...+...+...+...+.-. ++.||++.+..++.+|+++ .++.+.+..+.....+...+..|.+.+++.. .+ + ..|
T Consensus       240 ~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~-~~~~~l~~~l~~~~~~~~~L~~l~~~~l~~~~~~~~~~~y  318 (903)
T PRK04841        240 ARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR-SMNDALIVRVTGEENGQMRLEELERQGLFIQRMDDSGEWF  318 (903)
T ss_pred             hHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc-cCCHHHHHHHcCCCcHHHHHHHHHHCCCeeEeecCCCCEE
Confidence            1122111234466665444 8899999999999999987 6666666666554556778999999999653 22 2 369


Q ss_pred             EecHHHHHHHHHHHHhh
Q 041795          430 QMHDLLQEMGREVVRQE  446 (471)
Q Consensus       430 ~mHdlv~~~a~~i~~~e  446 (471)
                      .+|+|++++.++....+
T Consensus       319 r~H~L~r~~l~~~l~~~  335 (903)
T PRK04841        319 RYHPLFASFLRHRCQWE  335 (903)
T ss_pred             ehhHHHHHHHHHHHHhc
Confidence            99999999999887544

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.91  E-value=1.9e-08  Score=99.18  Aligned_cols=241  Identities=14%  Similarity=0.119  Sum_probs=134.7

Q ss_pred             CCccccchhHHHHHHhhhcC---CCCceEEEEeccCcchhhhHHHHHHHhhhccccceE--eee---hhhhhh---hc-C
Q 041795          184 DGLVGLNSRIEKIKSLLCIG---RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC--FLG---NVREES---EK-G  251 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~--~~~---~~~~~~---~~-~  251 (471)
                      ..|+|+++.+++|..++...   ......+.++|++|+|||+||+.+++.....+....  ...   ......   .. .
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~   83 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDLAAILTNLEEGD   83 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcCchhHHHHHHhcccCC
Confidence            46999999999999888631   233567889999999999999999998654432110  000   111110   01 1


Q ss_pred             --cccccCCH--hhHHHHhcCCC-------------------CCCCCcEEEEEeCChhhhhhhCcCCCceEEeCCCCHHH
Q 041795          252 --VLDDVNKI--GQLQYLTCGLD-------------------RFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHE  308 (471)
Q Consensus       252 --VLDdv~~~--~~~~~l~~~~~-------------------~~~~gs~IiiTTR~~~v~~~~~~~~~~~~~l~~L~~~e  308 (471)
                        ++|++...  ...+.|...+.                   ...+.+-|..||+...+.......-...+++++++.++
T Consensus        84 vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e  163 (305)
T TIGR00635        84 VLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTVEE  163 (305)
T ss_pred             EEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceEEEeCCCCHHH
Confidence              78888632  22222321111                   01124555567776443332110003468999999999


Q ss_pred             HHHHHHhccccCC-CCCchHHHHHHHHHHHHhhhhcCC-C--HHHHHHHHHHhcCCC-C----CchHhHHHhhccCCChh
Q 041795          309 ALELFCNCAFKEN-HCPSGFLASSKRVLKVLGSFFHRK-S--KLDWEKALENISRIS-D----PDIYDVLKISYNDLSLE  379 (471)
Q Consensus       309 a~~Lf~~~a~~~~-~~~~~~~~l~~~il~~lg~~L~~~-~--~~~w~~~l~~l~~~~-~----~~i~~~l~~Sy~~L~~~  379 (471)
                      ..+++.+.+.... ..+   .+....+++..++..+.- .  ..-|... ....... .    ......+..+|..|+..
T Consensus       164 ~~~il~~~~~~~~~~~~---~~al~~ia~~~~G~pR~~~~ll~~~~~~a-~~~~~~~it~~~v~~~l~~l~~~~~~l~~~  239 (305)
T TIGR00635       164 LAEIVSRSAGLLNVEIE---PEAALEIARRSRGTPRIANRLLRRVRDFA-QVRGQKIINRDIALKALEMLMIDELGLDEI  239 (305)
T ss_pred             HHHHHHHHHHHhCCCcC---HHHHHHHHHHhCCCcchHHHHHHHHHHHH-HHcCCCCcCHHHHHHHHHHhCCCCCCCCHH
Confidence            9999988764322 111   223333444444433210 0  0111110 0011110 0    12233356678899998


Q ss_pred             HHHHHc-ccccccCC-CCHHHHHHhhcc--cCccchHH-HHhhCCCeeecCCCe
Q 041795          380 EKSIFL-DIACFFAG-EEKDYVTRMLDP--NFPHNGLN-ILIAKSLVTVSNDNK  428 (471)
Q Consensus       380 ~k~~fl-~ls~Fp~~-~~~~~l~~lw~~--~~~~~~l~-~L~~~sLi~~~~~~~  428 (471)
                      ++..+. .++.+..+ ...+.+...+..  ......++ .|++++||.....|+
T Consensus       240 ~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li~~~~~g~  293 (305)
T TIGR00635       240 DRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQRTPRGR  293 (305)
T ss_pred             HHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHHHHcCCcccCCchh
Confidence            887666 55666544 577888887766  55666688 699999998654443

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

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

Probab=98.85  E-value=9.3e-09  Score=101.33  Aligned_cols=92  Identities=26%  Similarity=0.453  Sum_probs=77.9

Q ss_pred             CCCceeEEEcccccccCcchHHHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCccc--------
Q 041795            8 SSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYAS--------   79 (471)
Q Consensus         8 ~~~~~dvFiS~~~~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~--------   79 (471)
                      ...+.||||||+.. +..+.++.|.-.|.-+|++||+|-+.+..|. +.+.+.+.|..++.+|+|+|||.+.        
T Consensus       609 ~skq~DVFISYRRs-tGnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~nC  686 (832)
T KOG3678|consen  609 LSKQIDVFISYRRS-TGNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNC  686 (832)
T ss_pred             ccCCcceEEEeecc-ccHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhccccH
Confidence            34679999999876 5677999999999999999999998898887 6799999999999999999998653        


Q ss_pred             chhhHHHHHHHHHhhhcCCCeEEeEE
Q 041795           80 SKWCLHELVKILECKSTNGQIVVPVF  105 (471)
Q Consensus        80 S~wc~~El~~~~~~~~~~~~~viPif  105 (471)
                      -.|...|+..+++|++    .|+|||
T Consensus       687 eDWVHKEl~~Afe~~K----NIiPI~  708 (832)
T KOG3678|consen  687 EDWVHKELKCAFEHQK----NIIPIF  708 (832)
T ss_pred             HHHHHHHHHHHHHhcC----Ceeeee
Confidence            3466667777776664    599998

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.85  E-value=1.8e-08  Score=100.38  Aligned_cols=243  Identities=16%  Similarity=0.116  Sum_probs=137.1

Q ss_pred             CCCCccccchhHHHHHHhhhc---CCCCceEEEEeccCcchhhhHHHHHHHhhhccccce--Eeeehhh---hhh---hc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI---GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN--CFLGNVR---EES---EK  250 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~--~~~~~~~---~~~---~~  250 (471)
                      ...+|+|++..++.+..++..   .......+.|+|++|+|||+||+.+++.....+...  ..+....   ...   ..
T Consensus        23 ~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~  102 (328)
T PRK00080         23 SLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPGDLAAILTNLEE  102 (328)
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccChHHHHHHHHhccc
Confidence            446799999999999888763   233466789999999999999999999865433211  1111111   100   01


Q ss_pred             C---cccccCCHh--hHHHHhcCCCC-------------------CCCCcEEEEEeCChhhhhhhCcCCCceEEeCCCCH
Q 041795          251 G---VLDDVNKIG--QLQYLTCGLDR-------------------FGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRY  306 (471)
Q Consensus       251 ~---VLDdv~~~~--~~~~l~~~~~~-------------------~~~gs~IiiTTR~~~v~~~~~~~~~~~~~l~~L~~  306 (471)
                      +   ++|+++...  ..+.+...+..                   ..+.+-|..||+...+.......-...+++++++.
T Consensus       103 ~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~  182 (328)
T PRK00080        103 GDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIVQRLEFYTV  182 (328)
T ss_pred             CCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCeeeecCCCCH
Confidence            1   788886321  22222111100                   01234455677754433221100034689999999


Q ss_pred             HHHHHHHHhccccCCCCCchHHHHHHHHHHHHhhhhcCC-----CHHHHHHHHHHhcCCCC---CchHhHHHhhccCCCh
Q 041795          307 HEALELFCNCAFKENHCPSGFLASSKRVLKVLGSFFHRK-----SKLDWEKALENISRISD---PDIYDVLKISYNDLSL  378 (471)
Q Consensus       307 ~ea~~Lf~~~a~~~~~~~~~~~~l~~~il~~lg~~L~~~-----~~~~w~~~l~~l~~~~~---~~i~~~l~~Sy~~L~~  378 (471)
                      ++..+++.+.+-......  -.+....+++..++..+.-     ....|.... .-.....   ......+...+..|++
T Consensus       183 ~e~~~il~~~~~~~~~~~--~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~-~~~~I~~~~v~~~l~~~~~~~~~l~~  259 (328)
T PRK00080        183 EELEKIVKRSARILGVEI--DEEGALEIARRSRGTPRIANRLLRRVRDFAQVK-GDGVITKEIADKALDMLGVDELGLDE  259 (328)
T ss_pred             HHHHHHHHHHHHHcCCCc--CHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHhCCCcCCCCH
Confidence            999999998764322111  1223334444444333210     011111110 0000011   1234556777889999


Q ss_pred             hHHHHHc-ccccccCC-CCHHHHHHhhcc--cCccchHH-HHhhCCCeeecCCC
Q 041795          379 EEKSIFL-DIACFFAG-EEKDYVTRMLDP--NFPHNGLN-ILIAKSLVTVSNDN  427 (471)
Q Consensus       379 ~~k~~fl-~ls~Fp~~-~~~~~l~~lw~~--~~~~~~l~-~L~~~sLi~~~~~~  427 (471)
                      ..+..+. .+..|+.+ ...+.+...+..  ...++.++ .|++.+||+....|
T Consensus       260 ~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~Li~~~li~~~~~g  313 (328)
T PRK00080        260 MDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLIQQGFIQRTPRG  313 (328)
T ss_pred             HHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHHHHcCCcccCCch
Confidence            8888775 66677755 477888887766  45566777 99999999865444

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.56  E-value=1.7e-06  Score=88.52  Aligned_cols=235  Identities=19%  Similarity=0.120  Sum_probs=127.0

Q ss_pred             CCCCccccchhHHHHHHhhhcC--CCCceEEEEeccCcchhhhHHHHHHHhhhcccc--ceEeeehhh------------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIG--RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE--GNCFLGNVR------------  245 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~--~~~~~~~~~------------  245 (471)
                      .++.++||++++++|...|...  +.....+.|+|.+|+|||++++.+++.+.....  ..+++....            
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            5577999999999999988532  233456789999999999999999988654321  122222100            


Q ss_pred             -hhh-----------------------hcC-----cccccCCHh------hHHHHhcCCCCCCCCcE--EEEEeCChhhh
Q 041795          246 -EES-----------------------EKG-----VLDDVNKIG------QLQYLTCGLDRFGPGSR--IIITTRDKWIL  288 (471)
Q Consensus       246 -~~~-----------------------~~~-----VLDdv~~~~------~~~~l~~~~~~~~~gs~--IiiTTR~~~v~  288 (471)
                       +..                       ..+     |||+++...      .+..|....... .+++  +|.++.+..+.
T Consensus       108 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~-~~~~v~vI~i~~~~~~~  186 (394)
T PRK00411        108 RQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEY-PGARIGVIGISSDLTFL  186 (394)
T ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhcc-CCCeEEEEEEECCcchh
Confidence             000                       000     789997532      344444332221 2333  56666654433


Q ss_pred             hhhC-----cCCCceEEeCCCCHHHHHHHHHhccc---cCCCCC-chHHHHHHHHHHHHhhh------h---------cC
Q 041795          289 DKFG-----VHDTNVYEVNGLRYHEALELFCNCAF---KENHCP-SGFLASSKRVLKVLGSF------F---------HR  344 (471)
Q Consensus       289 ~~~~-----~~~~~~~~l~~L~~~ea~~Lf~~~a~---~~~~~~-~~~~~l~~~il~~lg~~------L---------~~  344 (471)
                      ....     ......+.+++++.++..+++..++-   ...... +.+..+++.....-|..      +         .+
T Consensus       187 ~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~  266 (394)
T PRK00411        187 YILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREG  266 (394)
T ss_pred             hhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcC
Confidence            2211     00124679999999999999887652   222222 22222322221101110      0         00


Q ss_pred             C---CHHHHHHHHHHhcCCCCCchHhHHHhhccCCChhHHHHHccccccc----CCCCHHHHHHh-------hcc-----
Q 041795          345 K---SKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFF----AGEEKDYVTRM-------LDP-----  405 (471)
Q Consensus       345 ~---~~~~w~~~l~~l~~~~~~~i~~~l~~Sy~~L~~~~k~~fl~ls~Fp----~~~~~~~l~~l-------w~~-----  405 (471)
                      .   +......+++..       -.....-.+..||.++|..+..++-.-    .......+.+.       ...     
T Consensus       267 ~~~I~~~~v~~a~~~~-------~~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~~~~~  339 (394)
T PRK00411        267 SRKVTEEDVRKAYEKS-------EIVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYEPRTH  339 (394)
T ss_pred             CCCcCHHHHHHHHHHH-------HHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCCcCcH
Confidence            0   233333333332       122344567899998888877666332    22333333322       111     


Q ss_pred             cCccchHHHHhhCCCeeec
Q 041795          406 NFPHNGLNILIAKSLVTVS  424 (471)
Q Consensus       406 ~~~~~~l~~L~~~sLi~~~  424 (471)
                      .....+++.|.+.|||...
T Consensus       340 ~~~~~~l~~L~~~glI~~~  358 (394)
T PRK00411        340 TRFYEYINKLDMLGIINTR  358 (394)
T ss_pred             HHHHHHHHHHHhcCCeEEE
Confidence            1123589999999999864

>PF05729 NACHT: NACHT domain

Probab=98.55  E-value=2.6e-07  Score=81.98  Aligned_cols=107  Identities=21%  Similarity=0.275  Sum_probs=68.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccc------cceEeeehh--hh---------hhhc--------------------
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEF------EGNCFLGNV--RE---------ESEK--------------------  250 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f------~~~~~~~~~--~~---------~~~~--------------------  250 (471)
                      |++.|+|.+|+||||+++.++..+....      ...+|+..-  ..         ....                    
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   80 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKN   80 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcC
Confidence            5789999999999999999998865443      233333210  00         0000                    


Q ss_pred             ----CcccccCCHhh---------HHHHh-cCCCC-CCCCcEEEEEeCChhh---hhhhCcCCCceEEeCCCCHHHHHHH
Q 041795          251 ----GVLDDVNKIGQ---------LQYLT-CGLDR-FGPGSRIIITTRDKWI---LDKFGVHDTNVYEVNGLRYHEALEL  312 (471)
Q Consensus       251 ----~VLDdv~~~~~---------~~~l~-~~~~~-~~~gs~IiiTTR~~~v---~~~~~~~~~~~~~l~~L~~~ea~~L  312 (471)
                          -|||++++...         +..++ ..+.. ..+++++|||+|....   ......  ...+++.+|+.++..++
T Consensus        81 ~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~  158 (166)
T PF05729_consen   81 KRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQ--AQILELEPFSEEDIKQY  158 (166)
T ss_pred             CceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCC--CcEEEECCCCHHHHHHH
Confidence                07888864321         22222 22221 2468999999998766   223333  46899999999999998


Q ss_pred             HHhc
Q 041795          313 FCNC  316 (471)
Q Consensus       313 f~~~  316 (471)
                      +.+.
T Consensus       159 ~~~~  162 (166)
T PF05729_consen  159 LRKY  162 (166)
T ss_pred             HHHH
Confidence            8764

>PRK06893 DNA replication initiation factor; Validated

Probab=98.52  E-value=4.5e-07  Score=85.53  Aligned_cols=112  Identities=16%  Similarity=0.248  Sum_probs=72.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhh--hh----hhc------CcccccCCH---hhHH-HHhcCCC
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVR--EE----SEK------GVLDDVNKI---GQLQ-YLTCGLD  270 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~--~~----~~~------~VLDdv~~~---~~~~-~l~~~~~  270 (471)
                      .+.+.|+|.+|+|||+|++.+++....+.....|+....  ..    ...      -+|||++..   ..|+ .+...++
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~dlLilDDi~~~~~~~~~~~~l~~l~n  118 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQYFSPAVLENLEQQDLVCLDDLQAVIGNEEWELAIFDLFN  118 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhhhhHHHHhhcccCCEEEEeChhhhcCChHHHHHHHHHHH
Confidence            457899999999999999999998655545556665421  10    000      189999742   3343 2222222


Q ss_pred             CC-CCCcEEEEE-eCC---------hhhhhhhCcCCCceEEeCCCCHHHHHHHHHhccccC
Q 041795          271 RF-GPGSRIIIT-TRD---------KWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKE  320 (471)
Q Consensus       271 ~~-~~gs~IiiT-TR~---------~~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~  320 (471)
                      .. ..|+.+||+ +..         +.+...+..  ...+++++++.++.++++.+.+...
T Consensus       119 ~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~--g~~~~l~~pd~e~~~~iL~~~a~~~  177 (229)
T PRK06893        119 RIKEQGKTLLLISADCSPHALSIKLPDLASRLTW--GEIYQLNDLTDEQKIIVLQRNAYQR  177 (229)
T ss_pred             HHHHcCCcEEEEeCCCChHHccccchhHHHHHhc--CCeeeCCCCCHHHHHHHHHHHHHHc
Confidence            11 235666554 443         355555554  5689999999999999999888643

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

Probab=98.45  E-value=4e-07  Score=85.47  Aligned_cols=45  Identities=31%  Similarity=0.485  Sum_probs=36.9

Q ss_pred             ccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          186 LVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      |+||+.++++|.+++..+  ..+.+.|+|+.|+|||+|++.+.+...
T Consensus         1 F~gR~~el~~l~~~l~~~--~~~~~~l~G~rg~GKTsLl~~~~~~~~   45 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG--PSQHILLYGPRGSGKTSLLKEFINELK   45 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHCT
T ss_pred             CCCHHHHHHHHHHHHHhh--cCcEEEEEcCCcCCHHHHHHHHHHHhh
Confidence            799999999999988743  357899999999999999999998763

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.45  E-value=4.2e-06  Score=89.30  Aligned_cols=252  Identities=17%  Similarity=0.196  Sum_probs=141.7

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhhhhhhc------------
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEK------------  250 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~~~~~~------------  250 (471)
                      ..+.|-|..-++.|.+     ..+.+.+.|.-+.|-|||||+.+... ....=..+.|+.-..+....            
T Consensus        18 ~~~~v~R~rL~~~L~~-----~~~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wlslde~dndp~rF~~yLi~al~   91 (894)
T COG2909          18 PDNYVVRPRLLDRLRR-----ANDYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLSLDESDNDPARFLSYLIAALQ   91 (894)
T ss_pred             cccccccHHHHHHHhc-----CCCceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEeecCCccCCHHHHHHHHHHHHH
Confidence            3556667655544443     34689999999999999999999987 33444556775411110000            


Q ss_pred             ------C-----------------------------------cccccC---CHhhHHHHhcCCCCCCCCcEEEEEeCChh
Q 041795          251 ------G-----------------------------------VLDDVN---KIGQLQYLTCGLDRFGPGSRIIITTRDKW  286 (471)
Q Consensus       251 ------~-----------------------------------VLDdv~---~~~~~~~l~~~~~~~~~gs~IiiTTR~~~  286 (471)
                            +                                   ||||..   ++..-..+.-.+....++-..|+|||...
T Consensus        92 ~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP  171 (894)
T COG2909          92 QATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRP  171 (894)
T ss_pred             HhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCC
Confidence                  0                                   889964   33322222222333457888999999874


Q ss_pred             hhhhhCc-CCCceEEeC----CCCHHHHHHHHHhccccCCCCCchHHHHHHHH------HHHHhhhhcC-CCHHHHHHHH
Q 041795          287 ILDKFGV-HDTNVYEVN----GLRYHEALELFCNCAFKENHCPSGFLASSKRV------LKVLGSFFHR-KSKLDWEKAL  354 (471)
Q Consensus       287 v~~~~~~-~~~~~~~l~----~L~~~ea~~Lf~~~a~~~~~~~~~~~~l~~~i------l~~lg~~L~~-~~~~~w~~~l  354 (471)
                      -...... -.+...+++    .++.+|+-++|.... +..-...+...+....      +...+=.+++ .+...-   +
T Consensus       172 ~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~-~l~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~---~  247 (894)
T COG2909         172 QLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRG-SLPLDAADLKALYDRTEGWAAALQLIALALRNNTSAEQS---L  247 (894)
T ss_pred             CCcccceeehhhHHhcChHhhcCChHHHHHHHHHcC-CCCCChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHH---h
Confidence            3221110 002233333    489999999888754 1222223444444433      2222222221 121111   1


Q ss_pred             HHhcCCCCCchHhH-HHhhccCCChhHHHHHcccccccCCCCHHHHHH-hhcccCccchHHHHhhCCCeee--c-CCCeE
Q 041795          355 ENISRISDPDIYDV-LKISYNDLSLEEKSIFLDIACFFAGEEKDYVTR-MLDPNFPHNGLNILIAKSLVTV--S-NDNKI  429 (471)
Q Consensus       355 ~~l~~~~~~~i~~~-l~~Sy~~L~~~~k~~fl~ls~Fp~~~~~~~l~~-lw~~~~~~~~l~~L~~~sLi~~--~-~~~~~  429 (471)
                      ..+... ...+.+- ..--++.||++.|..++-+|+++.--  +.|+. +-....+...+++|.+++|+-+  + +++.|
T Consensus       248 ~~LsG~-~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~~f~--~eL~~~Ltg~~ng~amLe~L~~~gLFl~~Ldd~~~Wf  324 (894)
T COG2909         248 RGLSGA-ASHLSDYLVEEVLDRLPPELRDFLLQTSVLSRFN--DELCNALTGEENGQAMLEELERRGLFLQRLDDEGQWF  324 (894)
T ss_pred             hhccch-HHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh--HHHHHHHhcCCcHHHHHHHHHhCCCceeeecCCCcee
Confidence            111000 0111111 23346889999999999999985321  22222 2222456667999999999874  3 25569


Q ss_pred             EecHHHHHHHHHHHHhhc
Q 041795          430 QMHDLLQEMGREVVRQEC  447 (471)
Q Consensus       430 ~mHdlv~~~a~~i~~~e~  447 (471)
                      +.|.|+.||-+.--+.+.
T Consensus       325 ryH~LFaeFL~~r~~~~~  342 (894)
T COG2909         325 RYHHLFAEFLRQRLQREL  342 (894)
T ss_pred             ehhHHHHHHHHhhhcccc
Confidence            999999999987766653

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.39  E-value=1.8e-05  Score=80.02  Aligned_cols=51  Identities=25%  Similarity=0.257  Sum_probs=42.3

Q ss_pred             CCCCccccchhHHHHHHhhhc--CCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI--GRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++.++||++++++|...|..  .+.....+.|+|++|+|||++++.+++.+.
T Consensus        13 ~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~   65 (365)
T TIGR02928        13 VPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELE   65 (365)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHH
Confidence            456799999999999998863  223456789999999999999999998754

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

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

Probab=98.39  E-value=9.1e-07  Score=86.96  Aligned_cols=123  Identities=26%  Similarity=0.361  Sum_probs=82.2

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEe----eehhhhhhhc-------C-
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF----LGNVREESEK-------G-  251 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~----~~~~~~~~~~-------~-  251 (471)
                      .+++|-...+.++.+     .+.+...-+||++|+||||||+.+.......|...-=    +..+++....       | 
T Consensus        30 ~HLlg~~~~lrr~v~-----~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~~gvkdlr~i~e~a~~~~~~gr  104 (436)
T COG2256          30 EHLLGEGKPLRRAVE-----AGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTSGVKDLREIIEEARKNRLLGR  104 (436)
T ss_pred             HhhhCCCchHHHHHh-----cCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccccccHHHHHHHHHHHHHHHhcCC
Confidence            345555555554443     4457788899999999999999999987777653211    1222222111       1 


Q ss_pred             ----cccccC--CHhhHHHHhcCCCCCCCCcEEEE--EeCChhhhh---hhCcCCCceEEeCCCCHHHHHHHHHhc
Q 041795          252 ----VLDDVN--KIGQLQYLTCGLDRFGPGSRIII--TTRDKWILD---KFGVHDTNVYEVNGLRYHEALELFCNC  316 (471)
Q Consensus       252 ----VLDdv~--~~~~~~~l~~~~~~~~~gs~Iii--TTR~~~v~~---~~~~~~~~~~~l~~L~~~ea~~Lf~~~  316 (471)
                          ++|.|.  +..|-+.|++.+.   .|.-|+|  ||.|+...-   ....  ..++++++|+.++-..++.+-
T Consensus       105 ~tiLflDEIHRfnK~QQD~lLp~vE---~G~iilIGATTENPsF~ln~ALlSR--~~vf~lk~L~~~di~~~l~ra  175 (436)
T COG2256         105 RTILFLDEIHRFNKAQQDALLPHVE---NGTIILIGATTENPSFELNPALLSR--ARVFELKPLSSEDIKKLLKRA  175 (436)
T ss_pred             ceEEEEehhhhcChhhhhhhhhhhc---CCeEEEEeccCCCCCeeecHHHhhh--hheeeeecCCHHHHHHHHHHH
Confidence                789995  6667777876654   6777777  787764321   1112  578999999999999998873

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.27  E-value=3.5e-06  Score=85.25  Aligned_cols=147  Identities=25%  Similarity=0.259  Sum_probs=88.0

Q ss_pred             CCccccchhHHHHHHhhhcC-----------CCCceEEEEeccCcchhhhHHHHHHHhhhccccceEe-------eeh--
Q 041795          184 DGLVGLNSRIEKIKSLLCIG-----------RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF-------LGN--  243 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~-------~~~--  243 (471)
                      .++.|+++.+++|.+.+...           -...+-+.|+|++|+|||+||+.+++.....|-....       +..  
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~~~g~~~  201 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGEGA  201 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHHhhhHHH
Confidence            46899999999998876421           1235569999999999999999999986655422211       000  


Q ss_pred             --hhhhh---hc-----CcccccCCH----------------hhHHHHhcCCCCC--CCCcEEEEEeCChhhh-----hh
Q 041795          244 --VREES---EK-----GVLDDVNKI----------------GQLQYLTCGLDRF--GPGSRIIITTRDKWIL-----DK  290 (471)
Q Consensus       244 --~~~~~---~~-----~VLDdv~~~----------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~v~-----~~  290 (471)
                        ++...   ..     -+||+++..                ..+..++..+...  ..+.+||.||......     ..
T Consensus       202 ~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~  281 (364)
T TIGR01242       202 RLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRP  281 (364)
T ss_pred             HHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCc
Confidence              00000   00     178888632                1223333323221  2467788888754322     21


Q ss_pred             hCcCCCceEEeCCCCHHHHHHHHHhccccCCCC-CchHHHHHH
Q 041795          291 FGVHDTNVYEVNGLRYHEALELFCNCAFKENHC-PSGFLASSK  332 (471)
Q Consensus       291 ~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~-~~~~~~l~~  332 (471)
                      ...  ...++++..+.++..++|..++.+.... ..++..++.
T Consensus       282 grf--d~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~~~~la~  322 (364)
T TIGR01242       282 GRF--DRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAK  322 (364)
T ss_pred             ccC--ceEEEeCCcCHHHHHHHHHHHHhcCCCCccCCHHHHHH
Confidence            122  4578999999999999998877543322 124444444

Many proteins may score above the trusted cutoff because an internal

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

Probab=98.24  E-value=2e-06  Score=73.53  Aligned_cols=89  Identities=21%  Similarity=0.376  Sum_probs=46.9

Q ss_pred             eeEEEcccccccCcchHHHHHHHHHhC-------Ccce-ee---------cCCCCCCCCCCcHHHHHHhhhcceEEEEEc
Q 041795           12 YDVSLSFRGGDTRDNFTSHLYAALCRK-------KIKT-FI---------NGDEIRRGDDISPALFTAIQGSKISVIVLS   74 (471)
Q Consensus        12 ~dvFiS~~~~D~~~~f~~~l~~~L~~~-------g~~~-~~---------d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S   74 (471)
                      |.|||||++.|... .+..|...+...       .+.. |.         +..+....+.+...|.++|.+|.++||++|
T Consensus         1 ~~vFIS~~~~d~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig   79 (130)
T PF08937_consen    1 YKVFISYSHDDDDW-YYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG   79 (130)
T ss_dssp             ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred             CCccccccccCcHH-HHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence            57999999999442 677777777763       2221 11         222222344788899999999999999999


Q ss_pred             cCcccchhhHHHHHHHHHhhhcCCCeEEeEE
Q 041795           75 KHYASSKWCLHELVKILECKSTNGQIVVPVF  105 (471)
Q Consensus        75 ~~y~~S~wc~~El~~~~~~~~~~~~~viPif  105 (471)
                      ++-..|.|+.+|+..+++    .+..|+.|-
T Consensus        80 ~~T~~s~wV~~EI~~A~~----~~~~Ii~V~  106 (130)
T PF08937_consen   80 PNTAKSKWVNWEIEYALK----KGKPIIGVY  106 (130)
T ss_dssp             TT----HHHHHHHHHHTT----T---EEEEE
T ss_pred             CCcccCcHHHHHHHHHHH----CCCCEEEEE
Confidence            999999999999998876    334566653

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

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.20  E-value=6.7e-06  Score=77.24  Aligned_cols=130  Identities=21%  Similarity=0.267  Sum_probs=78.3

Q ss_pred             CCccc--cchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhhhh---------hhc--
Q 041795          184 DGLVG--LNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREE---------SEK--  250 (471)
Q Consensus       184 ~~~vG--r~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~~~---------~~~--  250 (471)
                      ++|++  ....++.+.+++.  ......+.|+|.+|+|||+||+.+++..........++....-.         ...  
T Consensus        15 ~~~~~~~~~~~~~~l~~~~~--~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~   92 (226)
T TIGR03420        15 DNFYAGGNAELLAALRQLAA--GKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQADPEVLEGLEQAD   92 (226)
T ss_pred             cCcCcCCcHHHHHHHHHHHh--cCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHhHHHHHhhcccCC
Confidence            44552  3446677777654  23467899999999999999999998865443344455422210         011  


Q ss_pred             -CcccccCCHh---h-HHHHhcCCCC-CCCCcEEEEEeCChh---------hhhhhCcCCCceEEeCCCCHHHHHHHHHh
Q 041795          251 -GVLDDVNKIG---Q-LQYLTCGLDR-FGPGSRIIITTRDKW---------ILDKFGVHDTNVYEVNGLRYHEALELFCN  315 (471)
Q Consensus       251 -~VLDdv~~~~---~-~~~l~~~~~~-~~~gs~IiiTTR~~~---------v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~  315 (471)
                       -||||++...   . .+.|...+.. ...+.++|+||+...         +...+..  ...+++++++.++...++..
T Consensus        93 lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~--~~~i~l~~l~~~e~~~~l~~  170 (226)
T TIGR03420        93 LVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAW--GLVFQLPPLSDEEKIAALQS  170 (226)
T ss_pred             EEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhc--CeeEecCCCCHHHHHHHHHH
Confidence             1789996432   2 2333322221 123457888887532         2222222  35789999999998988876


Q ss_pred             cc
Q 041795          316 CA  317 (471)
Q Consensus       316 ~a  317 (471)
                      .+
T Consensus       171 ~~  172 (226)
T TIGR03420       171 RA  172 (226)
T ss_pred             HH
Confidence            54

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

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.13  E-value=2e-05  Score=84.42  Aligned_cols=134  Identities=17%  Similarity=0.188  Sum_probs=89.5

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc---------------------cccceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK---------------------EFEGNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~---------------------~f~~~~~  240 (471)
                      ..++++|.+..++.|.+++..+. -...+.++|..|+||||+|+.+.+.+..                     .|...+.
T Consensus        14 tFdEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviE   92 (830)
T PRK07003         14 DFASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVE   92 (830)
T ss_pred             cHHHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEE
Confidence            33578999999999999887432 2456679999999999999998886532                     1222333


Q ss_pred             eeh--------hhhhhhc------------CcccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCChhhh-hhhCcCCCc
Q 041795          241 LGN--------VREESEK------------GVLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRDKWIL-DKFGVHDTN  297 (471)
Q Consensus       241 ~~~--------~~~~~~~------------~VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~v~-~~~~~~~~~  297 (471)
                      ++.        +++....            -|||+++..  ..++.|+..+.......++|+||.+..-. ..+. ....
T Consensus        93 IDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIr-SRCq  171 (830)
T PRK07003         93 MDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVL-SRCL  171 (830)
T ss_pred             ecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhh-hheE
Confidence            322        1111111            189999743  45777777666555678888888775432 1111 1146


Q ss_pred             eEEeCCCCHHHHHHHHHhcc
Q 041795          298 VYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .+.++.++.++..+.+.+..
T Consensus       172 ~f~Fk~Ls~eeIv~~L~~Il  191 (830)
T PRK07003        172 QFNLKQMPAGHIVSHLERIL  191 (830)
T ss_pred             EEecCCcCHHHHHHHHHHHH
Confidence            79999999999998887765

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.08  E-value=1.4e-05  Score=82.27  Aligned_cols=128  Identities=23%  Similarity=0.327  Sum_probs=79.8

Q ss_pred             CCCccccchhHHH---HHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEee----ehhhhhh-------
Q 041795          183 FDGLVGLNSRIEK---IKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL----GNVREES-------  248 (471)
Q Consensus       183 ~~~~vGr~~~~~~---l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~----~~~~~~~-------  248 (471)
                      .++++|.+..+..   +.+++..  .....+.|+|++|+||||||+.+++.....|...--.    ..+++..       
T Consensus        11 l~d~vGq~~~v~~~~~L~~~i~~--~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~~~~~ir~ii~~~~~~~   88 (413)
T PRK13342         11 LDEVVGQEHLLGPGKPLRRMIEA--GRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTSGVKDLREVIEEARQRR   88 (413)
T ss_pred             HHHhcCcHHHhCcchHHHHHHHc--CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccccHHHHHHHHHHHHHhh
Confidence            3568898877665   7777753  3456788999999999999999998765554321111    1111111       


Q ss_pred             h--c---CcccccCC--HhhHHHHhcCCCCCCCCcEEEE--EeCChhhh--h-hhCcCCCceEEeCCCCHHHHHHHHHhc
Q 041795          249 E--K---GVLDDVNK--IGQLQYLTCGLDRFGPGSRIII--TTRDKWIL--D-KFGVHDTNVYEVNGLRYHEALELFCNC  316 (471)
Q Consensus       249 ~--~---~VLDdv~~--~~~~~~l~~~~~~~~~gs~Iii--TTR~~~v~--~-~~~~~~~~~~~l~~L~~~ea~~Lf~~~  316 (471)
                      .  .   -++|+++.  ..+.+.|+..+.   .|..++|  ||.+....  . ....  ...+++++|+.++...++.+.
T Consensus        89 ~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~SR--~~~~~~~~ls~e~i~~lL~~~  163 (413)
T PRK13342         89 SAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLSR--AQVFELKPLSEEDIEQLLKRA  163 (413)
T ss_pred             hcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhcc--ceeeEeCCCCHHHHHHHHHHH
Confidence            0  1   18899974  445666665554   3454554  34443211  1 1111  357999999999999999875


Q ss_pred             c
Q 041795          317 A  317 (471)
Q Consensus       317 a  317 (471)
                      .
T Consensus       164 l  164 (413)
T PRK13342        164 L  164 (413)
T ss_pred             H
Confidence            4

>PF13173 AAA_14: AAA domain

Probab=98.07  E-value=7.6e-06  Score=69.77  Aligned_cols=102  Identities=22%  Similarity=0.180  Sum_probs=66.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeee----------------hhhhhhh-c---CcccccCCHhhHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG----------------NVREESE-K---GVLDDVNKIGQLQYLT  266 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~----------------~~~~~~~-~---~VLDdv~~~~~~~~l~  266 (471)
                      -+++.|.|+.|+|||||++++++... .-...+++.                ...+... .   -+||++.....|....
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iDEiq~~~~~~~~l   80 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDRRLADPDLLEYFLELIKPGKKYIFIDEIQYLPDWEDAL   80 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHHHHhhhhhHHHHHHhhccCCcEEEEehhhhhccHHHHH
Confidence            36899999999999999999987754 112222221                0111100 1   1899998777777666


Q ss_pred             cCCCCCCCCcEEEEEeCChhhhhhhC----cCCCceEEeCCCCHHHH
Q 041795          267 CGLDRFGPGSRIIITTRDKWILDKFG----VHDTNVYEVNGLRYHEA  309 (471)
Q Consensus       267 ~~~~~~~~gs~IiiTTR~~~v~~~~~----~~~~~~~~l~~L~~~ea  309 (471)
                      ..+-..++..+|++|+........-.    ......++|.||+..|-
T Consensus        81 k~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   81 KFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             HHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            55544456789999998876663311    11245689999998873

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

Probab=98.04  E-value=1.8e-05  Score=67.98  Aligned_cols=44  Identities=41%  Similarity=0.581  Sum_probs=36.2

Q ss_pred             cccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          187 VGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       187 vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +|++..+..+...+..  +..+.+.|+|.+|+|||+|++.+++...
T Consensus         1 ~~~~~~~~~i~~~~~~--~~~~~v~i~G~~G~GKT~l~~~i~~~~~   44 (151)
T cd00009           1 VGQEEAIEALREALEL--PPPKNLLLYGPPGTGKTTLARAIANELF   44 (151)
T ss_pred             CchHHHHHHHHHHHhC--CCCCeEEEECCCCCCHHHHHHHHHHHhh
Confidence            4778888888887763  2356889999999999999999999864

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.04  E-value=3.5e-05  Score=85.70  Aligned_cols=253  Identities=15%  Similarity=0.178  Sum_probs=143.0

Q ss_pred             ccccchhHHHHHHhhhcC-CCCceEEEEeccCcchhhhHHHHHHHhhhcc--------cc-------ceEeeehhhhhhh
Q 041795          186 LVGLNSRIEKIKSLLCIG-RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE--------FE-------GNCFLGNVREESE  249 (471)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------f~-------~~~~~~~~~~~~~  249 (471)
                      ++||+.+++.|...+..- ...-.++.+.|..|||||+|.++|...+...        |+       ...|+..+++...
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~~   81 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLMG   81 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHHH
Confidence            789999999999988743 2346699999999999999999999876544        11       0111211111111


Q ss_pred             c--------------------C-------------------------------------------------------ccc
Q 041795          250 K--------------------G-------------------------------------------------------VLD  254 (471)
Q Consensus       250 ~--------------------~-------------------------------------------------------VLD  254 (471)
                      .                    |                                                       |+|
T Consensus        82 ~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~le  161 (849)
T COG3899          82 QLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVLE  161 (849)
T ss_pred             HHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEEe
Confidence            0                    0                                                       889


Q ss_pred             cc-C-CHhhH---HHHhcCCCC-CCCCcEEEE--EeCCh--hhhhhhCcCCCceEEeCCCCHHHHHHHHHhccccCCC-C
Q 041795          255 DV-N-KIGQL---QYLTCGLDR-FGPGSRIII--TTRDK--WILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENH-C  323 (471)
Q Consensus       255 dv-~-~~~~~---~~l~~~~~~-~~~gs~Iii--TTR~~--~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~  323 (471)
                      |+ | |...+   +.+.....- .-....+..  |.+..  .+.....  ....+.|.||+..+...|.......... +
T Consensus       162 DlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~--~i~~I~L~PL~~~d~~~lV~~~l~~~~~~~  239 (849)
T COG3899         162 DLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSAT--NITTITLAPLSRADTNQLVAATLGCTKLLP  239 (849)
T ss_pred             cccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCC--ceeEEecCcCchhhHHHHHHHHhCCccccc
Confidence            98 3 33333   333332220 000112322  22322  1111111  2578999999999999988765433222 2


Q ss_pred             CchHHHHHHHHHHHHhhhhcCC----------------CHHHHHHHHHHhcCCCC-CchHhHHHhhccCCChhHHHHHcc
Q 041795          324 PSGFLASSKRVLKVLGSFFHRK----------------SKLDWEKALENISRISD-PDIYDVLKISYNDLSLEEKSIFLD  386 (471)
Q Consensus       324 ~~~~~~l~~~il~~lg~~L~~~----------------~~~~w~~~l~~l~~~~~-~~i~~~l~~Sy~~L~~~~k~~fl~  386 (471)
                      .+....+.   -++-|..+.-.                +...|..-...+...+. +++...+..-.+.||...|+.+-.
T Consensus       240 ~p~~~~i~---~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~~t~~Vl~~  316 (849)
T COG3899         240 APLLELIF---EKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPGTTREVLKA  316 (849)
T ss_pred             chHHHHHH---HHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            33333333   34444444311                12222222222211111 224456888899999999999999


Q ss_pred             cccccCCCCHHHHHHhhcc---cCccchHHHHhhCCCeeecC------CC----eEEecHHHHHHHHHHH
Q 041795          387 IACFFAGEEKDYVTRMLDP---NFPHNGLNILIAKSLVTVSN------DN----KIQMHDLLQEMGREVV  443 (471)
Q Consensus       387 ls~Fp~~~~~~~l~~lw~~---~~~~~~l~~L~~~sLi~~~~------~~----~~~mHdlv~~~a~~i~  443 (471)
                      .||+-..++.+.|..++..   ..+...++.|....++..++      +.    +-..||++|+.|-...
T Consensus       317 AA~iG~~F~l~~La~l~~~~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqqaaY~~i  386 (849)
T COG3899         317 AACIGNRFDLDTLAALAEDSPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQQAAYNLI  386 (849)
T ss_pred             HHHhCccCCHHHHHHHHhhchHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHHHHHhccC
Confidence            9999999999998888874   22333444444444443221      11    1257888888876544

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.03  E-value=4e-05  Score=80.31  Aligned_cols=135  Identities=24%  Similarity=0.176  Sum_probs=86.5

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc--cccceEee------------------e
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK--EFEGNCFL------------------G  242 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~--~f~~~~~~------------------~  242 (471)
                      .++++|-+..++.|..++..+. -...+.++|++|+||||+|+.+++.+..  .+...|+.                  .
T Consensus        13 ~~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~el~   91 (504)
T PRK14963         13 FDEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLEID   91 (504)
T ss_pred             HHHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEEec
Confidence            3568999988888888887432 2346799999999999999999988642  12222222                  1


Q ss_pred             --------hhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCceE
Q 041795          243 --------NVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTNVY  299 (471)
Q Consensus       243 --------~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~~~  299 (471)
                              .+++....       +     |+|+++.  ...++.|+..+......+.+|++|... .+...+.. ....+
T Consensus        92 ~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~S-Rc~~~  170 (504)
T PRK14963         92 AASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILS-RTQHF  170 (504)
T ss_pred             ccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhc-ceEEE
Confidence                    11111000       0     8899874  345777777666555566666665443 33222211 14679


Q ss_pred             EeCCCCHHHHHHHHHhcccc
Q 041795          300 EVNGLRYHEALELFCNCAFK  319 (471)
Q Consensus       300 ~l~~L~~~ea~~Lf~~~a~~  319 (471)
                      ++.+++.++....+.+.+-.
T Consensus       171 ~f~~ls~~el~~~L~~i~~~  190 (504)
T PRK14963        171 RFRRLTEEEIAGKLRRLLEA  190 (504)
T ss_pred             EecCCCHHHHHHHHHHHHHH
Confidence            99999999999988876643

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=97.97  E-value=4.1e-05  Score=72.06  Aligned_cols=130  Identities=20%  Similarity=0.305  Sum_probs=70.4

Q ss_pred             CCcc-ccchhH-HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhhhhhh-----c---Ccc
Q 041795          184 DGLV-GLNSRI-EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESE-----K---GVL  253 (471)
Q Consensus       184 ~~~v-Gr~~~~-~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~~~~~-----~---~VL  253 (471)
                      ++|+ |..... ..+.++.. +....+.+.|+|..|+|||+||+.+++.....=....+++.......     .   -++
T Consensus        18 d~f~~~~~~~~~~~l~~~~~-~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~lii   96 (227)
T PRK08903         18 DNFVAGENAELVARLRELAA-GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPLLAFDFDPEAELYAV   96 (227)
T ss_pred             cccccCCcHHHHHHHHHHHh-ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhHHHHhhcccCCEEEE
Confidence            4455 554433 34444333 22345688999999999999999999875332223334433221111     1   188


Q ss_pred             cccCCH--hhHHHHhcCCCCC-CCCc-EEEEEeCChhhhh--------hhCcCCCceEEeCCCCHHHHHHHHHhc
Q 041795          254 DDVNKI--GQLQYLTCGLDRF-GPGS-RIIITTRDKWILD--------KFGVHDTNVYEVNGLRYHEALELFCNC  316 (471)
Q Consensus       254 Ddv~~~--~~~~~l~~~~~~~-~~gs-~IiiTTR~~~v~~--------~~~~~~~~~~~l~~L~~~ea~~Lf~~~  316 (471)
                      ||++..  ...+.|...+... ..|. .+|+|++......        .+..  ...+++++|+.++-..++.+.
T Consensus        97 Ddi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~--~~~i~l~pl~~~~~~~~l~~~  169 (227)
T PRK08903         97 DDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGW--GLVYELKPLSDADKIAALKAA  169 (227)
T ss_pred             eChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhc--CeEEEecCCCHHHHHHHHHHH
Confidence            999633  2222333322211 1344 3666665432111        2211  357899999998877766654

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

Probab=97.95  E-value=6.5e-06  Score=74.48  Aligned_cols=50  Identities=28%  Similarity=0.409  Sum_probs=35.6

Q ss_pred             CccccchhHHHHHHhhh-cCCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          185 GLVGLNSRIEKIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .|+||+++++++...|. ......+.+.|+|.+|+|||+|.++++..+...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            38999999999999995 233457899999999999999999999987766

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.92  E-value=6e-05  Score=75.27  Aligned_cols=132  Identities=16%  Similarity=0.204  Sum_probs=81.5

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc-cc-eEeeehh----------------
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF-EG-NCFLGNV----------------  244 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~-~~~~~~~----------------  244 (471)
                      .+.++|++..++.+.+++..+  ..+.+.++|.+|+||||+|+.+++.+..+- .. ...+...                
T Consensus        14 ~~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~   91 (337)
T PRK12402         14 LEDILGQDEVVERLSRAVDSP--NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKKYLVEDPRF   91 (337)
T ss_pred             HHHhcCCHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcchhhhhcCcch
Confidence            356899999999999988633  345688999999999999999988754321 11 1121110                


Q ss_pred             ------------------hhhh----------h-c--CcccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCChh-hhhh
Q 041795          245 ------------------REES----------E-K--GVLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRDKW-ILDK  290 (471)
Q Consensus       245 ------------------~~~~----------~-~--~VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~  290 (471)
                                        ++..          . .  -|+||++..  ...+.|...+......+++|+||.+.. +...
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~  171 (337)
T PRK12402         92 AHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPP  171 (337)
T ss_pred             hhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchh
Confidence                              0000          0 0  188998643  233444443333345677888775432 2222


Q ss_pred             hCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          291 FGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       291 ~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      +.. ....+++.+++.++....+.+.+
T Consensus       172 L~s-r~~~v~~~~~~~~~~~~~l~~~~  197 (337)
T PRK12402        172 IRS-RCLPLFFRAPTDDELVDVLESIA  197 (337)
T ss_pred             hcC-CceEEEecCCCHHHHHHHHHHHH
Confidence            211 13568899999999888887765

>PRK08727 hypothetical protein; Validated

Probab=97.91  E-value=4.7e-05  Score=71.96  Aligned_cols=131  Identities=18%  Similarity=0.150  Sum_probs=77.3

Q ss_pred             CCccccc-hhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhh------hhhhc------
Q 041795          184 DGLVGLN-SRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVR------EESEK------  250 (471)
Q Consensus       184 ~~~vGr~-~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~------~~~~~------  250 (471)
                      ++|++.. ..+..+..+.. + .....+.|+|.+|+|||.|++.+++....+.....|+....      +....      
T Consensus        19 ~~f~~~~~n~~~~~~~~~~-~-~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~l~~~dl   96 (233)
T PRK08727         19 DSYIAAPDGLLAQLQALAA-G-QSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAAGRLRDALEALEGRSL   96 (233)
T ss_pred             hhccCCcHHHHHHHHHHHh-c-cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhhhhHHHHHHHHhcCCE
Confidence            4455444 33333333332 1 22356999999999999999999988655433445544211      10001      


Q ss_pred             CcccccCCH---hhHH-HHhcCCCC-CCCCcEEEEEeCCh---------hhhhhhCcCCCceEEeCCCCHHHHHHHHHhc
Q 041795          251 GVLDDVNKI---GQLQ-YLTCGLDR-FGPGSRIIITTRDK---------WILDKFGVHDTNVYEVNGLRYHEALELFCNC  316 (471)
Q Consensus       251 ~VLDdv~~~---~~~~-~l~~~~~~-~~~gs~IiiTTR~~---------~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~  316 (471)
                      -||||+...   ..+. .+...++. ...|..+|+||+..         .+...+..  ..++++++++.++-.+++.++
T Consensus        97 LiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~--~~~~~l~~~~~e~~~~iL~~~  174 (233)
T PRK08727         97 VALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQ--CIRIGLPVLDDVARAAVLRER  174 (233)
T ss_pred             EEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhc--CceEEecCCCHHHHHHHHHHH
Confidence            189998632   1222 22222211 12466799999853         22333322  457999999999999999987


Q ss_pred             cc
Q 041795          317 AF  318 (471)
Q Consensus       317 a~  318 (471)
                      +.
T Consensus       175 a~  176 (233)
T PRK08727        175 AQ  176 (233)
T ss_pred             HH
Confidence            64

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.89  E-value=7.5e-05  Score=76.07  Aligned_cols=148  Identities=26%  Similarity=0.276  Sum_probs=86.1

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccce-------Eeeeh--
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN-------CFLGN--  243 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~-------~~~~~--  243 (471)
                      +++.|+++.+++|.+.+..           +-...+-|.++|.+|+|||+||+++++.....|-..       .|+..  
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~~~g~~~  210 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEGA  210 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHhhccchH
Confidence            4688999999999887631           113456789999999999999999998765432111       01100  


Q ss_pred             --hhhhhh---c-----CcccccCCH-------------hh---HHHHhcCCCCC--CCCcEEEEEeCChhhhhhh----
Q 041795          244 --VREESE---K-----GVLDDVNKI-------------GQ---LQYLTCGLDRF--GPGSRIIITTRDKWILDKF----  291 (471)
Q Consensus       244 --~~~~~~---~-----~VLDdv~~~-------------~~---~~~l~~~~~~~--~~gs~IiiTTR~~~v~~~~----  291 (471)
                        ++....   .     -+||+++..             +.   +..++..+..+  ..+..||.||.........    
T Consensus       211 ~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~allRp  290 (389)
T PRK03992        211 RLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRP  290 (389)
T ss_pred             HHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHHcCC
Confidence              000000   0     177888642             11   22233222221  2356677788754332211    


Q ss_pred             -CcCCCceEEeCCCCHHHHHHHHHhccccCCC-CCchHHHHHHH
Q 041795          292 -GVHDTNVYEVNGLRYHEALELFCNCAFKENH-CPSGFLASSKR  333 (471)
Q Consensus       292 -~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~l~~~  333 (471)
                       ..  +..++++..+.++-.++|..+..+... ...++..++..
T Consensus       291 gRf--d~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~  332 (389)
T PRK03992        291 GRF--DRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAEL  332 (389)
T ss_pred             ccC--ceEEEECCCCHHHHHHHHHHHhccCCCCCcCCHHHHHHH
Confidence             12  457999999999999999877643221 12345555443

>COG3903 Predicted ATPase [General function prediction only]

Probab=97.89  E-value=3e-06  Score=83.86  Aligned_cols=233  Identities=20%  Similarity=0.266  Sum_probs=141.7

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhhhhhhcC----------------------------------
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEKG----------------------------------  251 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~~~~~~~----------------------------------  251 (471)
                      ..+.+.++|.|||||||++-.+.. +...|....|......+..+.                                  
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g~~~~~~~~~~~~~rr~l   91 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQPGDSAVDTLVRRIGDRRAL   91 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-HhhhcccceeeeeccccCchhHhHHHHHhhcccccccchHHHHHHHHHHhhhhHH
Confidence            468999999999999999999988 777777665543332222210                                  


Q ss_pred             -cccccCCHh-hHHHHhcCCCCCCCCcEEEEEeCChhhhhhhCcCCCceEEeCCCCHH-HHHHHHHhcccc-------CC
Q 041795          252 -VLDDVNKIG-QLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYH-EALELFCNCAFK-------EN  321 (471)
Q Consensus       252 -VLDdv~~~~-~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~~~~~~~~~~~l~~L~~~-ea~~Lf~~~a~~-------~~  321 (471)
                       |+||..... +-..+...+....+.-.|+.|+|+......     ...+.++.|+.. ++.++|...+-.       ..
T Consensus        92 lvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~~g-----e~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l~~  166 (414)
T COG3903          92 LVLDNCEHLLDACAALIVALLGACPRLAILATSREAILVAG-----EVHRRVPSLSLFDEAIELFVCRAVLVALSFWLTD  166 (414)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcccc-----cccccCCccccCCchhHHHHHHHHHhccceeecC
Confidence             777765432 222222222222334568888887654332     567888888876 688888776531       12


Q ss_pred             CCCchHHHHHHHH------HHHHhhhhcCCCHHHHHHHHHH----hcC------CCCCchHhHHHhhccCCChhHHHHHc
Q 041795          322 HCPSGFLASSKRV------LKVLGSFFHRKSKLDWEKALEN----ISR------ISDPDIYDVLKISYNDLSLEEKSIFL  385 (471)
Q Consensus       322 ~~~~~~~~l~~~i------l~~lg~~L~~~~~~~w~~~l~~----l~~------~~~~~i~~~l~~Sy~~L~~~~k~~fl  385 (471)
                      ...+...+|++.+      +...++..+.....+-..-|..    +..      .........+.+||.-|..-++-.|.
T Consensus       167 ~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgwe~~~~~  246 (414)
T COG3903         167 DNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGWERALFG  246 (414)
T ss_pred             CchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhHHHHHhc
Confidence            2334456666665      3334443333332222222221    111      12245788999999999999999999


Q ss_pred             ccccccCCCCHHHHHHhhcc--------cCccchHHHHhhCCCeeecC---CCeEEecHHHHHHHHHHHHh
Q 041795          386 DIACFFAGEEKDYVTRMLDP--------NFPHNGLNILIAKSLVTVSN---DNKIQMHDLLQEMGREVVRQ  445 (471)
Q Consensus       386 ~ls~Fp~~~~~~~l~~lw~~--------~~~~~~l~~L~~~sLi~~~~---~~~~~mHdlv~~~a~~i~~~  445 (471)
                      .++.|...++.+ +...-.+        +.....+-.|+++|++...+   .-.|+.-+-.+.|+.....+
T Consensus       247 rLa~~~g~f~~~-l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r  316 (414)
T COG3903         247 RLAVFVGGFDLG-LALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHR  316 (414)
T ss_pred             chhhhhhhhccc-HHHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHh
Confidence            999999888665 2221111        33445678899999998653   22366666666666555533

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.88  E-value=6.2e-05  Score=79.74  Aligned_cols=134  Identities=22%  Similarity=0.225  Sum_probs=88.1

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~  240 (471)
                      ....++|.+...+.|.+++..+. -...+.++|..|+||||+|+.+++.+...                     +.....
T Consensus        13 tFddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviE   91 (702)
T PRK14960         13 NFNELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIE   91 (702)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEE
Confidence            33578999999999999887432 24678999999999999999998875321                     111222


Q ss_pred             ee--------hhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhh-hCcCCC
Q 041795          241 LG--------NVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDK-FGVHDT  296 (471)
Q Consensus       241 ~~--------~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~-~~~~~~  296 (471)
                      +.        .+++....       +     |+|+++.  ....+.|+..+.....+.++|++|.+.. +... ...  .
T Consensus        92 IDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSR--C  169 (702)
T PRK14960         92 IDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISR--C  169 (702)
T ss_pred             ecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHh--h
Confidence            22        11111110       1     8899974  3466777766655556677888776643 2111 122  4


Q ss_pred             ceEEeCCCCHHHHHHHHHhccc
Q 041795          297 NVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      ..+++.+|+.++....+.+.+-
T Consensus       170 q~feFkpLs~eEI~k~L~~Il~  191 (702)
T PRK14960        170 LQFTLRPLAVDEITKHLGAILE  191 (702)
T ss_pred             heeeccCCCHHHHHHHHHHHHH
Confidence            6799999999999888876553

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.87  E-value=8.1e-05  Score=75.19  Aligned_cols=133  Identities=17%  Similarity=0.194  Sum_probs=86.6

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc---------------------cceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF---------------------EGNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f---------------------~~~~~  240 (471)
                      ..++++|-+..++.+.+.+..+. -...+.++|+.|+||||+|+.+++.+....                     .....
T Consensus        14 ~~~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~~~   92 (363)
T PRK14961         14 YFRDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDLIE   92 (363)
T ss_pred             chhhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceEE
Confidence            34578999999999998886432 245678999999999999999998753210                     11111


Q ss_pred             ee--------hhhhhhhc------------CcccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhh-CcCCC
Q 041795          241 LG--------NVREESEK------------GVLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKF-GVHDT  296 (471)
Q Consensus       241 ~~--------~~~~~~~~------------~VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~-~~~~~  296 (471)
                      +.        .+++....            -|+|+++..  ..++.|+..+.......++|++|.+.. +...+ ..  .
T Consensus        93 ~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SR--c  170 (363)
T PRK14961         93 IDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSR--C  170 (363)
T ss_pred             ecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhh--c
Confidence            11        11111110            188999754  356677766665556777777765543 32222 11  4


Q ss_pred             ceEEeCCCCHHHHHHHHHhcc
Q 041795          297 NVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..+++++++.++....+...+
T Consensus       171 ~~~~~~~l~~~el~~~L~~~~  191 (363)
T PRK14961        171 LQFKLKIISEEKIFNFLKYIL  191 (363)
T ss_pred             eEEeCCCCCHHHHHHHHHHHH
Confidence            579999999999988877655

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.87  E-value=7.4e-05  Score=70.72  Aligned_cols=111  Identities=17%  Similarity=0.220  Sum_probs=68.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhh------hhhhc------CcccccCCH---hhHHH-HhcCC
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVR------EESEK------GVLDDVNKI---GQLQY-LTCGL  269 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~------~~~~~------~VLDdv~~~---~~~~~-l~~~~  269 (471)
                      ..+.+.|+|+.|+|||+|++.+++.....-....|+....      +....      -++||+...   .+|+. |...+
T Consensus        44 ~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~~~~~~~~~~~~~dlliiDdi~~~~~~~~~~~~lf~l~  123 (235)
T PRK08084         44 HSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAWFVPEVLEGMEQLSLVCIDNIECIAGDELWEMAIFDLY  123 (235)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhhhhHHHHHHhhhCCEEEEeChhhhcCCHHHHHHHHHHH
Confidence            3468899999999999999999987654323334433211      00000      178999532   23322 11111


Q ss_pred             CCC-CCC-cEEEEEeCCh---------hhhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          270 DRF-GPG-SRIIITTRDK---------WILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       270 ~~~-~~g-s~IiiTTR~~---------~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      +.. ..| .++|+||+..         .+...+..  ..+++++++++++-.+++.+++.
T Consensus       124 n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~--g~~~~l~~~~~~~~~~~l~~~a~  181 (235)
T PRK08084        124 NRILESGRTRLLITGDRPPRQLNLGLPDLASRLDW--GQIYKLQPLSDEEKLQALQLRAR  181 (235)
T ss_pred             HHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhC--CceeeecCCCHHHHHHHHHHHHH
Confidence            111 123 4799999754         33344433  57899999999999999887663

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

Probab=97.86  E-value=4.5e-05  Score=83.02  Aligned_cols=129  Identities=22%  Similarity=0.326  Sum_probs=79.5

Q ss_pred             CCCccccchhHH---HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccc-eEeeehhhh-------h---h
Q 041795          183 FDGLVGLNSRIE---KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG-NCFLGNVRE-------E---S  248 (471)
Q Consensus       183 ~~~~vGr~~~~~---~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~-~~~~~~~~~-------~---~  248 (471)
                      .++|+|.+..+.   .+.+.+.  .+....+.++|++|+||||||+.+++.....|.. .+....+.+       .   .
T Consensus        27 ldd~vGQe~ii~~~~~L~~~i~--~~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~~i~dir~~i~~a~~~l  104 (725)
T PRK13341         27 LEEFVGQDHILGEGRLLRRAIK--ADRVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAGVKDLRAEVDRAKERL  104 (725)
T ss_pred             HHHhcCcHHHhhhhHHHHHHHh--cCCCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhhhhHHHHHHHHHHHHHh
Confidence            356899888774   4555555  3345678899999999999999999887655421 111111111       0   0


Q ss_pred             h---c---CcccccC--CHhhHHHHhcCCCCCCCCcEEEE--EeCChh--hhhhhCcCCCceEEeCCCCHHHHHHHHHhc
Q 041795          249 E---K---GVLDDVN--KIGQLQYLTCGLDRFGPGSRIII--TTRDKW--ILDKFGVHDTNVYEVNGLRYHEALELFCNC  316 (471)
Q Consensus       249 ~---~---~VLDdv~--~~~~~~~l~~~~~~~~~gs~Iii--TTR~~~--v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~  316 (471)
                      .   .   -+|||++  +..+.+.|+..+.   .|+.++|  ||.+..  +..... ....++.+++|+.++...++.+.
T Consensus       105 ~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~aL~-SR~~v~~l~pLs~edi~~IL~~~  180 (725)
T PRK13341        105 ERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNKALV-SRSRLFRLKSLSDEDLHQLLKRA  180 (725)
T ss_pred             hhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhhHhh-ccccceecCCCCHHHHHHHHHHH
Confidence            0   0   1899996  4556677765543   4555555  344432  111111 01457999999999999988875


Q ss_pred             c
Q 041795          317 A  317 (471)
Q Consensus       317 a  317 (471)
                      +
T Consensus       181 l  181 (725)
T PRK13341        181 L  181 (725)
T ss_pred             H
Confidence            4

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

Probab=97.85  E-value=0.0001  Score=68.96  Aligned_cols=111  Identities=19%  Similarity=0.247  Sum_probs=65.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcccc--ceEeeehhh------hhh---------hc------CcccccCCH---
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE--GNCFLGNVR------EES---------EK------GVLDDVNKI---  259 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~--~~~~~~~~~------~~~---------~~------~VLDdv~~~---  259 (471)
                      ....+-|+|..|+|||.|.+++++.+.....  .++++....      ...         ..      -++||++..   
T Consensus        33 ~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~~~~~~~~~~~~~~~~~DlL~iDDi~~l~~~  112 (219)
T PF00308_consen   33 RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFADALRDGEIEEFKDRLRSADLLIIDDIQFLAGK  112 (219)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHHHHTTSHHHHHHHHCTSSEEEEETGGGGTTH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHHHHHcccchhhhhhhhcCCEEEEecchhhcCc
Confidence            3556889999999999999999998765433  234443110      000         00      189999642   


Q ss_pred             hhH-HHHhcCCCC-CCCCcEEEEEeCCh---------hhhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          260 GQL-QYLTCGLDR-FGPGSRIIITTRDK---------WILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       260 ~~~-~~l~~~~~~-~~~gs~IiiTTR~~---------~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      ..| +.|...++. ...|.+||+|++..         .+...+..  .-++++++++.++-..++.+.+-
T Consensus       113 ~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~--Gl~~~l~~pd~~~r~~il~~~a~  180 (219)
T PF00308_consen  113 QRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSW--GLVVELQPPDDEDRRRILQKKAK  180 (219)
T ss_dssp             HHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHC--SEEEEE----HHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhh--cchhhcCCCCHHHHHHHHHHHHH
Confidence            222 222222211 13577899999643         22233333  56799999999999999998874

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

>PLN03025 replication factor C subunit; Provisional

Probab=97.85  E-value=5e-05  Score=75.37  Aligned_cols=133  Identities=19%  Similarity=0.292  Sum_probs=82.1

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc-cccceEe-ee--------hhhhhh----
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK-EFEGNCF-LG--------NVREES----  248 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~-~~--------~~~~~~----  248 (471)
                      ..+++|.++.++.|..++..+  ..+-+.++|.+|+||||+|+.+++.+.. .|...+. +.        .+++..    
T Consensus        12 l~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~~vr~~i~~~~   89 (319)
T PLN03025         12 LDDIVGNEDAVSRLQVIARDG--NMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGIDVVRNKIKMFA   89 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHHHHHHHHHHHH
Confidence            356889988888888877633  3445789999999999999999988532 2321111 11        111110    


Q ss_pred             h------c-----CcccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCceEEeCCCCHHHHHHHHH
Q 041795          249 E------K-----GVLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTNVYEVNGLRYHEALELFC  314 (471)
Q Consensus       249 ~------~-----~VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~  314 (471)
                      .      .     -+||+++..  ...+.|...+...+..+++|+++... .+...+.. ....+++++++.++....+.
T Consensus        90 ~~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~S-Rc~~i~f~~l~~~~l~~~L~  168 (319)
T PLN03025         90 QKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQS-RCAIVRFSRLSDQEILGRLM  168 (319)
T ss_pred             hccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHH-hhhcccCCCCCHHHHHHHHH
Confidence            0      0     189999743  33445554444445667777776543 22211110 13468999999999988887


Q ss_pred             hccc
Q 041795          315 NCAF  318 (471)
Q Consensus       315 ~~a~  318 (471)
                      ..+-
T Consensus       169 ~i~~  172 (319)
T PLN03025        169 KVVE  172 (319)
T ss_pred             HHHH
Confidence            7663

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.84  E-value=7.7e-05  Score=73.85  Aligned_cols=131  Identities=18%  Similarity=0.175  Sum_probs=90.1

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh------ccccceEeee---------hhhhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY------KEFEGNCFLG---------NVREES  248 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~------~~f~~~~~~~---------~~~~~~  248 (471)
                      ++++|-+..++.+.+.+..+ .-.....++|+.|+||||+|+.++..+.      .+.+...|..         .+++..
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~-~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir~~~   82 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKN-RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRNII   82 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcC-CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHHHHH
Confidence            45789888888898888633 2345778999999999999999998752      2334434432         122211


Q ss_pred             hc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCChhhh-hhhCcCCCceEEeCCCCHHHHHHHH
Q 041795          249 EK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRDKWIL-DKFGVHDTNVYEVNGLRYHEALELF  313 (471)
Q Consensus       249 ~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~-~~~~~~~~~~~~l~~L~~~ea~~Lf  313 (471)
                      ..       +     |+|+++  +...++.|+..+.....++.+|++|.+...+ ..+.. ....+++.+++.++....+
T Consensus        83 ~~~~~~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~S-Rc~~~~~~~~~~~~~~~~l  161 (313)
T PRK05564         83 EEVNKKPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKS-RCQIYKLNRLSKEEIEKFI  161 (313)
T ss_pred             HHHhcCcccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHh-hceeeeCCCcCHHHHHHHH
Confidence            10       1     788875  5567888888888777899999988766432 21111 1467999999999998877


Q ss_pred             Hhc
Q 041795          314 CNC  316 (471)
Q Consensus       314 ~~~  316 (471)
                      .+.
T Consensus       162 ~~~  164 (313)
T PRK05564        162 SYK  164 (313)
T ss_pred             HHH
Confidence            654

>PRK09087 hypothetical protein; Validated

Probab=97.82  E-value=4.2e-05  Score=71.90  Aligned_cols=103  Identities=16%  Similarity=0.139  Sum_probs=66.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehh------hhhhhc--CcccccCC----HhhHHHHhcCCCCCCC
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNV------REESEK--GVLDDVNK----IGQLQYLTCGLDRFGP  274 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~------~~~~~~--~VLDdv~~----~~~~~~l~~~~~~~~~  274 (471)
                      .+.+.|+|..|+|||+|++.+++....     .++...      -.....  -++||+..    .+.+-.+...+.  ..
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~~-----~~i~~~~~~~~~~~~~~~~~l~iDDi~~~~~~~~~lf~l~n~~~--~~  116 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSDA-----LLIHPNEIGSDAANAAAEGPVLIEDIDAGGFDETGLFHLINSVR--QA  116 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcCC-----EEecHHHcchHHHHhhhcCeEEEECCCCCCCCHHHHHHHHHHHH--hC
Confidence            467899999999999999998876422     233321      111111  27899853    222222222222  24


Q ss_pred             CcEEEEEeCC---------hhhhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          275 GSRIIITTRD---------KWILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       275 gs~IiiTTR~---------~~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      |..||+|++.         +.+...+..  ..++++++++.++-.+++.+.+-
T Consensus       117 g~~ilits~~~p~~~~~~~~dL~SRl~~--gl~~~l~~pd~e~~~~iL~~~~~  167 (226)
T PRK09087        117 GTSLLMTSRLWPSSWNVKLPDLKSRLKA--ATVVEIGEPDDALLSQVIFKLFA  167 (226)
T ss_pred             CCeEEEECCCChHHhccccccHHHHHhC--CceeecCCCCHHHHHHHHHHHHH
Confidence            6779999874         334444444  57899999999999999988773

>PRK04195 replication factor C large subunit; Provisional

Probab=97.79  E-value=0.00017  Score=75.80  Aligned_cols=131  Identities=18%  Similarity=0.168  Sum_probs=80.7

Q ss_pred             CCCccccchhHHHHHHhhhc--CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEee-------ehhhh-------
Q 041795          183 FDGLVGLNSRIEKIKSLLCI--GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL-------GNVRE-------  246 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~-------~~~~~-------  246 (471)
                      .+.++|.+..++.|.+|+..  .+...+.+.|+|++|+||||+|+.+++.+..  +..-+=       ..+..       
T Consensus        13 l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~~--~~ielnasd~r~~~~i~~~i~~~~~   90 (482)
T PRK04195         13 LSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYGW--EVIELNASDQRTADVIERVAGEAAT   90 (482)
T ss_pred             HHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcCC--CEEEEcccccccHHHHHHHHHHhhc
Confidence            35689999999999999863  2223678999999999999999999997632  111110       00000       


Q ss_pred             ---hh--hc--CcccccCCH------hhHHHHhcCCCCCCCCcEEEEEeCChhhh-h-hhCcCCCceEEeCCCCHHHHHH
Q 041795          247 ---ES--EK--GVLDDVNKI------GQLQYLTCGLDRFGPGSRIIITTRDKWIL-D-KFGVHDTNVYEVNGLRYHEALE  311 (471)
Q Consensus       247 ---~~--~~--~VLDdv~~~------~~~~~l~~~~~~~~~gs~IiiTTR~~~v~-~-~~~~~~~~~~~l~~L~~~ea~~  311 (471)
                         ..  ..  -|+|+++..      .....|...+.  ..+..||+|+.+..-. . .+. .....+++++++.++...
T Consensus        91 ~~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~Lr-sr~~~I~f~~~~~~~i~~  167 (482)
T PRK04195         91 SGSLFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRELR-NACLMIEFKRLSTRSIVP  167 (482)
T ss_pred             cCcccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhHh-ccceEEEecCCCHHHHHH
Confidence               00  00  188998753      22444544433  2334567776443211 1 111 014678999999999988


Q ss_pred             HHHhccc
Q 041795          312 LFCNCAF  318 (471)
Q Consensus       312 Lf~~~a~  318 (471)
                      .+...+.
T Consensus       168 ~L~~i~~  174 (482)
T PRK04195        168 VLKRICR  174 (482)
T ss_pred             HHHHHHH
Confidence            8877654

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.78  E-value=0.00027  Score=73.51  Aligned_cols=134  Identities=19%  Similarity=0.175  Sum_probs=81.7

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEee
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCFL  241 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~~  241 (471)
                      .+.++|.+...+.|...+..+. -...+.++|++|+||||+|+.+++.+...                     +.....+
T Consensus        13 ~~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el   91 (472)
T PRK14962         13 FSEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIEL   91 (472)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEE
Confidence            3578999888888887776332 23568899999999999999998875321                     0011122


Q ss_pred             ehh--------hhhhhc-------C-----cccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCC-hhhhhhhCcCCCce
Q 041795          242 GNV--------REESEK-------G-----VLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRD-KWILDKFGVHDTNV  298 (471)
Q Consensus       242 ~~~--------~~~~~~-------~-----VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~-~~v~~~~~~~~~~~  298 (471)
                      ...        ++....       +     ++|+++..  ...+.|+..+...+....+|++|.+ ..+...+.. ....
T Consensus        92 ~aa~~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~S-R~~v  170 (472)
T PRK14962         92 DAASNRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIIS-RCQV  170 (472)
T ss_pred             eCcccCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhc-CcEE
Confidence            211        110000       1     78998643  4456666666544444555545444 333222211 1467


Q ss_pred             EEeCCCCHHHHHHHHHhccc
Q 041795          299 YEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       299 ~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      +++.+++.++....+.+.+.
T Consensus       171 v~f~~l~~~el~~~L~~i~~  190 (472)
T PRK14962        171 IEFRNISDELIIKRLQEVAE  190 (472)
T ss_pred             EEECCccHHHHHHHHHHHHH
Confidence            99999999998888877653

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

Probab=97.78  E-value=7.9e-05  Score=72.44  Aligned_cols=105  Identities=23%  Similarity=0.303  Sum_probs=70.2

Q ss_pred             CCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee---------hhhhhhhc--------C-----cccccC--CH
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG---------NVREESEK--------G-----VLDDVN--KI  259 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~---------~~~~~~~~--------~-----VLDdv~--~~  259 (471)
                      .+....+.+||++|+||||||+.+.+.-+.+=  ..|+.         +++...++        +     .+|.|.  +.
T Consensus       159 q~~ipSmIlWGppG~GKTtlArlia~tsk~~S--yrfvelSAt~a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNk  236 (554)
T KOG2028|consen  159 QNRIPSMILWGPPGTGKTTLARLIASTSKKHS--YRFVELSATNAKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNK  236 (554)
T ss_pred             cCCCCceEEecCCCCchHHHHHHHHhhcCCCc--eEEEEEeccccchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhh
Confidence            45688899999999999999999998755541  22322         22222221        0     678885  45


Q ss_pred             hhHHHHhcCCCCCCCCcEEEE--EeCChhhh---hhhCcCCCceEEeCCCCHHHHHHHHHh
Q 041795          260 GQLQYLTCGLDRFGPGSRIII--TTRDKWIL---DKFGVHDTNVYEVNGLRYHEALELFCN  315 (471)
Q Consensus       260 ~~~~~l~~~~~~~~~gs~Iii--TTR~~~v~---~~~~~~~~~~~~l~~L~~~ea~~Lf~~  315 (471)
                      .|-+.+++.   ...|.-++|  ||.++...   ..+..  ..++.|++|+.++...++.+
T Consensus       237 sQQD~fLP~---VE~G~I~lIGATTENPSFqln~aLlSR--C~VfvLekL~~n~v~~iL~r  292 (554)
T KOG2028|consen  237 SQQDTFLPH---VENGDITLIGATTENPSFQLNAALLSR--CRVFVLEKLPVNAVVTILMR  292 (554)
T ss_pred             hhhhcccce---eccCceEEEecccCCCccchhHHHHhc--cceeEeccCCHHHHHHHHHH
Confidence            555666544   346877776  78776432   11222  56799999999999998887

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=97.77  E-value=0.00026  Score=71.23  Aligned_cols=134  Identities=18%  Similarity=0.168  Sum_probs=87.9

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc--------------------------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF--------------------------  235 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f--------------------------  235 (471)
                      ...+++|-+...+.|.+.+..+. -...+.++|+.|+||+|+|..+++.+-.+=                          
T Consensus        17 ~~~~iiGq~~~~~~L~~~~~~~r-l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c~~i   95 (365)
T PRK07471         17 ETTALFGHAAAEAALLDAYRSGR-LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVARRI   95 (365)
T ss_pred             chhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHHHHH
Confidence            45679999999999998887432 245788999999999999999888753210                          


Q ss_pred             -----cceEeee-----------------hhhhhhhc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEE
Q 041795          236 -----EGNCFLG-----------------NVREESEK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRII  279 (471)
Q Consensus       236 -----~~~~~~~-----------------~~~~~~~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~Ii  279 (471)
                           ....++.                 .+++....       +     |+|+++  +....+.|+..+.....++.+|
T Consensus        96 ~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~I  175 (365)
T PRK07471         96 AAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLFL  175 (365)
T ss_pred             HccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEE
Confidence                 0111221                 11111100       0     789986  4556667776666555677778


Q ss_pred             EEeCChh-hhhhhCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          280 ITTRDKW-ILDKFGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       280 iTTR~~~-v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ++|.+.. +...+. .....+.+.+|+.++..+++....
T Consensus       176 L~t~~~~~llpti~-SRc~~i~l~~l~~~~i~~~L~~~~  213 (365)
T PRK07471        176 LVSHAPARLLPTIR-SRCRKLRLRPLAPEDVIDALAAAG  213 (365)
T ss_pred             EEECCchhchHHhh-ccceEEECCCCCHHHHHHHHHHhc
Confidence            8777654 322221 125689999999999999998754

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.76  E-value=0.00012  Score=70.51  Aligned_cols=130  Identities=19%  Similarity=0.214  Sum_probs=74.7

Q ss_pred             CccccchhHHHHHHhhh----------c---CCCCceEEEEeccCcchhhhHHHHHHHhhhcc--ccceEee--eh----
Q 041795          185 GLVGLNSRIEKIKSLLC----------I---GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE--FEGNCFL--GN----  243 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~----------~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--f~~~~~~--~~----  243 (471)
                      .++|.+..+++|.+...          .   ..+....+.++|.+|+||||+|+.+++.+...  .....++  ..    
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~l~   86 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERADLV   86 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHHhh
Confidence            47888877777664322          0   12335678899999999999999998764321  0111111  10    


Q ss_pred             ----------hhhhhhc---C--cccccCC----------HhhHHHHhcCCCCCCCCcEEEEEeCChhh----------h
Q 041795          244 ----------VREESEK---G--VLDDVNK----------IGQLQYLTCGLDRFGPGSRIIITTRDKWI----------L  288 (471)
Q Consensus       244 ----------~~~~~~~---~--VLDdv~~----------~~~~~~l~~~~~~~~~gs~IiiTTR~~~v----------~  288 (471)
                                ..+....   +  ++|+++.          .+..+.|...+........+|+++.....          .
T Consensus        87 ~~~~g~~~~~~~~~~~~a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~  166 (261)
T TIGR02881        87 GEYIGHTAQKTREVIKKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLR  166 (261)
T ss_pred             hhhccchHHHHHHHHHhccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHH
Confidence                      0111111   1  7898863          23455566555443334455555543221          1


Q ss_pred             hhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          289 DKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       289 ~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      ..+    ...+++++++.++-.+++.+.+-
T Consensus       167 sRf----~~~i~f~~~~~~el~~Il~~~~~  192 (261)
T TIGR02881       167 SRF----PISIDFPDYTVEELMEIAERMVK  192 (261)
T ss_pred             hcc----ceEEEECCCCHHHHHHHHHHHHH
Confidence            111    34688999999999998887653

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

>PRK05642 DNA replication initiation factor; Validated

Probab=97.74  E-value=0.00013  Score=69.07  Aligned_cols=110  Identities=19%  Similarity=0.276  Sum_probs=68.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhh------hhhhc------CcccccCC---HhhHHH-HhcCCC
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVR------EESEK------GVLDDVNK---IGQLQY-LTCGLD  270 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~------~~~~~------~VLDdv~~---~~~~~~-l~~~~~  270 (471)
                      ...+.|+|..|+|||.|++.+++.+...-..++|+....      .....      -++||+..   ...|+. |...++
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~~~~~~~~~~~~d~LiiDDi~~~~~~~~~~~~Lf~l~n  124 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDRGPELLDNLEQYELVCLDDLDVIAGKADWEEALFHLFN  124 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhhhHHHHHhhhhCCEEEEechhhhcCChHHHHHHHHHHH
Confidence            367899999999999999999987654434455655321      00000      17999952   223322 333322


Q ss_pred             C-CCCCcEEEEEeCChh---------hhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          271 R-FGPGSRIIITTRDKW---------ILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       271 ~-~~~gs~IiiTTR~~~---------v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      . ...|..||+||+...         +...+..  ..++++++++.++-..++.+++.
T Consensus       125 ~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~--gl~~~l~~~~~e~~~~il~~ka~  180 (234)
T PRK05642        125 RLRDSGRRLLLAASKSPRELPIKLPDLKSRLTL--ALVFQMRGLSDEDKLRALQLRAS  180 (234)
T ss_pred             HHHhcCCEEEEeCCCCHHHcCccCccHHHHHhc--CeeeecCCCCHHHHHHHHHHHHH
Confidence            1 124678999887532         2222222  36789999999999999886653

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

Probab=97.73  E-value=3.6e-05  Score=67.51  Aligned_cols=65  Identities=17%  Similarity=0.194  Sum_probs=56.4

Q ss_pred             eEEEccccccc-CcchHHHHHHHHHhC-CcceeecCCCCCC--CCCCcHHHHHHhhhcceEEEEEccCc
Q 041795           13 DVSLSFRGGDT-RDNFTSHLYAALCRK-KIKTFINGDEIRR--GDDISPALFTAIQGSKISVIVLSKHY   77 (471)
Q Consensus        13 dvFiS~~~~D~-~~~f~~~l~~~L~~~-g~~~~~d~~~~~~--g~~~~~~i~~~i~~s~~~i~v~S~~y   77 (471)
                      -|||||+.... ...+|..|++.|+.. |+.|.+|.|+...  +......+.+.+++++.+|+|+||.|
T Consensus         2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~   70 (150)
T PF08357_consen    2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY   70 (150)
T ss_pred             eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence            39999998553 235799999999999 9999999999854  77888999999999999999999765

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

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.70  E-value=9.5e-05  Score=80.76  Aligned_cols=134  Identities=19%  Similarity=0.193  Sum_probs=87.9

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~  240 (471)
                      ....++|-+..++.|.+.+..+. -...+.++|..|+||||+|+.+++.+...                     |....+
T Consensus        14 tFddIIGQe~Iv~~LknaI~~~r-l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviE   92 (944)
T PRK14949         14 TFEQMVGQSHVLHALTNALTQQR-LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIE   92 (944)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEE
Confidence            33578999999999998886332 24456899999999999999999886432                     111122


Q ss_pred             eeh--------hhhhhhc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCc
Q 041795          241 LGN--------VREESEK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTN  297 (471)
Q Consensus       241 ~~~--------~~~~~~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~  297 (471)
                      +..        +++....       +     |||+++  +...++.|+..+.......++|++|.+. .+...+-. ...
T Consensus        93 idAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlS-RCq  171 (944)
T PRK14949         93 VDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLS-RCL  171 (944)
T ss_pred             eccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHH-hhe
Confidence            221        1211110       1     899996  4566788877776555667776666543 33322111 146


Q ss_pred             eEEeCCCCHHHHHHHHHhcc
Q 041795          298 VYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .|++++|+.++....+.+.+
T Consensus       172 ~f~fkpLs~eEI~~~L~~il  191 (944)
T PRK14949        172 QFNLKSLTQDEIGTQLNHIL  191 (944)
T ss_pred             EEeCCCCCHHHHHHHHHHHH
Confidence            79999999999998887754

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.70  E-value=0.00015  Score=76.42  Aligned_cols=133  Identities=16%  Similarity=0.148  Sum_probs=85.1

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~  240 (471)
                      ...+++|-+..++.|...+..+ .-...+.++|+.|+||||+|+.+++.+...                     |.....
T Consensus        14 ~f~diiGq~~~v~~L~~~i~~~-rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlie   92 (546)
T PRK14957         14 SFAEVAGQQHALNSLVHALETQ-KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIE   92 (546)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEE
Confidence            3357899999999999888633 224567899999999999999999865421                     122222


Q ss_pred             eeh--------hhhhhhc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCC-hhhhhhh-CcCCC
Q 041795          241 LGN--------VREESEK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRD-KWILDKF-GVHDT  296 (471)
Q Consensus       241 ~~~--------~~~~~~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~-~~v~~~~-~~~~~  296 (471)
                      +..        +++....       +     |+|+++  +....+.|+..+......+.+|++|-+ ..+...+ ..  .
T Consensus        93 idaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SR--c  170 (546)
T PRK14957         93 IDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSR--C  170 (546)
T ss_pred             eecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHh--e
Confidence            221        1111000       1     889997  445677777777655556666655443 3333221 12  4


Q ss_pred             ceEEeCCCCHHHHHHHHHhcc
Q 041795          297 NVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..+++++++.++....+.+.+
T Consensus       171 ~~~~f~~Ls~~eI~~~L~~il  191 (546)
T PRK14957        171 IQLHLKHISQADIKDQLKIIL  191 (546)
T ss_pred             eeEEeCCCCHHHHHHHHHHHH
Confidence            679999999999887777643

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.69  E-value=8.4e-05  Score=73.63  Aligned_cols=132  Identities=20%  Similarity=0.174  Sum_probs=78.8

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEe----eehhhhhh----h----
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF----LGNVREES----E----  249 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~----~~~~~~~~----~----  249 (471)
                      ...+++|.+...+.+..++..+ .-..++.++|.+|+|||++|+.+++.....+-..-.    +..+++..    .    
T Consensus        19 ~~~~~~~~~~~~~~l~~~~~~~-~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~~~~~~i~~~l~~~~~~~~~   97 (316)
T PHA02544         19 TIDECILPAADKETFKSIVKKG-RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSDCRIDFVRNRLTRFASTVSL   97 (316)
T ss_pred             cHHHhcCcHHHHHHHHHHHhcC-CCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCcccHHHHHHHHHHHHHhhcc
Confidence            4467899999999999988742 235677779999999999999999875432210000    11111100    0    


Q ss_pred             ---c--CcccccCCH---hhHHHHhcCCCCCCCCcEEEEEeCChhhh-hhhCcCCCceEEeCCCCHHHHHHHHHh
Q 041795          250 ---K--GVLDDVNKI---GQLQYLTCGLDRFGPGSRIIITTRDKWIL-DKFGVHDTNVYEVNGLRYHEALELFCN  315 (471)
Q Consensus       250 ---~--~VLDdv~~~---~~~~~l~~~~~~~~~gs~IiiTTR~~~v~-~~~~~~~~~~~~l~~L~~~ea~~Lf~~  315 (471)
                         .  -|+|+++..   +..+.|...+.....++++|+||...... ..+.. ....+.++..+.++...++..
T Consensus        98 ~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~s-R~~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544         98 TGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRS-RCRVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             cCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHh-hceEEEeCCCCHHHHHHHHHH
Confidence               0  188998743   22233333334445678899988654321 11110 134677878888887765543

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.69  E-value=8.5e-05  Score=78.58  Aligned_cols=134  Identities=17%  Similarity=0.167  Sum_probs=87.6

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc--------------------------c
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE--------------------------F  235 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------------f  235 (471)
                      ..+++||-+..++.|.+.+..+. -...+.++|..|+||||+|+.+.+.+...                          |
T Consensus        14 tFddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~h   92 (700)
T PRK12323         14 DFTTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRF   92 (700)
T ss_pred             cHHHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCC
Confidence            34578999999999999887432 24567899999999999999998875431                          1


Q ss_pred             cceEeeeh--------hhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCC-hhhhhhhC
Q 041795          236 EGNCFLGN--------VREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRD-KWILDKFG  292 (471)
Q Consensus       236 ~~~~~~~~--------~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~-~~v~~~~~  292 (471)
                      ...+.++.        +++....       +     |||+++.  ...++.|+..+.....++++|++|.+ ..+...+.
T Consensus        93 pDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIr  172 (700)
T PRK12323         93 VDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVL  172 (700)
T ss_pred             CcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHH
Confidence            11222221        1221111       1     8999974  45678888777655556666665554 33332221


Q ss_pred             cCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          293 VHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       293 ~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      . ....+.++.++.++..+.+.+.+
T Consensus       173 S-RCq~f~f~~ls~eei~~~L~~Il  196 (700)
T PRK12323        173 S-RCLQFNLKQMPPGHIVSHLDAIL  196 (700)
T ss_pred             H-HHHhcccCCCChHHHHHHHHHHH
Confidence            1 14569999999999988877654

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.69  E-value=0.00013  Score=72.20  Aligned_cols=132  Identities=24%  Similarity=0.311  Sum_probs=81.1

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc-ccceE-eee------------hhhhhh
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNC-FLG------------NVREES  248 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~-~~~------------~~~~~~  248 (471)
                      -.+++|++..++.+..++..+  ..+.+.++|.+|+||||+|+.+++.+... +...+ -+.            .+.+..
T Consensus        16 ~~~~~g~~~~~~~l~~~i~~~--~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~i~~~~   93 (319)
T PRK00440         16 LDEIVGQEEIVERLKSYVKEK--NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGIDVIRNKIKEFA   93 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccchHHHHHHHHHHH
Confidence            356899999999999988643  34457999999999999999999875322 21111 110            000000


Q ss_pred             ----h--c----CcccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhh-CcCCCceEEeCCCCHHHHHHHHH
Q 041795          249 ----E--K----GVLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRDK-WILDKF-GVHDTNVYEVNGLRYHEALELFC  314 (471)
Q Consensus       249 ----~--~----~VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~-~~~~~~~~~l~~L~~~ea~~Lf~  314 (471)
                          .  .    -++|+++..  ...+.|...+......+++|+++... .+.... ..  ...+++++++.++....+.
T Consensus        94 ~~~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr--~~~~~~~~l~~~ei~~~l~  171 (319)
T PRK00440         94 RTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSR--CAVFRFSPLKKEAVAERLR  171 (319)
T ss_pred             hcCCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHH--hheeeeCCCCHHHHHHHHH
Confidence                0  0    167888632  33445554444444566777776432 221111 11  3468999999999988887


Q ss_pred             hccc
Q 041795          315 NCAF  318 (471)
Q Consensus       315 ~~a~  318 (471)
                      ..+-
T Consensus       172 ~~~~  175 (319)
T PRK00440        172 YIAE  175 (319)
T ss_pred             HHHH
Confidence            7664

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.68  E-value=0.00022  Score=74.58  Aligned_cols=136  Identities=22%  Similarity=0.223  Sum_probs=87.4

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc--------c-----------------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF--------E-----------------  236 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f--------~-----------------  236 (471)
                      ...+++|-+..++.|...+..+. -...+.++|..|+||||+|+.+++.+...-        .                 
T Consensus        19 ~f~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~   97 (507)
T PRK06645         19 NFAELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHP   97 (507)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCC
Confidence            34578999998998888776332 245789999999999999999998753211        0                 


Q ss_pred             ceEeeeh--------hhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEE-EeCChhhhhhhCc
Q 041795          237 GNCFLGN--------VREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIII-TTRDKWILDKFGV  293 (471)
Q Consensus       237 ~~~~~~~--------~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~Iii-TTR~~~v~~~~~~  293 (471)
                      ....++.        +++....       +     |+|+++.  ...++.|+..+....+.+.+|+ ||+...+...+..
T Consensus        98 Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~S  177 (507)
T PRK06645         98 DIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIIS  177 (507)
T ss_pred             cEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHh
Confidence            0111111        1111100       0     8999975  4567777776665555666655 5554444433321


Q ss_pred             CCCceEEeCCCCHHHHHHHHHhcccc
Q 041795          294 HDTNVYEVNGLRYHEALELFCNCAFK  319 (471)
Q Consensus       294 ~~~~~~~l~~L~~~ea~~Lf~~~a~~  319 (471)
                       ....+++.+++.++....+.+.+-.
T Consensus       178 -Rc~~~ef~~ls~~el~~~L~~i~~~  202 (507)
T PRK06645        178 -RCQRYDLRRLSFEEIFKLLEYITKQ  202 (507)
T ss_pred             -cceEEEccCCCHHHHHHHHHHHHHH
Confidence             1457999999999999988877643

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.67  E-value=0.00051  Score=73.39  Aligned_cols=133  Identities=17%  Similarity=0.221  Sum_probs=86.2

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc--------------------------c
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE--------------------------F  235 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------------f  235 (471)
                      ..++++|-+..++.|.+++..+. -...+.++|..|+||||+|+.+++.+...                          +
T Consensus        14 ~f~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g~h   92 (618)
T PRK14951         14 SFSEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSGRF   92 (618)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcCCC
Confidence            34578998888888888887432 34577899999999999999997764321                          1


Q ss_pred             cceEeee--------hhhhhhhc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCC-hhhhhhh-
Q 041795          236 EGNCFLG--------NVREESEK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRD-KWILDKF-  291 (471)
Q Consensus       236 ~~~~~~~--------~~~~~~~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~-~~v~~~~-  291 (471)
                      .....++        .+++....       +     |||+|+  +...++.|+..+.......++|++|.+ ..+...+ 
T Consensus        93 ~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIl  172 (618)
T PRK14951         93 VDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVL  172 (618)
T ss_pred             CceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHH
Confidence            1122222        12222111       1     899997  445677787776655556666665544 3333221 


Q ss_pred             CcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          292 GVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       292 ~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..  ...+++++|+.++....+.+.+
T Consensus       173 SR--c~~~~f~~Ls~eei~~~L~~i~  196 (618)
T PRK14951        173 SR--CLQFNLRPMAPETVLEHLTQVL  196 (618)
T ss_pred             Hh--ceeeecCCCCHHHHHHHHHHHH
Confidence            22  4679999999999988887655

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.67  E-value=0.00021  Score=72.65  Aligned_cols=132  Identities=15%  Similarity=0.150  Sum_probs=85.2

Q ss_pred             CCccccchhHHHHHHhhhcCCC--------CceEEEEeccCcchhhhHHHHHHHhhhccc--------------------
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRP--------DFRIVGIWGMGGTGKTTLAGAIFNLIYKEF--------------------  235 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~--------~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f--------------------  235 (471)
                      ++++|-+..++.|.+.+..+.+        -...+.++|+.|+|||++|+.++..+....                    
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~h   84 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTH   84 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            4688988888889988874321        246788999999999999999987643221                    


Q ss_pred             cceEee---------ehhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhh
Q 041795          236 EGNCFL---------GNVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKF  291 (471)
Q Consensus       236 ~~~~~~---------~~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~  291 (471)
                      ....++         ..+++....       +     ++|+++.  ....+.|+..+.....+..+|++|.+. .+...+
T Consensus        85 pD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTI  164 (394)
T PRK07940         85 PDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTI  164 (394)
T ss_pred             CCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHH
Confidence            111122         122222111       1     7899873  445566766665555677777777664 333222


Q ss_pred             CcCCCceEEeCCCCHHHHHHHHHhc
Q 041795          292 GVHDTNVYEVNGLRYHEALELFCNC  316 (471)
Q Consensus       292 ~~~~~~~~~l~~L~~~ea~~Lf~~~  316 (471)
                      .. ....+.+++++.++..+.+...
T Consensus       165 rS-Rc~~i~f~~~~~~~i~~~L~~~  188 (394)
T PRK07940        165 RS-RCRHVALRTPSVEAVAEVLVRR  188 (394)
T ss_pred             Hh-hCeEEECCCCCHHHHHHHHHHh
Confidence            11 1468999999999999888743

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.66  E-value=0.00022  Score=73.41  Aligned_cols=134  Identities=17%  Similarity=0.161  Sum_probs=85.1

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcccc---------------------ceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE---------------------GNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~---------------------~~~~  240 (471)
                      ...+++|-+..+..|..++..+. -...+.++|..|+||||+|+.+++.+...-.                     ....
T Consensus        16 ~f~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~dviE   94 (484)
T PRK14956         16 FFRDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGISSDVLE   94 (484)
T ss_pred             CHHHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCCcccee
Confidence            34578999999999998887432 2346899999999999999999887543210                     0011


Q ss_pred             ee--------hhhhhhh-------cC-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCC-hhhhhhhCcCCCc
Q 041795          241 LG--------NVREESE-------KG-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRD-KWILDKFGVHDTN  297 (471)
Q Consensus       241 ~~--------~~~~~~~-------~~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~-~~v~~~~~~~~~~  297 (471)
                      +.        .+++...       .+     |+|+++  +...++.|+..+........+|++|.+ ..+...+.. ...
T Consensus        95 Idaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~S-RCq  173 (484)
T PRK14956         95 IDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILS-RCQ  173 (484)
T ss_pred             echhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHh-hhh
Confidence            11        1111111       01     899997  455688887777654455655555543 333322211 145


Q ss_pred             eEEeCCCCHHHHHHHHHhcc
Q 041795          298 VYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .|.+.+++.++....+.+.+
T Consensus       174 ~~~f~~ls~~~i~~~L~~i~  193 (484)
T PRK14956        174 DFIFKKVPLSVLQDYSEKLC  193 (484)
T ss_pred             eeeecCCCHHHHHHHHHHHH
Confidence            69999999999888777765

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.64  E-value=0.00024  Score=73.76  Aligned_cols=135  Identities=18%  Similarity=0.219  Sum_probs=86.4

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc---------------------cccceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK---------------------EFEGNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~---------------------~f~~~~~  240 (471)
                      ...+++|-+..++.|.+.+..+. -...+.++|..|+||||+|+.++..+..                     .+.....
T Consensus        11 ~f~dliGQe~vv~~L~~a~~~~r-i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~e   89 (491)
T PRK14964         11 SFKDLVGQDVLVRILRNAFTLNK-IPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIE   89 (491)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEE
Confidence            34678999988888888776332 2457899999999999999999875421                     1112223


Q ss_pred             eeh--------hhhhhhc------------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCC-hhhhhhhCcCCCc
Q 041795          241 LGN--------VREESEK------------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRD-KWILDKFGVHDTN  297 (471)
Q Consensus       241 ~~~--------~~~~~~~------------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~-~~v~~~~~~~~~~  297 (471)
                      ++.        +++....            -|+|+++.  ...++.|+..+....+.+.+|++|.+ ..+...+.. ...
T Consensus        90 idaas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~S-Rc~  168 (491)
T PRK14964         90 IDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIIS-RCQ  168 (491)
T ss_pred             EecccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHH-hhe
Confidence            322        1111110            08899863  34567777766655567777766543 333332211 146


Q ss_pred             eEEeCCCCHHHHHHHHHhccc
Q 041795          298 VYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      .+++.+++.++....+.+.+-
T Consensus       169 ~~~f~~l~~~el~~~L~~ia~  189 (491)
T PRK14964        169 RFDLQKIPTDKLVEHLVDIAK  189 (491)
T ss_pred             eeecccccHHHHHHHHHHHHH
Confidence            789999999998888877654

>PRK06620 hypothetical protein; Validated

Probab=97.63  E-value=0.00016  Score=67.43  Aligned_cols=105  Identities=18%  Similarity=0.105  Sum_probs=63.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhhhhhhc---CcccccCCHhh--HHHHhcCCCCCCCCcEEEEEe
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEK---GVLDDVNKIGQ--LQYLTCGLDRFGPGSRIIITT  282 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~~~~~~---~VLDdv~~~~~--~~~l~~~~~~~~~gs~IiiTT  282 (471)
                      +.+-|+|.+|+|||+|++.+++.....|....+.  ..+....   -++||+....+  +-.+...+.  ..|..||+|+
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~~~~~--~~~~~~~~d~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits  120 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNAYIIKDIFF--NEEILEKYNAFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTS  120 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCCEEcchhhh--chhHHhcCCEEEEeccccchHHHHHHHHHHHH--hcCCEEEEEc
Confidence            6789999999999999999877643222111100  0011111   27899974332  222222221  3467899998


Q ss_pred             CChh-------hhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          283 RDKW-------ILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       283 R~~~-------v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      +...       +...+..  .-++++++++.++-..++.+.+-
T Consensus       121 ~~~p~~l~l~~L~SRl~~--gl~~~l~~pd~~~~~~~l~k~~~  161 (214)
T PRK06620        121 SDKSRNFTLPDLSSRIKS--VLSILLNSPDDELIKILIFKHFS  161 (214)
T ss_pred             CCCccccchHHHHHHHhC--CceEeeCCCCHHHHHHHHHHHHH
Confidence            7542       2233332  45899999999998888877653

>PTZ00202 tuzin; Provisional

Probab=97.61  E-value=8.1e-05  Score=74.88  Aligned_cols=52  Identities=19%  Similarity=0.164  Sum_probs=43.5

Q ss_pred             cCCCCccccchhHHHHHHhhhcCC-CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          181 TNFDGLVGLNSRIEKIKSLLCIGR-PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       181 ~~~~~~vGr~~~~~~l~~~L~~~~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+...|+||+.++.+|...|...+ ...+++.|.|++|+|||||++.+.....
T Consensus       259 a~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~  311 (550)
T PTZ00202        259 AVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG  311 (550)
T ss_pred             CCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC
Confidence            367899999999999999997433 3356999999999999999999986643

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=97.59  E-value=0.00023  Score=76.17  Aligned_cols=134  Identities=19%  Similarity=0.243  Sum_probs=84.0

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~  240 (471)
                      ...+++|.+..++.|..++..+. -...+.++|..|+||||+|+.+.+.+...                     |.....
T Consensus        14 tFddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~DvlE   92 (709)
T PRK08691         14 TFADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLLE   92 (709)
T ss_pred             CHHHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceEE
Confidence            33578999999999999887432 24578999999999999999998764221                     111122


Q ss_pred             ee--------hhhhhhhc------------CcccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhh-CcCCC
Q 041795          241 LG--------NVREESEK------------GVLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKF-GVHDT  296 (471)
Q Consensus       241 ~~--------~~~~~~~~------------~VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~-~~~~~  296 (471)
                      +.        .+++....            -|+|+++..  ...+.|+..+......+++|++|.+.. +...+ ..  .
T Consensus        93 idaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSR--C  170 (709)
T PRK08691         93 IDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSR--C  170 (709)
T ss_pred             EeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHH--H
Confidence            21        12222110            189998743  345566655544445667777765542 22111 11  3


Q ss_pred             ceEEeCCCCHHHHHHHHHhccc
Q 041795          297 NVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      ..+++.+++.++....+.+.+-
T Consensus       171 ~~f~f~~Ls~eeI~~~L~~Il~  192 (709)
T PRK08691        171 LQFVLRNMTAQQVADHLAHVLD  192 (709)
T ss_pred             hhhhcCCCCHHHHHHHHHHHHH
Confidence            4578889999998887776553

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.58  E-value=0.00046  Score=76.25  Aligned_cols=132  Identities=16%  Similarity=0.158  Sum_probs=86.4

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc------------------------ccce
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE------------------------FEGN  238 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------------------------f~~~  238 (471)
                      ...++|-+..++.|...+..+. -...+.++|..|+||||+|+.+++.+...                        ++ .
T Consensus        14 f~eiiGqe~v~~~L~~~i~~~r-i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~d-v   91 (824)
T PRK07764         14 FAEVIGQEHVTEPLSTALDSGR-INHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLD-V   91 (824)
T ss_pred             HHHhcCcHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCc-E
Confidence            3568999999999999887432 23467899999999999999998876421                        11 1


Q ss_pred             Eeee--------hhhhhhhc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCC-hhhhhhhCcCC
Q 041795          239 CFLG--------NVREESEK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRD-KWILDKFGVHD  295 (471)
Q Consensus       239 ~~~~--------~~~~~~~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~-~~v~~~~~~~~  295 (471)
                      ..++        .+++....       +     |||+++  +....+.|+..+......+.+|++|.+ ..+...+.. .
T Consensus        92 ~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrS-R  170 (824)
T PRK07764         92 TEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRS-R  170 (824)
T ss_pred             EEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHh-h
Confidence            2222        12221110       0     899997  345667777777665566666665543 344433221 1


Q ss_pred             CceEEeCCCCHHHHHHHHHhcc
Q 041795          296 TNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       296 ~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ...|++..++.++....+.+..
T Consensus       171 c~~v~F~~l~~~~l~~~L~~il  192 (824)
T PRK07764        171 THHYPFRLVPPEVMRGYLERIC  192 (824)
T ss_pred             eeEEEeeCCCHHHHHHHHHHHH
Confidence            5679999999999888777644

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.57  E-value=0.00057  Score=68.77  Aligned_cols=134  Identities=17%  Similarity=0.235  Sum_probs=85.8

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc----------------------cccceE
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK----------------------EFEGNC  239 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~----------------------~f~~~~  239 (471)
                      ....++|.+..++.+.+.+..+. -...+.++|.+|+||||+|+.+...+..                      +++. .
T Consensus        12 ~~~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~-~   89 (355)
T TIGR02397        12 TFEDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV-I   89 (355)
T ss_pred             cHhhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE-E
Confidence            33568999999999999886432 2457889999999999999999887532                      1222 2


Q ss_pred             eeehh--------hhhhhc-------C-----cccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCC
Q 041795          240 FLGNV--------REESEK-------G-----VLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDT  296 (471)
Q Consensus       240 ~~~~~--------~~~~~~-------~-----VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~  296 (471)
                      .+...        ++....       +     |+|+++..  ...+.|+..+......+.+|++|.+.. +...+.. ..
T Consensus        90 ~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~s-r~  168 (355)
T TIGR02397        90 EIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILS-RC  168 (355)
T ss_pred             EeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHh-he
Confidence            22211        111110       0     78988643  456666666655455677777775544 2222211 14


Q ss_pred             ceEEeCCCCHHHHHHHHHhccc
Q 041795          297 NVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      ..+++++++.++....+...+-
T Consensus       169 ~~~~~~~~~~~~l~~~l~~~~~  190 (355)
T TIGR02397       169 QRFDFKRIPLEDIVERLKKILD  190 (355)
T ss_pred             eEEEcCCCCHHHHHHHHHHHHH
Confidence            5789999999998888877553

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

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.57  E-value=0.00042  Score=67.51  Aligned_cols=133  Identities=16%  Similarity=0.161  Sum_probs=73.4

Q ss_pred             CccccchhHHHHHHhhh----------cC--C-CCceEEEEeccCcchhhhHHHHHHHhhhcc--cc--ceEeeehh---
Q 041795          185 GLVGLNSRIEKIKSLLC----------IG--R-PDFRIVGIWGMGGTGKTTLAGAIFNLIYKE--FE--GNCFLGNV---  244 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~----------~~--~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--f~--~~~~~~~~---  244 (471)
                      .++|.++.+++|.++..          .+  . ....-+.++|.+|+|||++|+.++..+...  ..  ..+.+...   
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~  102 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLV  102 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHh
Confidence            36777766666654321          01  0 112358899999999999998887764321  11  11111110   


Q ss_pred             -----------hhhhhc---C--cccccCC-----------HhhHHHHhcCCCCCCCCcEEEEEeCChhhhhhhCc----
Q 041795          245 -----------REESEK---G--VLDDVNK-----------IGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGV----  293 (471)
Q Consensus       245 -----------~~~~~~---~--VLDdv~~-----------~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~~~~----  293 (471)
                                 .+....   +  +||++..           .+..+.|...+.....+.+||.++.....-.....    
T Consensus       103 ~~~~g~~~~~~~~~~~~a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L  182 (284)
T TIGR02880       103 GQYIGHTAPKTKEILKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGF  182 (284)
T ss_pred             HhhcccchHHHHHHHHHccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHH
Confidence                       001111   2  7898852           22345555555544456677777654322111111    


Q ss_pred             --CCCceEEeCCCCHHHHHHHHHhcc
Q 041795          294 --HDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       294 --~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                        .-...+++++++.+|-..++...+
T Consensus       183 ~sR~~~~i~fp~l~~edl~~I~~~~l  208 (284)
T TIGR02880       183 SSRVAHHVDFPDYSEAELLVIAGLML  208 (284)
T ss_pred             HhhCCcEEEeCCcCHHHHHHHHHHHH
Confidence              003568999999999999888765

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

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=97.53  E-value=0.0012  Score=66.05  Aligned_cols=134  Identities=15%  Similarity=0.126  Sum_probs=85.1

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc----cc----------c----------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE----FE----------G----------  237 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~----f~----------~----------  237 (471)
                      ....++|-+...+.+...+..+. -...+.|+|..|+||||+|..+++.+..+    +.          +          
T Consensus        21 ~~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i~~~~   99 (351)
T PRK09112         21 ENTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQIAQGA   99 (351)
T ss_pred             chhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHHHcCC
Confidence            56779999999999999886432 34578999999999999999998875431    10          0          


Q ss_pred             ---eEeeeh---h--------------hhhh---h----cC-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeC
Q 041795          238 ---NCFLGN---V--------------REES---E----KG-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTR  283 (471)
Q Consensus       238 ---~~~~~~---~--------------~~~~---~----~~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR  283 (471)
                         ..++..   .              ++..   .    .+     |+|+++  +....+.|+..+.....+..+|++|.
T Consensus       100 hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit~  179 (351)
T PRK09112        100 HPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISH  179 (351)
T ss_pred             CCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEEC
Confidence               011210   0              0000   0    00     789997  34456666666554445555555554


Q ss_pred             Ch-hhhhhhCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          284 DK-WILDKFGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       284 ~~-~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .. .+...+.. ....+++++++.++...++.+..
T Consensus       180 ~~~~llptIrS-Rc~~i~l~pl~~~~~~~~L~~~~  213 (351)
T PRK09112        180 SSGRLLPTIRS-RCQPISLKPLDDDELKKALSHLG  213 (351)
T ss_pred             ChhhccHHHHh-hccEEEecCCCHHHHHHHHHHhh
Confidence            43 33322221 14689999999999999998743

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.53  E-value=0.00021  Score=76.42  Aligned_cols=133  Identities=19%  Similarity=0.230  Sum_probs=86.4

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~  240 (471)
                      ...++||-+..++.|.+.+..+. -...+.++|..|+||||+|+.+++.+...                     |.....
T Consensus        14 ~f~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~ie   92 (647)
T PRK07994         14 TFAEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDLIE   92 (647)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCcee
Confidence            34678999999999998887432 23457899999999999999998875432                     111122


Q ss_pred             ee--------hhhhhhhc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhh-CcCCC
Q 041795          241 LG--------NVREESEK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKF-GVHDT  296 (471)
Q Consensus       241 ~~--------~~~~~~~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~-~~~~~  296 (471)
                      +.        .+++....       |     |+|+++  +....+.|+..+.......++|++|.+. .+...+ ..  .
T Consensus        93 idaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SR--C  170 (647)
T PRK07994         93 IDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR--C  170 (647)
T ss_pred             ecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhh--h
Confidence            22        11211110       1     899996  4456777777666555566666655544 333222 22  4


Q ss_pred             ceEEeCCCCHHHHHHHHHhcc
Q 041795          297 NVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..|++++|+.++....+.+..
T Consensus       171 ~~~~f~~Ls~~ei~~~L~~il  191 (647)
T PRK07994        171 LQFHLKALDVEQIRQQLEHIL  191 (647)
T ss_pred             eEeeCCCCCHHHHHHHHHHHH
Confidence            679999999999998887654

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

Probab=97.51  E-value=0.00033  Score=77.29  Aligned_cols=47  Identities=28%  Similarity=0.372  Sum_probs=39.3

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +.++||+.+++++.+.|....  ..-+.++|.+|+|||++|+.+++.+.
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~--~~n~lL~G~pG~GKT~l~~~la~~~~  228 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRK--KNNPLLVGEPGVGKTAIAEGLALRIA  228 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCC--CCceEEECCCCCCHHHHHHHHHHHHH
Confidence            568999999999999887442  33467999999999999999999863

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.50  E-value=0.0011  Score=69.71  Aligned_cols=134  Identities=16%  Similarity=0.140  Sum_probs=84.2

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~  240 (471)
                      ...++||-+..++.|.+++..+. -...+.++|..|+||||+|+.+++.+...                     +.....
T Consensus        14 ~f~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~e   92 (509)
T PRK14958         14 CFQEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFE   92 (509)
T ss_pred             CHHHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEE
Confidence            33578999999999999987432 24467899999999999999998875321                     111222


Q ss_pred             eeh--------hhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCc
Q 041795          241 LGN--------VREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTN  297 (471)
Q Consensus       241 ~~~--------~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~  297 (471)
                      +..        +++....       +     |+|+++.  ....+.|+..+......+++|++|-+. .+...+.. ...
T Consensus        93 idaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~S-Rc~  171 (509)
T PRK14958         93 VDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLS-RCL  171 (509)
T ss_pred             EcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHH-Hhh
Confidence            321        1111110       1     8999974  456677776666555667777665543 22222110 135


Q ss_pred             eEEeCCCCHHHHHHHHHhcc
Q 041795          298 VYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .+++++++.++....+.+.+
T Consensus       172 ~~~f~~l~~~~i~~~l~~il  191 (509)
T PRK14958        172 QFHLAQLPPLQIAAHCQHLL  191 (509)
T ss_pred             hhhcCCCCHHHHHHHHHHHH
Confidence            68899999888766554443

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.49  E-value=0.0013  Score=70.99  Aligned_cols=48  Identities=25%  Similarity=0.337  Sum_probs=39.1

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+.++|.+..++.+.+.+..  .....+.|+|.+|+||||||+.+++..
T Consensus       152 ~~~~iiGqs~~~~~l~~~ia~--~~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       152 AFSEIVGQERAIKALLAKVAS--PFPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             cHHhceeCcHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            345789999999988877742  335679999999999999999998764

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

>CHL00181 cbbX CbbX; Provisional

Probab=97.49  E-value=0.00072  Score=65.92  Aligned_cols=134  Identities=17%  Similarity=0.161  Sum_probs=74.9

Q ss_pred             CccccchhHHHHHHhhh------------cCC-CCceEEEEeccCcchhhhHHHHHHHhhhcc-c-c--ceEeeehh---
Q 041795          185 GLVGLNSRIEKIKSLLC------------IGR-PDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-F-E--GNCFLGNV---  244 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~------------~~~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f-~--~~~~~~~~---  244 (471)
                      .++|.+..+++|.++..            ... .....+.++|.+|+||||+|+.+++..... + .  ....+...   
T Consensus        24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l~  103 (287)
T CHL00181         24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLV  103 (287)
T ss_pred             hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHHH
Confidence            36777666665544321            011 123358899999999999999998764221 1 1  11111100   


Q ss_pred             -----------hhhhh---cC--cccccCC-----------HhhHHHHhcCCCCCCCCcEEEEEeCChhhhhhhCc----
Q 041795          245 -----------REESE---KG--VLDDVNK-----------IGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGV----  293 (471)
Q Consensus       245 -----------~~~~~---~~--VLDdv~~-----------~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~~~~----  293 (471)
                                 .....   .+  +||+++.           .+..+.|...+.....+.+||.++....+......    
T Consensus       104 ~~~~g~~~~~~~~~l~~a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L  183 (287)
T CHL00181        104 GQYIGHTAPKTKEVLKKAMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGL  183 (287)
T ss_pred             HHHhccchHHHHHHHHHccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHH
Confidence                       00111   12  7898853           23345555555544456777777754333211100    


Q ss_pred             --CCCceEEeCCCCHHHHHHHHHhccc
Q 041795          294 --HDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       294 --~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                        .-...+++++++.+|-.+++...+-
T Consensus       184 ~sR~~~~i~F~~~t~~el~~I~~~~l~  210 (287)
T CHL00181        184 SSRIANHVDFPDYTPEELLQIAKIMLE  210 (287)
T ss_pred             HHhCCceEEcCCcCHHHHHHHHHHHHH
Confidence              0045789999999999988877653

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.48  E-value=0.00085  Score=70.07  Aligned_cols=132  Identities=20%  Similarity=0.244  Sum_probs=79.8

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccc-----cceEeeehh---
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF-----EGNCFLGNV---  244 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-----~~~~~~~~~---  244 (471)
                      .++.|.+..++++.+.+..           +-...+-+.++|++|+|||++|+.+++.+...+     ....|+...   
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~e  261 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPE  261 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchh
Confidence            4578899999988876531           112356789999999999999999999865431     122333210   


Q ss_pred             -------------hhh-------hh---c--CcccccCCHh--------------hHHHHhcCCCCCC--CCcEEEEEeC
Q 041795          245 -------------REE-------SE---K--GVLDDVNKIG--------------QLQYLTCGLDRFG--PGSRIIITTR  283 (471)
Q Consensus       245 -------------~~~-------~~---~--~VLDdv~~~~--------------~~~~l~~~~~~~~--~gs~IiiTTR  283 (471)
                                   +..       ..   .  -+||+++...              .+..|+..++...  .+..||.||.
T Consensus       262 Ll~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN  341 (512)
T TIGR03689       262 LLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGASN  341 (512)
T ss_pred             hcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEeccC
Confidence                         000       00   0  1678886320              1234444443222  3445566665


Q ss_pred             Chhhhhh-----hCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          284 DKWILDK-----FGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       284 ~~~v~~~-----~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ....+..     ...  +..++++..+.++..++|..+.
T Consensus       342 ~~d~LDpALlRpGRf--D~~I~~~~Pd~e~r~~Il~~~l  378 (512)
T TIGR03689       342 REDMIDPAILRPGRL--DVKIRIERPDAEAAADIFSKYL  378 (512)
T ss_pred             ChhhCCHhhcCcccc--ceEEEeCCCCHHHHHHHHHHHh
Confidence            5433221     122  4568999999999999998875

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

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=97.47  E-value=0.00048  Score=72.89  Aligned_cols=133  Identities=18%  Similarity=0.139  Sum_probs=84.1

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc------c---------------cceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE------F---------------EGNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f---------------~~~~~  240 (471)
                      ....++|.+..++.+.+.+..+. -...+.++|+.|+||||+|+.+++.+...      .               ....+
T Consensus        14 ~F~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~Diie   92 (605)
T PRK05896         14 NFKQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVDIVE   92 (605)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCCceEE
Confidence            34578999999999998886432 24678899999999999999998875321      0               01122


Q ss_pred             eeh--------hhhhhhc------------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCC-hhhhhh-hCcCCC
Q 041795          241 LGN--------VREESEK------------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRD-KWILDK-FGVHDT  296 (471)
Q Consensus       241 ~~~--------~~~~~~~------------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~-~~v~~~-~~~~~~  296 (471)
                      +..        +++....            -|+|+++.  ...++.|+..+......+.+|++|.. ..+... ...  .
T Consensus        93 Idaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SR--c  170 (605)
T PRK05896         93 LDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISR--C  170 (605)
T ss_pred             eccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhh--h
Confidence            221        1111110            08899864  45566776655544455666555533 333322 112  4


Q ss_pred             ceEEeCCCCHHHHHHHHHhcc
Q 041795          297 NVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..+++.+++.++....+...+
T Consensus       171 q~ieF~~Ls~~eL~~~L~~il  191 (605)
T PRK05896        171 QRYNFKKLNNSELQELLKSIA  191 (605)
T ss_pred             hhcccCCCCHHHHHHHHHHHH
Confidence            579999999999988777655

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

Probab=97.47  E-value=0.00069  Score=68.98  Aligned_cols=133  Identities=24%  Similarity=0.279  Sum_probs=78.8

Q ss_pred             CCCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceE-------eeehh
Q 041795          183 FDGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC-------FLGNV  244 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~-------~~~~~  244 (471)
                      -.++.|.+..+++|.+.+..           +-...+-+.++|.+|+|||+||+.+++.....|-...       |+...
T Consensus       144 ~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~k~~ge~  223 (398)
T PTZ00454        144 YSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLGEG  223 (398)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHHHhcchh
Confidence            35688999999888876531           1134678999999999999999999987554432110       11110


Q ss_pred             ----hhhhh----c----CcccccCCH-------------h---hHHHHhcCCCCC--CCCcEEEEEeCChhhhhh----
Q 041795          245 ----REESE----K----GVLDDVNKI-------------G---QLQYLTCGLDRF--GPGSRIIITTRDKWILDK----  290 (471)
Q Consensus       245 ----~~~~~----~----~VLDdv~~~-------------~---~~~~l~~~~~~~--~~gs~IiiTTR~~~v~~~----  290 (471)
                          ++...    .    -+||+++..             .   .+..++..+..+  ..+..||.||.....+..    
T Consensus       224 ~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpAllR  303 (398)
T PTZ00454        224 PRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLR  303 (398)
T ss_pred             HHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHHHcC
Confidence                00000    0    167886521             0   122333333322  235678888876543321    


Q ss_pred             -hCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          291 -FGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       291 -~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                       ...  +..++++..+.++-..+|..+.
T Consensus       304 ~GRf--d~~I~~~~P~~~~R~~Il~~~~  329 (398)
T PTZ00454        304 PGRL--DRKIEFPLPDRRQKRLIFQTIT  329 (398)
T ss_pred             CCcc--cEEEEeCCcCHHHHHHHHHHHH
Confidence             122  4568999888888877777554

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

Probab=97.47  E-value=0.00016  Score=66.68  Aligned_cols=137  Identities=20%  Similarity=0.211  Sum_probs=72.8

Q ss_pred             CCCCccccchhHHHHHHhhh---cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEe--eehhhhhh------hc
Q 041795          182 NFDGLVGLNSRIEKIKSLLC---IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF--LGNVREES------EK  250 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~---~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~--~~~~~~~~------~~  250 (471)
                      .-++|+|-+.-++.+.-++.   ..++.+..+.+||++|+||||||..+++.....|...-=  +....+..      ..
T Consensus        22 ~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k~~dl~~il~~l~~  101 (233)
T PF05496_consen   22 SLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEKAGDLAAILTNLKE  101 (233)
T ss_dssp             SCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--SCHHHHHHHHT--T
T ss_pred             CHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhhHHHHHHHHHhcCC
Confidence            44689999988888776654   234457889999999999999999999998777642110  11111110      01


Q ss_pred             C---cccccC--CHhhHHHHhcCCCCC--------CCC-----------cEEEEEeCChhhhhhhCcCCCceEEeCCCCH
Q 041795          251 G---VLDDVN--KIGQLQYLTCGLDRF--------GPG-----------SRIIITTRDKWILDKFGVHDTNVYEVNGLRY  306 (471)
Q Consensus       251 ~---VLDdv~--~~~~~~~l~~~~~~~--------~~g-----------s~IiiTTR~~~v~~~~~~~~~~~~~l~~L~~  306 (471)
                      +   .+|.+.  +..+-+.|.+.+..+        +++           +-|=-|||...+...+...=.-+.++...+.
T Consensus       102 ~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrdRFgi~~~l~~Y~~  181 (233)
T PF05496_consen  102 GDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRDRFGIVLRLEFYSE  181 (233)
T ss_dssp             T-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCTTSSEEEE----TH
T ss_pred             CcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhHHhhcceecchhcCCH
Confidence            1   678886  344444444333211        111           2244477765443322210023457888999


Q ss_pred             HHHHHHHHhccc
Q 041795          307 HEALELFCNCAF  318 (471)
Q Consensus       307 ~ea~~Lf~~~a~  318 (471)
                      +|-..+..+.+-
T Consensus       182 ~el~~Iv~r~a~  193 (233)
T PF05496_consen  182 EELAKIVKRSAR  193 (233)
T ss_dssp             HHHHHHHHHCCH
T ss_pred             HHHHHHHHHHHH
Confidence            998888887663

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

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=97.43  E-value=0.00099  Score=60.68  Aligned_cols=120  Identities=22%  Similarity=0.173  Sum_probs=73.3

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEeee---------hh
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCFLG---------NV  244 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~~~---------~~  244 (471)
                      .+.+.+..+ .-...+.++|..|+||||+|+.+...+...                     +....++.         .+
T Consensus         3 ~l~~~i~~~-~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i   81 (188)
T TIGR00678         3 QLKRALEKG-RLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQV   81 (188)
T ss_pred             HHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHH
Confidence            344444422 224678999999999999999998875431                     11112221         11


Q ss_pred             hhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCceEEeCCCCHHHH
Q 041795          245 REESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTNVYEVNGLRYHEA  309 (471)
Q Consensus       245 ~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~~~~l~~L~~~ea  309 (471)
                      ++....       +     |+||++.  ....+.|+..+......+.+|++|++. .+...+.. ....+++.+++.++.
T Consensus        82 ~~i~~~~~~~~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~s-r~~~~~~~~~~~~~~  160 (188)
T TIGR00678        82 RELVEFLSRTPQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRS-RCQVLPFPPLSEEAL  160 (188)
T ss_pred             HHHHHHHccCcccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHh-hcEEeeCCCCCHHHH
Confidence            111100       1     8899864  345667777666555667777777654 22222211 146899999999999


Q ss_pred             HHHHHhc
Q 041795          310 LELFCNC  316 (471)
Q Consensus       310 ~~Lf~~~  316 (471)
                      .+.+.+.
T Consensus       161 ~~~l~~~  167 (188)
T TIGR00678       161 LQWLIRQ  167 (188)
T ss_pred             HHHHHHc
Confidence            8888776

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.39  E-value=0.00041  Score=66.27  Aligned_cols=156  Identities=21%  Similarity=0.229  Sum_probs=98.6

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc--cccceEe-eeh--------hh----h
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK--EFEGNCF-LGN--------VR----E  246 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~--~f~~~~~-~~~--------~~----~  246 (471)
                      ..+.++|-+..+..|.+.+..  ...+....+|++|.|||+-|..++..+-.  -|.+.+- .++        ++    .
T Consensus        34 t~de~~gQe~vV~~L~~a~~~--~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Kik~  111 (346)
T KOG0989|consen   34 TFDELAGQEHVVQVLKNALLR--RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKIKN  111 (346)
T ss_pred             cHHhhcchHHHHHHHHHHHhh--cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhhcC
Confidence            446789999888888888764  46788999999999999999999887533  2443332 110        00    0


Q ss_pred             hhhc-----------------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCCceEEeCCCCH
Q 041795          247 ESEK-----------------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDTNVYEVNGLRY  306 (471)
Q Consensus       247 ~~~~-----------------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~~~~~l~~L~~  306 (471)
                      +...                 -|||+++.  .+.|..|...+..+..-++.|+.+-.-. +...+ .....-|..++|..
T Consensus       112 fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi-~SRC~KfrFk~L~d  190 (346)
T KOG0989|consen  112 FAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPL-VSRCQKFRFKKLKD  190 (346)
T ss_pred             HHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHH-HhhHHHhcCCCcch
Confidence            0000                 08999985  4678888888877777777665544322 11111 00134588999999


Q ss_pred             HHHHHHHHhccccCC-CCCchHHHHHHHHHHHHhhhhc
Q 041795          307 HEALELFCNCAFKEN-HCPSGFLASSKRVLKVLGSFFH  343 (471)
Q Consensus       307 ~ea~~Lf~~~a~~~~-~~~~~~~~l~~~il~~lg~~L~  343 (471)
                      ++...-+...+-..+ ...   .+..+.|++.-++-||
T Consensus       191 ~~iv~rL~~Ia~~E~v~~d---~~al~~I~~~S~GdLR  225 (346)
T KOG0989|consen  191 EDIVDRLEKIASKEGVDID---DDALKLIAKISDGDLR  225 (346)
T ss_pred             HHHHHHHHHHHHHhCCCCC---HHHHHHHHHHcCCcHH
Confidence            999888888775443 222   3333444555555544

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.39  E-value=0.0022  Score=69.75  Aligned_cols=51  Identities=25%  Similarity=0.245  Sum_probs=41.7

Q ss_pred             CCCCccccchhHHHHHHhhhc---CCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI---GRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++.+.||++++++|...|..   +.....++-|+|.+|.|||++++.|.+.+.
T Consensus       753 VPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELq  806 (1164)
T PTZ00112        753 VPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQ  806 (1164)
T ss_pred             CCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            557899999999999998863   233345778999999999999999988753

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

Probab=97.39  E-value=0.0008  Score=64.87  Aligned_cols=26  Identities=31%  Similarity=0.308  Sum_probs=23.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+.|+|.+|+|||||++.+++...
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence            45889999999999999999998765

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

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.37  E-value=0.0018  Score=69.41  Aligned_cols=133  Identities=17%  Similarity=0.201  Sum_probs=83.5

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------------  234 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------------  234 (471)
                      ....++|-+..++.|.+.+..+ .-...+.++|+.|+||||+|+.+++.+...                           
T Consensus        14 ~f~eivGQe~i~~~L~~~i~~~-ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~   92 (620)
T PRK14954         14 KFADITAQEHITHTIQNSLRMD-RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFDA   92 (620)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHhc
Confidence            3457899999889898888633 224468899999999999999998875321                           


Q ss_pred             ---ccceEe-------eehhhhhhhc-------C-----cccccCCH--hhHHHHhcCCCCCCCCcEEEEEe-CChhhhh
Q 041795          235 ---FEGNCF-------LGNVREESEK-------G-----VLDDVNKI--GQLQYLTCGLDRFGPGSRIIITT-RDKWILD  289 (471)
Q Consensus       235 ---f~~~~~-------~~~~~~~~~~-------~-----VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTT-R~~~v~~  289 (471)
                         ++...+       ++.+++....       +     |+|+++..  ...+.|+..+......+.+|++| +...+..
T Consensus        93 g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl~  172 (620)
T PRK14954         93 GTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPA  172 (620)
T ss_pred             cCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhH
Confidence               111111       1111111100       1     88998643  44667776666544556655554 4344433


Q ss_pred             hh-CcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          290 KF-GVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       290 ~~-~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .+ ..  ...+++.+++.++....+.+.+
T Consensus       173 TI~SR--c~~vef~~l~~~ei~~~L~~i~  199 (620)
T PRK14954        173 TIASR--CQRFNFKRIPLDEIQSQLQMIC  199 (620)
T ss_pred             HHHhh--ceEEecCCCCHHHHHHHHHHHH
Confidence            22 22  5679999999999887776654

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

Probab=97.36  E-value=0.00072  Score=69.47  Aligned_cols=132  Identities=27%  Similarity=0.312  Sum_probs=79.5

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceE-------eeeh--
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC-------FLGN--  243 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~-------~~~~--  243 (471)
                      .++.|.+..+++|.+.+..           +-...+-+.++|.+|+|||+||+.+++.....|-...       |+..  
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~k~~Ge~~  262 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLGDGP  262 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhhhhcchHH
Confidence            4578999999999887641           1123567889999999999999999998655442111       1100  


Q ss_pred             --hhhhhh---c-----CcccccCCH----------------hhHHHHhcCCCCC--CCCcEEEEEeCChhhhhhh----
Q 041795          244 --VREESE---K-----GVLDDVNKI----------------GQLQYLTCGLDRF--GPGSRIIITTRDKWILDKF----  291 (471)
Q Consensus       244 --~~~~~~---~-----~VLDdv~~~----------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~v~~~~----  291 (471)
                        ++....   .     -+||+++..                ..+..++..+..+  ..+..||.||.....+...    
T Consensus       263 ~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLlRp  342 (438)
T PTZ00361        263 KLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRP  342 (438)
T ss_pred             HHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhccC
Confidence              000000   0     156776421                0112233222221  2356788888765444321    


Q ss_pred             -CcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          292 -GVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       292 -~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                       ..  ...++++..+.++-.++|..+.
T Consensus       343 GRf--d~~I~~~~Pd~~~R~~Il~~~~  367 (438)
T PTZ00361        343 GRI--DRKIEFPNPDEKTKRRIFEIHT  367 (438)
T ss_pred             Cee--EEEEEeCCCCHHHHHHHHHHHH
Confidence             12  4578999999999999998765

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.34  E-value=0.0012  Score=70.48  Aligned_cols=134  Identities=19%  Similarity=0.238  Sum_probs=86.1

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcccc-----------c-------------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE-----------G-------------  237 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-----------~-------------  237 (471)
                      ...+++|.+..++.|.+.+..+. -...+.++|..|+||||+|+.+++.+.....           +             
T Consensus        22 ~f~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~g~h  100 (598)
T PRK09111         22 TFDDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIMEGRH  100 (598)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhcCCC
Confidence            44679999999999999887432 2457889999999999999999987543210           0             


Q ss_pred             --eEeee--------hhhhhhhc------------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEe-CChhhhhhhC
Q 041795          238 --NCFLG--------NVREESEK------------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITT-RDKWILDKFG  292 (471)
Q Consensus       238 --~~~~~--------~~~~~~~~------------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTT-R~~~v~~~~~  292 (471)
                        ..++.        .+++....            -|+|+++.  ....+.|+..+......+.+|++| ....+...+.
T Consensus       101 ~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~tI~  180 (598)
T PRK09111        101 VDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVL  180 (598)
T ss_pred             CceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhHHHH
Confidence              11211        11111110            08899864  345667776665555667766555 4334433321


Q ss_pred             cCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          293 VHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       293 ~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      . ....+++..++.++....+.+.+
T Consensus       181 S-Rcq~~~f~~l~~~el~~~L~~i~  204 (598)
T PRK09111        181 S-RCQRFDLRRIEADVLAAHLSRIA  204 (598)
T ss_pred             h-heeEEEecCCCHHHHHHHHHHHH
Confidence            1 14579999999999988887765

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.29  E-value=0.00053  Score=70.18  Aligned_cols=134  Identities=19%  Similarity=0.233  Sum_probs=83.6

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------------  234 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------------  234 (471)
                      ....++|-+..++.|.+++..+. -...+.++|+.|+||||+|..+++.+...                           
T Consensus        14 ~~~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~   92 (397)
T PRK14955         14 KFADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDA   92 (397)
T ss_pred             cHhhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhc
Confidence            34678999988888888886332 23458899999999999999999876431                           


Q ss_pred             ---ccceEe-------eehhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEe-CChhhhh
Q 041795          235 ---FEGNCF-------LGNVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITT-RDKWILD  289 (471)
Q Consensus       235 ---f~~~~~-------~~~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTT-R~~~v~~  289 (471)
                         ++...+       +..+++....       +     |+|+++.  ...++.|+..+....+.+.+|++| +...+..
T Consensus        93 ~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~  172 (397)
T PRK14955         93 GTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPA  172 (397)
T ss_pred             CCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHH
Confidence               111111       1111111100       0     8899874  345777776666555667766655 4333333


Q ss_pred             hhCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          290 KFGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       290 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .+.. ....+++++++.++....+...+
T Consensus       173 tl~s-R~~~v~f~~l~~~ei~~~l~~~~  199 (397)
T PRK14955        173 TIAS-RCQRFNFKRIPLEEIQQQLQGIC  199 (397)
T ss_pred             HHHH-HHHHhhcCCCCHHHHHHHHHHHH
Confidence            2211 03568999999998887776654

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.26  E-value=0.0012  Score=66.86  Aligned_cols=135  Identities=19%  Similarity=0.287  Sum_probs=83.1

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc--------cccceEe-ee--------hh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK--------EFEGNCF-LG--------NV  244 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~--------~f~~~~~-~~--------~~  244 (471)
                      .-++++|.+..++.+.+.+..+ .-...+.++|++|+||||+|+.+.+.+..        .|..... +.        .+
T Consensus        15 ~~~~iig~~~~~~~l~~~i~~~-~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i   93 (367)
T PRK14970         15 TFDDVVGQSHITNTLLNAIENN-HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDDI   93 (367)
T ss_pred             cHHhcCCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHHH
Confidence            3457899999999999988643 23458889999999999999999887543        1222221 11        11


Q ss_pred             hhhhh----c---C-----cccccCCH--hhHHHHhcCCCCCCCCcEEEEEe-CChhhhhhhCcCCCceEEeCCCCHHHH
Q 041795          245 REESE----K---G-----VLDDVNKI--GQLQYLTCGLDRFGPGSRIIITT-RDKWILDKFGVHDTNVYEVNGLRYHEA  309 (471)
Q Consensus       245 ~~~~~----~---~-----VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTT-R~~~v~~~~~~~~~~~~~l~~L~~~ea  309 (471)
                      ++...    .   +     ++|+++..  ..++.+...+......+.+|++| ....+...... ....+++++++.++.
T Consensus        94 ~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~s-r~~~v~~~~~~~~~l  172 (367)
T PRK14970         94 RNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILS-RCQIFDFKRITIKDI  172 (367)
T ss_pred             HHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHh-cceeEecCCccHHHH
Confidence            11111    0   1     78988643  34666655444334455555555 33333222211 145789999999998


Q ss_pred             HHHHHhccc
Q 041795          310 LELFCNCAF  318 (471)
Q Consensus       310 ~~Lf~~~a~  318 (471)
                      ...+...+.
T Consensus       173 ~~~l~~~~~  181 (367)
T PRK14970        173 KEHLAGIAV  181 (367)
T ss_pred             HHHHHHHHH
Confidence            888877654

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.26  E-value=0.00089  Score=70.84  Aligned_cols=132  Identities=20%  Similarity=0.212  Sum_probs=82.8

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEee
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCFL  241 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~~  241 (471)
                      ..+++|-+..++.|.+++..+. -...+.++|..|+||||+|+.++..+...                     |.....+
T Consensus        15 f~divGq~~v~~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei   93 (527)
T PRK14969         15 FSELVGQEHVVRALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEV   93 (527)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEe
Confidence            3568999999999998887332 24467899999999999999998875321                     1112222


Q ss_pred             eh--------hhhhhhc-------C-----cccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhh-CcCCCc
Q 041795          242 GN--------VREESEK-------G-----VLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRDK-WILDKF-GVHDTN  297 (471)
Q Consensus       242 ~~--------~~~~~~~-------~-----VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~-~~~~~~  297 (471)
                      ..        +++....       +     |+|+++..  ...+.|+..+......+.+|++|.+. .+...+ ..  ..
T Consensus        94 ~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SR--c~  171 (527)
T PRK14969         94 DAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR--CL  171 (527)
T ss_pred             eccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHH--HH
Confidence            21        1111110       1     88999743  44667776666555566666666443 222111 11  34


Q ss_pred             eEEeCCCCHHHHHHHHHhcc
Q 041795          298 VYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .+++++++.++....+.+.+
T Consensus       172 ~~~f~~l~~~~i~~~L~~il  191 (527)
T PRK14969        172 QFNLKQMPPPLIVSHLQHIL  191 (527)
T ss_pred             HHhcCCCCHHHHHHHHHHHH
Confidence            68899999998887666544

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.25  E-value=0.0028  Score=66.02  Aligned_cols=110  Identities=18%  Similarity=0.240  Sum_probs=67.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccc--eEeeehhh------hh---------hhc------CcccccCCH---h
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG--NCFLGNVR------EE---------SEK------GVLDDVNKI---G  260 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~--~~~~~~~~------~~---------~~~------~VLDdv~~~---~  260 (471)
                      ...+.|+|.+|+|||+|++.+++.+...+..  ..++....      ..         ...      -+|||+...   .
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~  227 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDFVNALRNNTMEEFKEKYRSVDVLLIDDIQFLAGKE  227 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHcCcHHHHHHHHhcCCEEEEehhhhhcCCH
Confidence            4678999999999999999999997765422  33443211      00         000      188999532   1


Q ss_pred             -hHHHHhcCCCC-CCCCcEEEEEeCChh---------hhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          261 -QLQYLTCGLDR-FGPGSRIIITTRDKW---------ILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       261 -~~~~l~~~~~~-~~~gs~IiiTTR~~~---------v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                       ..+.+...++. ...|..||+||....         +...+..  ..++++++++.++-..++.+.+-
T Consensus       228 ~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~--gl~v~i~~pd~~~r~~il~~~~~  294 (450)
T PRK00149        228 RTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEW--GLTVDIEPPDLETRIAILKKKAE  294 (450)
T ss_pred             HHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcC--CeeEEecCCCHHHHHHHHHHHHH
Confidence             11222221111 123556888876531         2223322  45799999999999999998774

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.24  E-value=0.0012  Score=70.19  Aligned_cols=134  Identities=19%  Similarity=0.154  Sum_probs=85.4

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc-----------------------cce
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF-----------------------EGN  238 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-----------------------~~~  238 (471)
                      ..++++|-+..++.|.+++..+. -...+.++|..|+||||+|+.+++.+....                       ...
T Consensus        11 ~f~eivGq~~i~~~L~~~i~~~r-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~dv   89 (584)
T PRK14952         11 TFAEVVGQEHVTEPLSSALDAGR-INHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSIDV   89 (584)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCceE
Confidence            33578999999999999887432 234578999999999999999988754210                       011


Q ss_pred             Eeeeh--------hhhhhhc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeC-ChhhhhhhCcCC
Q 041795          239 CFLGN--------VREESEK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTR-DKWILDKFGVHD  295 (471)
Q Consensus       239 ~~~~~--------~~~~~~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR-~~~v~~~~~~~~  295 (471)
                      ..++.        +++....       +     |+|+++  +....+.|+..+........+|++|. ...+...+.. .
T Consensus        90 ieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI~S-R  168 (584)
T PRK14952         90 VELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRS-R  168 (584)
T ss_pred             EEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHHHH-h
Confidence            12221        1111000       0     889986  44567777777665555666665554 3444432211 1


Q ss_pred             CceEEeCCCCHHHHHHHHHhcc
Q 041795          296 TNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       296 ~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ...+++..++.++....+.+.+
T Consensus       169 c~~~~F~~l~~~~i~~~L~~i~  190 (584)
T PRK14952        169 THHYPFRLLPPRTMRALIARIC  190 (584)
T ss_pred             ceEEEeeCCCHHHHHHHHHHHH
Confidence            4679999999999888777654

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.24  E-value=0.0017  Score=66.77  Aligned_cols=110  Identities=20%  Similarity=0.249  Sum_probs=65.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcccc--ceEeeehhh---h------------hhhc------CcccccCCHh---
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFE--GNCFLGNVR---E------------ESEK------GVLDDVNKIG---  260 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~--~~~~~~~~~---~------------~~~~------~VLDdv~~~~---  260 (471)
                      ...+.|+|..|+|||.|++++++.+.....  ...++....   +            +...      -+|||++...   
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~  215 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNNKMEEFKEKYRSVDLLLIDDIQFLAGKE  215 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHHHhCCEEEEehhhhhcCCH
Confidence            457899999999999999999998765532  234444211   0            0000      1899996321   


Q ss_pred             h-HHHHhcCCCC-CCCCcEEEEEeCCh-h--------hhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          261 Q-LQYLTCGLDR-FGPGSRIIITTRDK-W--------ILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       261 ~-~~~l~~~~~~-~~~gs~IiiTTR~~-~--------v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      . .+.+...+.. ...|..+|+||... .        +...+..  ...+++++.+.++-..++.+.+-
T Consensus       216 ~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~--g~~v~i~~pd~~~r~~il~~~~~  282 (405)
T TIGR00362       216 RTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEW--GLVVDIEPPDLETRLAILQKKAE  282 (405)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccC--CeEEEeCCCCHHHHHHHHHHHHH
Confidence            1 1222222211 12356688887642 2        1222221  34689999999999998888764

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.20  E-value=0.0012  Score=73.64  Aligned_cols=48  Identities=23%  Similarity=0.278  Sum_probs=39.8

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+.++||+.++.++.+.|....  ..-+.++|.+|+||||||+.+++.+.
T Consensus       186 ld~~iGr~~ei~~~i~~l~r~~--~~n~lLvG~pGvGKTal~~~La~~i~  233 (852)
T TIGR03345       186 IDPVLGRDDEIRQMIDILLRRR--QNNPILTGEAGVGKTAVVEGLALRIA  233 (852)
T ss_pred             CCcccCCHHHHHHHHHHHhcCC--cCceeEECCCCCCHHHHHHHHHHHHh
Confidence            3579999999999999887433  33556999999999999999999864

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

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.20  E-value=0.0015  Score=69.31  Aligned_cols=110  Identities=15%  Similarity=0.232  Sum_probs=67.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcccc--ceEeeehhh---hh------------hh---c---CcccccCCH---h
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFE--GNCFLGNVR---EE------------SE---K---GVLDDVNKI---G  260 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~--~~~~~~~~~---~~------------~~---~---~VLDdv~~~---~  260 (471)
                      ...+.|+|..|+|||.|++.+++.....+.  .+.++....   +.            ..   .   -+|||+...   +
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~~~~~~f~~~y~~~DLLlIDDIq~l~gke  393 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRDGKGDSFRRRYREMDILLVDDIQFLEDKE  393 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHhccHHHHHHHhhcCCEEEEehhccccCCH
Confidence            345899999999999999999998754321  234443210   10            00   0   189999532   2


Q ss_pred             hH-HHHhcCCCC-CCCCcEEEEEeCCh---------hhhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          261 QL-QYLTCGLDR-FGPGSRIIITTRDK---------WILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       261 ~~-~~l~~~~~~-~~~gs~IiiTTR~~---------~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      .+ +.|...++. ...|..|||||...         .+...+..  .-+++|+..+.+.-..++.+++-
T Consensus       394 ~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~--GLvv~I~~PD~EtR~aIL~kka~  460 (617)
T PRK14086        394 STQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEW--GLITDVQPPELETRIAILRKKAV  460 (617)
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhc--CceEEcCCCCHHHHHHHHHHHHH
Confidence            22 222222211 12356799988753         23333433  56899999999999999988774

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.18  E-value=0.0021  Score=69.05  Aligned_cols=134  Identities=17%  Similarity=0.211  Sum_probs=83.5

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcccc----------------------ceEe
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE----------------------GNCF  240 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~----------------------~~~~  240 (471)
                      .++++|-+..++.|...+..+. -...+.++|..|+||||+|+.+++.+.....                      ....
T Consensus        15 ~~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d~~~   93 (585)
T PRK14950         15 FAELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVDVIE   93 (585)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCeEEE
Confidence            3578999999999988886432 2456789999999999999999887532110                      0111


Q ss_pred             ee--------hhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCC-hhhhhhhCcCCCc
Q 041795          241 LG--------NVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRD-KWILDKFGVHDTN  297 (471)
Q Consensus       241 ~~--------~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~-~~v~~~~~~~~~~  297 (471)
                      +.        .+++....       +     |+|+++.  .+..+.|+..+......+.+|++|.+ ..+...+.. ...
T Consensus        94 i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI~S-R~~  172 (585)
T PRK14950         94 MDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILS-RCQ  172 (585)
T ss_pred             EeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHHHh-ccc
Confidence            11        11111110       0     8899863  35567776666554456666666644 333322211 135


Q ss_pred             eEEeCCCCHHHHHHHHHhccc
Q 041795          298 VYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      .+++..++..+....+.+.+.
T Consensus       173 ~i~f~~l~~~el~~~L~~~a~  193 (585)
T PRK14950        173 RFDFHRHSVADMAAHLRKIAA  193 (585)
T ss_pred             eeeCCCCCHHHHHHHHHHHHH
Confidence            688999999988887776653

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

Probab=97.16  E-value=0.0012  Score=72.54  Aligned_cols=46  Identities=30%  Similarity=0.416  Sum_probs=38.3

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +.++||+.+++++.+.|....  ..-+.++|.+|+|||+||+.+++.+
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~--~~n~LLvGppGvGKT~lae~la~~i  231 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999887532  2344689999999999999999874

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.12  E-value=0.0014  Score=73.32  Aligned_cols=47  Identities=26%  Similarity=0.318  Sum_probs=39.4

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +.++||+++++++.+.|....  ..-+.++|.+|+|||++|+.++..+.
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~--~~n~lL~G~pGvGKTal~~~la~~i~  225 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRT--KNNPILIGEPGVGKTAIAEGLAQRIV  225 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccc--cCCeEEECCCCCCHHHHHHHHHHHHH
Confidence            458999999999999997433  23456999999999999999998864

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.12  E-value=0.0022  Score=66.56  Aligned_cols=110  Identities=15%  Similarity=0.244  Sum_probs=66.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccc--cceEeeeh----------hhh-------hhhc------CcccccCCH--
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEF--EGNCFLGN----------VRE-------ESEK------GVLDDVNKI--  259 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f--~~~~~~~~----------~~~-------~~~~------~VLDdv~~~--  259 (471)
                      ...+.|+|..|+|||.|++++++.+....  ..++++..          ...       ....      -+|||+...  
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l~~  220 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFLSY  220 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHHhccCCEEEEeccccccC
Confidence            45689999999999999999999765322  12234431          010       0000      189999532  


Q ss_pred             --hhHHHHhcCCCC-CCCCcEEEEEeCCh---------hhhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          260 --GQLQYLTCGLDR-FGPGSRIIITTRDK---------WILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       260 --~~~~~l~~~~~~-~~~gs~IiiTTR~~---------~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                        ...+.|...++. ...|..||+|+...         .+...+..  .-++++++++.++-.+++.+++-
T Consensus       221 k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~--Gl~~~L~~pd~e~r~~iL~~~~~  289 (450)
T PRK14087        221 KEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNM--GLSIAIQKLDNKTATAIIKKEIK  289 (450)
T ss_pred             CHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhC--CceeccCCcCHHHHHHHHHHHHH
Confidence              122333222221 12455788887643         23333333  45788999999999999988763

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.12  E-value=0.00038  Score=69.60  Aligned_cols=40  Identities=25%  Similarity=0.014  Sum_probs=34.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc-cccceEeeehhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK-EFEGNCFLGNVRE  246 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~~~~~~~  246 (471)
                      -...+|+|++|+||||||+.+|+.+.. +|+..+|+..+.+
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgE  209 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDE  209 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCC
Confidence            457899999999999999999998654 7999999985544

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.11  E-value=0.0053  Score=66.12  Aligned_cols=135  Identities=18%  Similarity=0.250  Sum_probs=86.7

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc-----------------------cccce
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK-----------------------EFEGN  238 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-----------------------~f~~~  238 (471)
                      ..+.++|-+..++.|...+..+. -...+.++|..|+||||+|+.+...+..                       +|+..
T Consensus        15 ~f~~viGq~~~~~~L~~~i~~~~-l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~~   93 (614)
T PRK14971         15 TFESVVGQEALTTTLKNAIATNK-LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNIH   93 (614)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCceE
Confidence            33578999999999998886332 2456889999999999999998886531                       23322


Q ss_pred             Ee-------eehhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEe-CChhhhhhhCcCCC
Q 041795          239 CF-------LGNVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITT-RDKWILDKFGVHDT  296 (471)
Q Consensus       239 ~~-------~~~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTT-R~~~v~~~~~~~~~  296 (471)
                      .+       +..+++....       +     |+|+++.  ...++.|+..+......+.+|++| ....+...+.. ..
T Consensus        94 ~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~S-Rc  172 (614)
T PRK14971         94 ELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILS-RC  172 (614)
T ss_pred             EecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHh-hh
Confidence            22       1112221110       1     8899864  345677776666555566666544 44444433221 14


Q ss_pred             ceEEeCCCCHHHHHHHHHhccc
Q 041795          297 NVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      .++++++++.++....+.+.+-
T Consensus       173 ~iv~f~~ls~~ei~~~L~~ia~  194 (614)
T PRK14971        173 QIFDFNRIQVADIVNHLQYVAS  194 (614)
T ss_pred             heeecCCCCHHHHHHHHHHHHH
Confidence            6799999999999888876553

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.10  E-value=0.0019  Score=68.71  Aligned_cols=133  Identities=12%  Similarity=0.045  Sum_probs=84.2

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc---------------------cceEee
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF---------------------EGNCFL  241 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f---------------------~~~~~~  241 (471)
                      ..+++|-+..++.|.+.+..+ .-...+.++|..|+||||+|+.+++.+....                     ....++
T Consensus        15 f~dIiGQe~v~~~L~~ai~~~-ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv~eI   93 (624)
T PRK14959         15 FAEVAGQETVKAILSRAAQEN-RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDVVEI   93 (624)
T ss_pred             HHHhcCCHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCceEEE
Confidence            356899888888888887633 2246788999999999999999998754311                     112233


Q ss_pred             eh--------hhhhhhc------------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCC-hhhhhhh-CcCCCc
Q 041795          242 GN--------VREESEK------------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRD-KWILDKF-GVHDTN  297 (471)
Q Consensus       242 ~~--------~~~~~~~------------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~-~~v~~~~-~~~~~~  297 (471)
                      ..        ++.....            -|+|+++.  ....+.|+..+........+|++|.+ ..+...+ ..  ..
T Consensus        94 d~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SR--cq  171 (624)
T PRK14959         94 DGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSR--CQ  171 (624)
T ss_pred             ecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhh--hh
Confidence            21        1211100            18899864  35567777666544445556665554 3333222 11  35


Q ss_pred             eEEeCCCCHHHHHHHHHhccc
Q 041795          298 VYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      .+++++++.++....+...+.
T Consensus       172 ~i~F~pLs~~eL~~~L~~il~  192 (624)
T PRK14959        172 HFTFTRLSEAGLEAHLTKVLG  192 (624)
T ss_pred             ccccCCCCHHHHHHHHHHHHH
Confidence            689999999999888877554

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.06  E-value=0.0036  Score=65.00  Aligned_cols=133  Identities=17%  Similarity=0.238  Sum_probs=83.2

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc-----------------------ccce
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-----------------------FEGN  238 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-----------------------f~~~  238 (471)
                      ...+++|-+..++.|.+.+..+. -...+.++|..|+||||+|+.+++.+...                       ++ .
T Consensus        15 ~~~diiGq~~~v~~L~~~i~~~~-i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-~   92 (451)
T PRK06305         15 TFSEILGQDAVVAVLKNALRFNR-AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-V   92 (451)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-e
Confidence            34578999999999999886332 24568899999999999999998875321                       11 1


Q ss_pred             Eeee--------hhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCC-hhhhhhhCcCC
Q 041795          239 CFLG--------NVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRD-KWILDKFGVHD  295 (471)
Q Consensus       239 ~~~~--------~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~-~~v~~~~~~~~  295 (471)
                      ..+.        .+++....       +     |+|+++.  ....+.|+..+........+|++|.+ ..+...+.. .
T Consensus        93 ~~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI~s-R  171 (451)
T PRK06305         93 LEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILS-R  171 (451)
T ss_pred             EEeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHHHH-h
Confidence            1121        11111100       1     7898863  34456666666554456666666643 333222111 1


Q ss_pred             CceEEeCCCCHHHHHHHHHhcc
Q 041795          296 TNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       296 ~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ...+++++++.++....+.+.+
T Consensus       172 c~~v~f~~l~~~el~~~L~~~~  193 (451)
T PRK06305        172 CQKMHLKRIPEETIIDKLALIA  193 (451)
T ss_pred             ceEEeCCCCCHHHHHHHHHHHH
Confidence            4578999999999888777654

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.03  E-value=0.0018  Score=67.05  Aligned_cols=110  Identities=14%  Similarity=0.153  Sum_probs=66.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhh----------h-----hhhc------CcccccCCHh----h
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVR----------E-----ESEK------GVLDDVNKIG----Q  261 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~----------~-----~~~~------~VLDdv~~~~----~  261 (471)
                      ...+.|+|..|+|||+|++.+++.+...-....++....          .     +...      -++||+....    .
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~~k~~~  220 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSGKGAT  220 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHhcchHHHHHHHcccCCEEEEcchhhhcCChhh
Confidence            456889999999999999999998754433344544210          0     0000      1889985321    1


Q ss_pred             HHHHhcCCCC-CCCCcEEEEEeCCh---------hhhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          262 LQYLTCGLDR-FGPGSRIIITTRDK---------WILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       262 ~~~l~~~~~~-~~~gs~IiiTTR~~---------~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      .+.+...++. ...|..||+||...         .+...+..  ..++++++++.++-..++.+.+-
T Consensus       221 qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~--Gl~~~l~~pd~e~r~~iL~~k~~  285 (445)
T PRK12422        221 QEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEW--GIAIPLHPLTKEGLRSFLERKAE  285 (445)
T ss_pred             HHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcC--CeEEecCCCCHHHHHHHHHHHHH
Confidence            1222222110 12356788888542         22222322  46789999999999999988763

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.00  E-value=0.0035  Score=70.24  Aligned_cols=48  Identities=21%  Similarity=0.265  Sum_probs=39.7

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +.++||+.+++++.+.|....  ..-+.++|.+|+|||+||+.++..+..
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~--~~n~lL~G~pGvGKT~l~~~la~~i~~  225 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIIN  225 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCC--cCceEEECCCCCCHHHHHHHHHHHhhc
Confidence            569999999999999887443  334569999999999999999988643

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.00  E-value=0.0035  Score=66.10  Aligned_cols=134  Identities=24%  Similarity=0.253  Sum_probs=74.7

Q ss_pred             CCCCccccchhHHHHHHhhh---c-------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceE---e----ee--
Q 041795          182 NFDGLVGLNSRIEKIKSLLC---I-------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC---F----LG--  242 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~---~-------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~---~----~~--  242 (471)
                      .-++++|.+..++++.+++.   .       +....+-+.++|++|+|||+||+.+++.....|-..-   |    +.  
T Consensus        53 ~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~~g~~  132 (495)
T TIGR01241        53 TFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVG  132 (495)
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHHhccc
Confidence            33567888887777766443   1       1223456899999999999999999986433321100   0    00  


Q ss_pred             --hhhhhhhc--------CcccccCCH----------------hhHHHHhcCCCCC--CCCcEEEEEeCChhhh-----h
Q 041795          243 --NVREESEK--------GVLDDVNKI----------------GQLQYLTCGLDRF--GPGSRIIITTRDKWIL-----D  289 (471)
Q Consensus       243 --~~~~~~~~--------~VLDdv~~~----------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~v~-----~  289 (471)
                        .++.....        -+||+++..                .....|+..++.+  ..+..||.||......     .
T Consensus       133 ~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~al~r  212 (495)
T TIGR01241       133 ASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLR  212 (495)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHHHhc
Confidence              01111100        167887431                1123333333322  2344566677654322     2


Q ss_pred             hhCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          290 KFGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       290 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ....  +..++++..+.++-.++|..+.
T Consensus       213 ~gRf--d~~i~i~~Pd~~~R~~il~~~l  238 (495)
T TIGR01241       213 PGRF--DRQVVVDLPDIKGREEILKVHA  238 (495)
T ss_pred             CCcc--eEEEEcCCCCHHHHHHHHHHHH
Confidence            1122  4678899888888888887655

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

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

Probab=97.00  E-value=0.0005  Score=57.56  Aligned_cols=23  Identities=35%  Similarity=0.496  Sum_probs=21.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +|+|.|++|+||||+|+.+.+.+
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999875

...

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=96.99  E-value=0.005  Score=64.76  Aligned_cols=134  Identities=18%  Similarity=0.190  Sum_probs=85.7

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc-c-------------------cc-ceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK-E-------------------FE-GNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~-------------------f~-~~~~  240 (471)
                      ....++|-+...+.|...+..+. -..+..++|..|+||||+|+.+++.+.. .                   +. ....
T Consensus        12 ~fdeiiGqe~v~~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~e   90 (535)
T PRK08451         12 HFDELIGQESVSKTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIE   90 (535)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEE
Confidence            34578998888889998886332 2456789999999999999999887531 1                   00 1111


Q ss_pred             ee--------hhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCCc
Q 041795          241 LG--------NVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDTN  297 (471)
Q Consensus       241 ~~--------~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~~  297 (471)
                      +.        .+++....       +     |+|+++.  .+..+.|+..+......+++|++|.+.. +...+.. ...
T Consensus        91 ldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~S-Rc~  169 (535)
T PRK08451         91 MDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILS-RTQ  169 (535)
T ss_pred             eccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHh-hce
Confidence            11        22222111       1     8899864  4556777766665556777777776642 2211111 146


Q ss_pred             eEEeCCCCHHHHHHHHHhcc
Q 041795          298 VYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .+++.+++.++....+.+.+
T Consensus       170 ~~~F~~Ls~~ei~~~L~~Il  189 (535)
T PRK08451        170 HFRFKQIPQNSIISHLKTIL  189 (535)
T ss_pred             eEEcCCCCHHHHHHHHHHHH
Confidence            79999999999988777654

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=96.99  E-value=0.0055  Score=63.49  Aligned_cols=110  Identities=18%  Similarity=0.200  Sum_probs=65.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcccc--ceEeeehhh---------------hhh---h--c--CcccccCCH---
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFE--GNCFLGNVR---------------EES---E--K--GVLDDVNKI---  259 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~--~~~~~~~~~---------------~~~---~--~--~VLDdv~~~---  259 (471)
                      ...+.|+|.+|+|||+|++++++.+.....  ...|+....               ++.   .  .  -++||+...   
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l~~~  209 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFLIGK  209 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHhcccHHHHHHHHHhcCCEEEEechhhhcCc
Confidence            456999999999999999999998765432  234443110               000   0  0  188999632   


Q ss_pred             hhH-HHHhcCCCC-CCCCcEEEEEeC-Chhhh--------hhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          260 GQL-QYLTCGLDR-FGPGSRIIITTR-DKWIL--------DKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       260 ~~~-~~l~~~~~~-~~~gs~IiiTTR-~~~v~--------~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      ... +.+...+.. ...|..||+||. .+.-.        ..+..  .-++++++.+.+.-..++.+.+-
T Consensus       210 ~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~--gl~v~i~~pd~e~r~~IL~~~~~  277 (440)
T PRK14088        210 TGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQM--GLVAKLEPPDEETRKKIARKMLE  277 (440)
T ss_pred             HHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhc--CceEeeCCCCHHHHHHHHHHHHH
Confidence            111 122221111 123557888874 33221        12222  45789999999999999988764

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

Probab=96.96  E-value=0.0068  Score=59.36  Aligned_cols=144  Identities=24%  Similarity=0.273  Sum_probs=85.3

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhhhhhhc--
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEK--  250 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~~~~~~--  250 (471)
                      ..+=|.++.+++|.+....           +-+.++=|.++|++|.|||-||++|+++....|     +..+.....+  
T Consensus       151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtF-----IrvvgSElVqKY  225 (406)
T COG1222         151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATF-----IRVVGSELVQKY  225 (406)
T ss_pred             hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceE-----EEeccHHHHHHH
Confidence            4567888888888886531           224577889999999999999999999765544     3222221111  


Q ss_pred             ---C-------------------cccccCCH-------------h---hHHHHhcCCCCCCC--CcEEEEEeCChhhh--
Q 041795          251 ---G-------------------VLDDVNKI-------------G---QLQYLTCGLDRFGP--GSRIIITTRDKWIL--  288 (471)
Q Consensus       251 ---~-------------------VLDdv~~~-------------~---~~~~l~~~~~~~~~--gs~IiiTTR~~~v~--  288 (471)
                         |                   .+|.++..             +   ..-+|+..++.|.+  ..+||..|-..+++  
T Consensus       226 iGEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDP  305 (406)
T COG1222         226 IGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDP  305 (406)
T ss_pred             hccchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccCh
Confidence               1                   45666421             1   12345555555543  57888877655443  


Q ss_pred             ---hhhCcCCCceEEeCCCCHHHHHHHHHhccccCC-CCCchHHHHHHHH
Q 041795          289 ---DKFGVHDTNVYEVNGLRYHEALELFCNCAFKEN-HCPSGFLASSKRV  334 (471)
Q Consensus       289 ---~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~l~~~i  334 (471)
                         ..-..  +..++++.-+.+-=.++|.=|+-+-+ ...-+++.+++..
T Consensus       306 ALLRPGR~--DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e~la~~~  353 (406)
T COG1222         306 ALLRPGRF--DRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLT  353 (406)
T ss_pred             hhcCCCcc--cceeecCCCCHHHHHHHHHHHhhhccCccCcCHHHHHHhc
Confidence               32233  56788885454444566665553222 2334566666554

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=96.95  E-value=0.004  Score=67.37  Aligned_cols=132  Identities=18%  Similarity=0.177  Sum_probs=83.2

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc-ccc-----------------ceEeeeh-
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK-EFE-----------------GNCFLGN-  243 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~-----------------~~~~~~~-  243 (471)
                      ...++|-+..++.|...+..+. -...+.++|+.|+||||+|+.++..+-. +..                 ....+.. 
T Consensus        17 f~dIiGQe~~v~~L~~aI~~~r-l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvieidaa   95 (725)
T PRK07133         17 FDDIVGQDHIVQTLKNIIKSNK-ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIEMDAA   95 (725)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEEEecc
Confidence            3568999999999999887432 2456789999999999999999887432 110                 0111221 


Q ss_pred             -------hhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEe-CChhhhhhh-CcCCCceEE
Q 041795          244 -------VREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITT-RDKWILDKF-GVHDTNVYE  300 (471)
Q Consensus       244 -------~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTT-R~~~v~~~~-~~~~~~~~~  300 (471)
                             +++....       +     |+|+++.  ...++.|+..+......+.+|++| ....+...+ ..  ...++
T Consensus        96 sn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SR--cq~ie  173 (725)
T PRK07133         96 SNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSR--VQRFN  173 (725)
T ss_pred             ccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhh--ceeEE
Confidence                   1111110       1     8899863  456777776665544555555444 444443322 22  45799


Q ss_pred             eCCCCHHHHHHHHHhcc
Q 041795          301 VNGLRYHEALELFCNCA  317 (471)
Q Consensus       301 l~~L~~~ea~~Lf~~~a  317 (471)
                      +.+++.++....+...+
T Consensus       174 F~~L~~eeI~~~L~~il  190 (725)
T PRK07133        174 FRRISEDEIVSRLEFIL  190 (725)
T ss_pred             ccCCCHHHHHHHHHHHH
Confidence            99999999888777644

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.95  E-value=0.00097  Score=66.19  Aligned_cols=50  Identities=18%  Similarity=0.284  Sum_probs=41.8

Q ss_pred             CCccccchhHHHHHHhhhcC----CCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          184 DGLVGLNSRIEKIKSLLCIG----RPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +.++|.++.++++.+++...    +...++++|+|++|+||||||+.+.+.+..
T Consensus        51 ~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       51 HDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            37999999999999988632    234688999999999999999999887544

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

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=96.93  E-value=0.0051  Score=65.50  Aligned_cols=134  Identities=16%  Similarity=0.198  Sum_probs=86.9

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc----------------------cccceE
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK----------------------EFEGNC  239 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~----------------------~f~~~~  239 (471)
                      ...+++|-+..++.|...+..+. -...+.++|..|+||||+|+.+++.+..                      +++. .
T Consensus        14 ~f~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv-~   91 (563)
T PRK06647         14 DFNSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDV-I   91 (563)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCe-E
Confidence            33578999999999999887432 3457889999999999999999887532                      1221 1


Q ss_pred             eee--------hhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCC
Q 041795          240 FLG--------NVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDT  296 (471)
Q Consensus       240 ~~~--------~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~  296 (471)
                      .+.        .+++....       +     |+|+++.  ...++.|+..+......+.+|.+|.+. .+...+.. ..
T Consensus        92 ~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~S-Rc  170 (563)
T PRK06647         92 EIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKS-RC  170 (563)
T ss_pred             EecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHHH-hc
Confidence            121        22221100       1     8899864  445777877776555667666666443 33222211 14


Q ss_pred             ceEEeCCCCHHHHHHHHHhccc
Q 041795          297 NVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      ..+++.+++.++-...+.+.+.
T Consensus       171 ~~~~f~~l~~~el~~~L~~i~~  192 (563)
T PRK06647        171 QHFNFRLLSLEKIYNMLKKVCL  192 (563)
T ss_pred             eEEEecCCCHHHHHHHHHHHHH
Confidence            5689999999998888877653

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.93  E-value=0.0043  Score=69.67  Aligned_cols=48  Identities=21%  Similarity=0.279  Sum_probs=39.5

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +.++||+.+++++.+.|....  ..-+.++|.+|+|||+||+.++.++..
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~--~~n~lL~G~pGvGKT~l~~~la~~i~~  220 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRT--KNNPVLIGEPGVGKTAIVEGLAQRIVN  220 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHHHHhc
Confidence            569999999999999987443  234558999999999999999988644

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

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.89  E-value=0.0044  Score=64.87  Aligned_cols=133  Identities=17%  Similarity=0.195  Sum_probs=81.9

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc---c------------------ccceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK---E------------------FEGNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~---~------------------f~~~~~  240 (471)
                      ....++|-+..++.|.+.+..+. -.....++|..|+||||+|+.++..+..   .                  +.....
T Consensus        14 ~f~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~e   92 (486)
T PRK14953         14 FFKEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIE   92 (486)
T ss_pred             cHHHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEE
Confidence            33568999999999999886432 2456778999999999999999887532   0                  111122


Q ss_pred             eeh--------hhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEe-CChhhhhhh-CcCCC
Q 041795          241 LGN--------VREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITT-RDKWILDKF-GVHDT  296 (471)
Q Consensus       241 ~~~--------~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTT-R~~~v~~~~-~~~~~  296 (471)
                      +..        ++.....       +     |+|+++.  ....+.|+..+....+...+|++| +...+...+ ..  .
T Consensus        93 idaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~SR--c  170 (486)
T PRK14953         93 IDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSR--C  170 (486)
T ss_pred             EeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHHHh--c
Confidence            221        1111000       1     8899863  345566666655444455555555 433333221 12  4


Q ss_pred             ceEEeCCCCHHHHHHHHHhcc
Q 041795          297 NVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..+++.+++.++....+...+
T Consensus       171 ~~i~f~~ls~~el~~~L~~i~  191 (486)
T PRK14953        171 QRFIFSKPTKEQIKEYLKRIC  191 (486)
T ss_pred             eEEEcCCCCHHHHHHHHHHHH
Confidence            578999999999887777654

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=96.89  E-value=0.0058  Score=60.68  Aligned_cols=109  Identities=17%  Similarity=0.172  Sum_probs=71.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEee-----------ehhhhhhhc----
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCFL-----------GNVREESEK----  250 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~~-----------~~~~~~~~~----  250 (471)
                      ...+.++|+.|+||||+|+.++..+-..                     .....++           +.+++....    
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~~  101 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVVQT  101 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHhhc
Confidence            5578899999999999999998875321                     1112222           122221111    


Q ss_pred             ---C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCCceEEeCCCCHHHHHHHHHhc
Q 041795          251 ---G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDTNVYEVNGLRYHEALELFCNC  316 (471)
Q Consensus       251 ---~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~  316 (471)
                         +     |+|+++  +....+.|+..+.....++.+|+||.+.. +...+.. ....+.+.+++.+++.+.+...
T Consensus       102 ~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~S-Rc~~~~~~~~~~~~~~~~L~~~  177 (328)
T PRK05707        102 AQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKS-RCQQQACPLPSNEESLQWLQQA  177 (328)
T ss_pred             cccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHh-hceeeeCCCcCHHHHHHHHHHh
Confidence               0     789987  45567777776665556788888887753 3322211 1467999999999999888765

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=96.87  E-value=0.00083  Score=63.91  Aligned_cols=40  Identities=30%  Similarity=0.058  Sum_probs=33.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc-cccceEeeehhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK-EFEGNCFLGNVRE  246 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~~~~~~~  246 (471)
                      ...++|+|.+|+|||||++.+++.+.. +|+..+|+..+.+
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~e   56 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDE   56 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccC
Confidence            458899999999999999999998654 6999999885544

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=96.86  E-value=0.0077  Score=64.26  Aligned_cols=133  Identities=17%  Similarity=0.210  Sum_probs=83.5

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc----------------------cccceE
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK----------------------EFEGNC  239 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~----------------------~f~~~~  239 (471)
                      ....++|.+...+.|.+.+..+. -...+.++|..|+||||+|+.+...+..                      +++ ..
T Consensus        14 ~f~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~d-v~   91 (559)
T PRK05563         14 TFEDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMD-VI   91 (559)
T ss_pred             cHHhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCC-eE
Confidence            34679999999999999887432 3456788999999999999999876431                      122 11


Q ss_pred             eeeh--------hhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEe-CChhhhhhhCcCCC
Q 041795          240 FLGN--------VREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITT-RDKWILDKFGVHDT  296 (471)
Q Consensus       240 ~~~~--------~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTT-R~~~v~~~~~~~~~  296 (471)
                      .++.        +++....       +     |+|+++.  ...++.|+..+........+|++| ....+...+.. ..
T Consensus        92 eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~S-Rc  170 (559)
T PRK05563         92 EIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILS-RC  170 (559)
T ss_pred             EeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHh-Hh
Confidence            2221        1111111       1     8899874  355777776665444455555544 33333322211 14


Q ss_pred             ceEEeCCCCHHHHHHHHHhcc
Q 041795          297 NVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..+++.+++.++....+...+
T Consensus       171 ~~~~f~~~~~~ei~~~L~~i~  191 (559)
T PRK05563        171 QRFDFKRISVEDIVERLKYIL  191 (559)
T ss_pred             eEEecCCCCHHHHHHHHHHHH
Confidence            568899999999888777655

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

Probab=96.84  E-value=0.00059  Score=58.86  Aligned_cols=99  Identities=22%  Similarity=0.203  Sum_probs=56.1

Q ss_pred             cccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---ccceEeeehhhh---hhhcC--cccccCC
Q 041795          187 VGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---FEGNCFLGNVRE---ESEKG--VLDDVNK  258 (471)
Q Consensus       187 vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---f~~~~~~~~~~~---~~~~~--VLDdv~~  258 (471)
                      ||....++++.+.+..-......|.|+|..|+||+++|+.++..-...   |...-....-.+   ....|  +|+|++.
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~~~~l~~a~~gtL~l~~i~~   80 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLPAELLEQAKGGTLYLKNIDR   80 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTCHHHHHHCTTSEEEEECGCC
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCcHHHHHHcCCCEEEECChHH
Confidence            577778888888776433344678999999999999999988763332   221110000011   11112  8899874


Q ss_pred             --HhhHHHHhcCCCCC-CCCcEEEEEeCCh
Q 041795          259 --IGQLQYLTCGLDRF-GPGSRIIITTRDK  285 (471)
Q Consensus       259 --~~~~~~l~~~~~~~-~~gs~IiiTTR~~  285 (471)
                        .+....|...+... ....|+|.||...
T Consensus        81 L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   81 LSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             S-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             CCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence              33333333332211 4578999998754

>PRK08118 topology modulation protein; Reviewed

Probab=96.81  E-value=0.00086  Score=59.91  Aligned_cols=33  Identities=24%  Similarity=0.386  Sum_probs=27.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh---ccccceEee
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY---KEFEGNCFL  241 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~---~~f~~~~~~  241 (471)
                      .|.|+|++|+||||||+.+++.+.   -+|+...|-
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~   38 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWK   38 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcc
Confidence            589999999999999999999853   346666653

>PRK06696 uridine kinase; Validated

Probab=96.80  E-value=0.0016  Score=61.19  Aligned_cols=45  Identities=24%  Similarity=0.222  Sum_probs=34.7

Q ss_pred             cchhHHHHHHhhhc-CCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          189 LNSRIEKIKSLLCI-GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       189 r~~~~~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      |.+.+++|-+.+.. ......+|+|.|.+|+||||||+.+...+..
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~   48 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKK   48 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            45556666666543 3446789999999999999999999988754

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.79  E-value=0.0087  Score=64.51  Aligned_cols=133  Identities=23%  Similarity=0.296  Sum_probs=83.3

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc-cc-------ceE---------------
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FE-------GNC---------------  239 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~-------~~~---------------  239 (471)
                      ...++|.+..++.|..++..+. -...+.++|..|+||||+|+.+++.+... ..       +.|               
T Consensus        15 f~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~D~~   93 (620)
T PRK14948         15 FDELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNALDVI   93 (620)
T ss_pred             HhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCccEE
Confidence            3568999999999998887432 23567899999999999999998875431 10       011               


Q ss_pred             eee--------hhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCC
Q 041795          240 FLG--------NVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDT  296 (471)
Q Consensus       240 ~~~--------~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~  296 (471)
                      .+.        .+++....       +     |+|+++.  .+..+.|+..+........+|++|.+. .+...+.. ..
T Consensus        94 ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTIrS-Rc  172 (620)
T PRK14948         94 EIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIIS-RC  172 (620)
T ss_pred             EEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHHHh-he
Confidence            111        11111110       0     8899874  455677776666544556555555443 33322211 14


Q ss_pred             ceEEeCCCCHHHHHHHHHhcc
Q 041795          297 NVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..+++..++.++....+.+.+
T Consensus       173 ~~~~f~~l~~~ei~~~L~~ia  193 (620)
T PRK14948        173 QRFDFRRIPLEAMVQHLSEIA  193 (620)
T ss_pred             eEEEecCCCHHHHHHHHHHHH
Confidence            568889999998887777655

>CHL00176 ftsH cell division protein; Validated

Probab=96.77  E-value=0.004  Score=67.14  Aligned_cols=133  Identities=26%  Similarity=0.292  Sum_probs=76.6

Q ss_pred             CCCccccchhHHHHHHhhh---c-------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccc---eEe----ee---
Q 041795          183 FDGLVGLNSRIEKIKSLLC---I-------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG---NCF----LG---  242 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~---~-------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~---~~~----~~---  242 (471)
                      .+++.|.++..+++.+.+.   .       +..-.+-+.++|++|+|||+||+.+++.....|-.   .-|    +.   
T Consensus       182 f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~~g~~~  261 (638)
T CHL00176        182 FRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVGA  261 (638)
T ss_pred             HHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHhhhhhH
Confidence            3568898888877776543   1       11224578999999999999999998864322210   001    00   


Q ss_pred             -hhhhhhhc--------CcccccCCH----------------hhHHHHhcCCCCC--CCCcEEEEEeCChhhhhh-----
Q 041795          243 -NVREESEK--------GVLDDVNKI----------------GQLQYLTCGLDRF--GPGSRIIITTRDKWILDK-----  290 (471)
Q Consensus       243 -~~~~~~~~--------~VLDdv~~~----------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~v~~~-----  290 (471)
                       .++.....        -+||+++..                ..+..|+..++.+  ..+..||.||........     
T Consensus       262 ~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALlRp  341 (638)
T CHL00176        262 ARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRP  341 (638)
T ss_pred             HHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhhcc
Confidence             00110000        167888532                1234444443322  235567777766443321     


Q ss_pred             hCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          291 FGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       291 ~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ...  ...+.++..+.++-.+++..++
T Consensus       342 GRF--d~~I~v~lPd~~~R~~IL~~~l  366 (638)
T CHL00176        342 GRF--DRQITVSLPDREGRLDILKVHA  366 (638)
T ss_pred             ccC--ceEEEECCCCHHHHHHHHHHHH
Confidence            112  4678888888888888887765

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.74  E-value=0.006  Score=58.74  Aligned_cols=24  Identities=42%  Similarity=0.364  Sum_probs=20.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..|.|.|.+|+|||+||+.+++..
T Consensus        22 ~~vLL~G~~GtGKT~lA~~la~~l   45 (262)
T TIGR02640        22 YPVHLRGPAGTGKTTLAMHVARKR   45 (262)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            356799999999999999998754

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK08116 hypothetical protein; Validated

Probab=96.73  E-value=0.0023  Score=61.70  Aligned_cols=35  Identities=34%  Similarity=0.393  Sum_probs=27.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ..+.|+|.+|+|||.||.++++.+..+-..++++.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~  149 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN  149 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            45889999999999999999999765533445544

>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 []

Probab=96.70  E-value=0.0051  Score=56.55  Aligned_cols=47  Identities=26%  Similarity=0.101  Sum_probs=29.5

Q ss_pred             hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh--hhccccceEeee
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL--IYKEFEGNCFLG  242 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~--~~~~f~~~~~~~  242 (471)
                      +-....+.|.    +..++.+.|.+|.|||.||.+.+-+  ....|+..++..
T Consensus         8 ~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~R   56 (205)
T PF02562_consen    8 EQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITR   56 (205)
T ss_dssp             HHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE
T ss_pred             HHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            3344444444    3569999999999999999887755  245677666643

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.69  E-value=0.0044  Score=66.40  Aligned_cols=133  Identities=17%  Similarity=0.215  Sum_probs=82.3

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc----------------------ccceE
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE----------------------FEGNC  239 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~----------------------f~~~~  239 (471)
                      ...+++|-+..++.|.+.+..+. -...+.++|..|+||||+|+.+++.+...                      .+. .
T Consensus        14 ~f~~iiGq~~v~~~L~~~i~~~~-~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~-~   91 (576)
T PRK14965         14 TFSDLTGQEHVSRTLQNAIDTGR-VAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDV-F   91 (576)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCe-e
Confidence            34578999999999998886432 24567899999999999999998875321                      111 1


Q ss_pred             eee--------hhhhhhhc------------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEe-CChhhhhhhCcCCC
Q 041795          240 FLG--------NVREESEK------------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITT-RDKWILDKFGVHDT  296 (471)
Q Consensus       240 ~~~--------~~~~~~~~------------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTT-R~~~v~~~~~~~~~  296 (471)
                      .+.        .+++....            -|+|+++.  ....+.|+..+......+.+|++| ....+...+.. ..
T Consensus        92 eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI~S-Rc  170 (576)
T PRK14965         92 EIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILS-RC  170 (576)
T ss_pred             eeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHHHH-hh
Confidence            111        11111110            08899864  345667776665544566666555 43434332211 14


Q ss_pred             ceEEeCCCCHHHHHHHHHhcc
Q 041795          297 NVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..+++.+++.++....+...+
T Consensus       171 ~~~~f~~l~~~~i~~~L~~i~  191 (576)
T PRK14965        171 QRFDFRRIPLQKIVDRLRYIA  191 (576)
T ss_pred             hhhhcCCCCHHHHHHHHHHHH
Confidence            568889999888877666543

>PRK07667 uridine kinase; Provisional

Probab=96.68  E-value=0.0035  Score=57.41  Aligned_cols=41  Identities=20%  Similarity=0.313  Sum_probs=31.6

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ++.+.+.+........+|+|.|.+|.||||+|+.+...+..
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~   43 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQ   43 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            34555555544455689999999999999999999987654

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

Probab=96.64  E-value=0.0024  Score=54.15  Aligned_cols=27  Identities=37%  Similarity=0.402  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      -+.+.|+|.+|+|||++++.+.+....
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~   30 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNA   30 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHH
Confidence            468899999999999999999998654

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=96.63  E-value=0.0093  Score=59.42  Aligned_cols=129  Identities=16%  Similarity=0.137  Sum_probs=80.6

Q ss_pred             ccc-cchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEee--
Q 041795          186 LVG-LNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCFL--  241 (471)
Q Consensus       186 ~vG-r~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~~--  241 (471)
                      ++| -+..++.+...+..+ .-.....++|..|+||||+|+.+.+.+-..                     +....++  
T Consensus         7 i~~~q~~~~~~L~~~~~~~-~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i~~   85 (329)
T PRK08058          7 LTALQPVVVKMLQNSIAKN-RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLVAP   85 (329)
T ss_pred             HHhhHHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEecc
Confidence            556 445566666666522 235577999999999999999998774321                     1112222  


Q ss_pred             -------ehhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCCceE
Q 041795          242 -------GNVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDTNVY  299 (471)
Q Consensus       242 -------~~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~~~~  299 (471)
                             ..+++....       +     |+|+++.  ....+.|+..+.....++.+|++|.+.. +...+.. ....+
T Consensus        86 ~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrS-Rc~~i  164 (329)
T PRK08058         86 DGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILS-RCQVV  164 (329)
T ss_pred             ccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHh-hceee
Confidence                   122221110       1     8899863  4456777777766667788888876643 3222211 15679


Q ss_pred             EeCCCCHHHHHHHHHhc
Q 041795          300 EVNGLRYHEALELFCNC  316 (471)
Q Consensus       300 ~l~~L~~~ea~~Lf~~~  316 (471)
                      ++.+++.++..+.+...
T Consensus       165 ~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        165 EFRPLPPESLIQRLQEE  181 (329)
T ss_pred             eCCCCCHHHHHHHHHHc
Confidence            99999999998878653

>PRK08181 transposase; Validated

Probab=96.63  E-value=0.0016  Score=62.71  Aligned_cols=35  Identities=26%  Similarity=0.174  Sum_probs=26.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .-+.++|.+|+|||.||..+.+......-.+.|+.
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~  141 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR  141 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee
Confidence            45899999999999999999988654433445543

>PRK12377 putative replication protein; Provisional

Probab=96.62  E-value=0.0026  Score=60.50  Aligned_cols=36  Identities=28%  Similarity=0.185  Sum_probs=28.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ...+.|+|.+|+|||.||.++++.+......+.++.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~  136 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT  136 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            457899999999999999999999765544445554

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.62  E-value=0.013  Score=64.89  Aligned_cols=132  Identities=22%  Similarity=0.198  Sum_probs=77.8

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccce-------Eeeehhh
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN-------CFLGNVR  245 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~-------~~~~~~~  245 (471)
                      .++.|.+..+++|.+.+..           +-...+-+.++|++|+|||+||+++++.....|-..       .|+....
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~vGese  532 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESE  532 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcccCcHH
Confidence            4578888888888776541           112355689999999999999999998765443211       1222111


Q ss_pred             ----hhhhc--------CcccccCCH--------------hhHHHHhcCCCCC--CCCcEEEEEeCChhhhhhh-----C
Q 041795          246 ----EESEK--------GVLDDVNKI--------------GQLQYLTCGLDRF--GPGSRIIITTRDKWILDKF-----G  292 (471)
Q Consensus       246 ----~~~~~--------~VLDdv~~~--------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~v~~~~-----~  292 (471)
                          .....        -++|+++..              .....|+..++..  ..+.-||.||.....+...     .
T Consensus       533 ~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgR  612 (733)
T TIGR01243       533 KAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGR  612 (733)
T ss_pred             HHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCc
Confidence                10000        177887521              1223344443322  2345566677665443211     2


Q ss_pred             cCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          293 VHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       293 ~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .  +..+.++..+.++-.++|..+.
T Consensus       613 f--d~~i~v~~Pd~~~R~~i~~~~~  635 (733)
T TIGR01243       613 F--DRLILVPPPDEEARKEIFKIHT  635 (733)
T ss_pred             c--ceEEEeCCcCHHHHHHHHHHHh
Confidence            2  5678899999888888887554

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

>PRK10536 hypothetical protein; Provisional

Probab=96.62  E-value=0.0043  Score=58.81  Aligned_cols=51  Identities=16%  Similarity=0.116  Sum_probs=38.1

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh-h-hccccce
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL-I-YKEFEGN  238 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~-~-~~~f~~~  238 (471)
                      ..+.++......+...|..    ...+.+.|..|.|||+||.++... + .+.|+..
T Consensus        55 ~~i~p~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kI  107 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRI  107 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEE
Confidence            4567788888888887753    248999999999999999998774 3 3445433

>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

Probab=96.60  E-value=0.0073  Score=53.63  Aligned_cols=115  Identities=22%  Similarity=0.199  Sum_probs=64.8

Q ss_pred             cchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc--------------------cccceEeeehhhh--
Q 041795          189 LNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK--------------------EFEGNCFLGNVRE--  246 (471)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~--------------------~f~~~~~~~~~~~--  246 (471)
                      -+...+.|.+.+..+ .-...+.++|..|+||+++|..+++.+-.                    ......++.....  
T Consensus         2 q~~~~~~L~~~~~~~-~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    2 QEEIIELLKNLIKSG-RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             -HHHHHHHHHHHHCT-C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             cHHHHHHHHHHHHcC-CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            344556666666522 22457899999999999999999886322                    1223334432211  


Q ss_pred             ---------hhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCCceEEeC
Q 041795          247 ---------ESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDTNVYEVN  302 (471)
Q Consensus       247 ---------~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~~~~~l~  302 (471)
                               ....       +     |+||++.  .+..+.|+..+.....++++|++|.+.. +...+.. ....+.++
T Consensus        81 ~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~S-Rc~~i~~~  159 (162)
T PF13177_consen   81 SIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRS-RCQVIRFR  159 (162)
T ss_dssp             SBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHT-TSEEEEE-
T ss_pred             hhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHh-hceEEecC
Confidence                     1110       0     8999974  5567777777766677899999988765 3322211 14456666


Q ss_pred             CCC
Q 041795          303 GLR  305 (471)
Q Consensus       303 ~L~  305 (471)
                      +|+
T Consensus       160 ~ls  162 (162)
T PF13177_consen  160 PLS  162 (162)
T ss_dssp             ---
T ss_pred             CCC
Confidence            653

...

>TIGR00763 lon ATP-dependent protease La

Probab=96.60  E-value=0.0067  Score=67.49  Aligned_cols=52  Identities=29%  Similarity=0.447  Sum_probs=39.9

Q ss_pred             CCccccchhHHHHHHhhhc----CCCCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          184 DGLVGLNSRIEKIKSLLCI----GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      ...+|.+..+++|.+++..    +.....++.++|++|+|||++|+.+++.+...|
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~  375 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKF  375 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCe
Confidence            3478988888888886641    222345899999999999999999998865443

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

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

Probab=96.59  E-value=0.011  Score=65.49  Aligned_cols=49  Identities=20%  Similarity=0.196  Sum_probs=38.2

Q ss_pred             CCccccchhHHHHHHhhhcC------C-CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIG------R-PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~------~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|-+..++.+.+.+...      . ....++.++|++|+|||+||+.++..+.
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~  509 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG  509 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc
Confidence            56789998888888776521      1 1244789999999999999999988763

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.58  E-value=0.0022  Score=55.80  Aligned_cols=35  Identities=29%  Similarity=0.312  Sum_probs=28.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc-ccceEeee
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNCFLG  242 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~~~  242 (471)
                      --|+|.||+|+|||||++.+.+.++.. |...-|++
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t   41 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFIT   41 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEe
Confidence            468999999999999999999997766 77655543

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

Probab=96.57  E-value=0.0022  Score=60.81  Aligned_cols=53  Identities=26%  Similarity=0.337  Sum_probs=42.2

Q ss_pred             CCCccccchhHHHHHHhhhc---CCCCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          183 FDGLVGLNSRIEKIKSLLCI---GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      -.+|+|-+..+++|.=.+..   ....+--+.++|++|.||||||..+++.+..++
T Consensus        25 l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~   80 (332)
T COG2255          25 LDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNL   80 (332)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCe
Confidence            35799999888888766652   234477899999999999999999999866544

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

Probab=96.57  E-value=0.0026  Score=67.41  Aligned_cols=53  Identities=26%  Similarity=0.350  Sum_probs=43.9

Q ss_pred             CCccccchhHHHHHHhhhc----CCCCceEEEEeccCcchhhhHHHHHHHhhhcccc
Q 041795          184 DGLVGLNSRIEKIKSLLCI----GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE  236 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~  236 (471)
                      .+-+|.++..++|.++|.-    ..-.-++++++|++|+|||.|++.++..+...|-
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rkfv  379 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFV  379 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEE
Confidence            3558999999999999862    2233579999999999999999999998777663

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

Probab=96.56  E-value=0.012  Score=61.89  Aligned_cols=148  Identities=20%  Similarity=0.222  Sum_probs=86.2

Q ss_pred             CCccccchhHHHHHHhhh-----------cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccce-------Eeeehhh
Q 041795          184 DGLVGLNSRIEKIKSLLC-----------IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN-------CFLGNVR  245 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~-----------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~-------~~~~~~~  245 (471)
                      +++-|.++.+.+|.+...           .+-+..+-|.++|++|+|||++|+++++.-...|=.+       -|+..+.
T Consensus       434 ~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~vGeSE  513 (693)
T KOG0730|consen  434 DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKYVGESE  513 (693)
T ss_pred             hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHhcCchH
Confidence            345567777777775443           1235578899999999999999999999766665432       3443222


Q ss_pred             hh----hhc--------CcccccCCH-------------hhHHHHhcCCCCCCCCcEEEE---EeCChhhhhh----hCc
Q 041795          246 EE----SEK--------GVLDDVNKI-------------GQLQYLTCGLDRFGPGSRIII---TTRDKWILDK----FGV  293 (471)
Q Consensus       246 ~~----~~~--------~VLDdv~~~-------------~~~~~l~~~~~~~~~gs~Iii---TTR~~~v~~~----~~~  293 (471)
                      ..    ..+        ..||.++..             ..+..|+..++.......|+|   |-|...+-..    -..
T Consensus       514 r~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRl  593 (693)
T KOG0730|consen  514 RAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRL  593 (693)
T ss_pred             HHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCccc
Confidence            11    111        056666421             234556666664444444554   3343222211    112


Q ss_pred             CCCceEEeCCCCHHHHHHHHHhccccCCC-CCchHHHHHHH
Q 041795          294 HDTNVYEVNGLRYHEALELFCNCAFKENH-CPSGFLASSKR  333 (471)
Q Consensus       294 ~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~l~~~  333 (471)
                        +..+.++.-+.+--.++|..++-+-.- +.-++.+|+..
T Consensus       594 --D~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La~~  632 (693)
T KOG0730|consen  594 --DRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELAQA  632 (693)
T ss_pred             --ceeEeecCccHHHHHHHHHHHHhcCCCCccccHHHHHHH
Confidence              567888888888888999888743222 12245666653

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

Probab=96.55  E-value=0.023  Score=57.31  Aligned_cols=53  Identities=21%  Similarity=0.204  Sum_probs=41.9

Q ss_pred             CCCCccccchhHHHHHHhhhc--CCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI--GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .++.+.+|+++++++...|..  .+....-+.|+|.+|+|||+.++.+.+++...
T Consensus        15 iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~   69 (366)
T COG1474          15 IPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEES   69 (366)
T ss_pred             CcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhh
Confidence            345599999999999988762  22223348999999999999999999986654

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=96.51  E-value=0.018  Score=58.32  Aligned_cols=111  Identities=18%  Similarity=0.192  Sum_probs=70.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhccccc--eEeeehhh----------h--------hhhc--CcccccCCH---h
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG--NCFLGNVR----------E--------ESEK--GVLDDVNKI---G  260 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~--~~~~~~~~----------~--------~~~~--~VLDdv~~~---~  260 (471)
                      .-..+-|+|..|.|||.|++++.+........  +.++....          +        ....  -++||+.-.   +
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y~~dlllIDDiq~l~gk~  191 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKYSLDLLLIDDIQFLAGKE  191 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhhccCeeeechHhHhcCCh
Confidence            46789999999999999999999997766552  33333211          1        1101  278998521   1


Q ss_pred             hH-HHHhcCCCC-CCCCcEEEEEeCCh---------hhhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          261 QL-QYLTCGLDR-FGPGSRIIITTRDK---------WILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       261 ~~-~~l~~~~~~-~~~gs~IiiTTR~~---------~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      .+ +.+...++. ...|..||+|++..         .+...+..  .-++++.+++.+....++.+.+-
T Consensus       192 ~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~--Gl~~~I~~Pd~e~r~aiL~kka~  258 (408)
T COG0593         192 RTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEW--GLVVEIEPPDDETRLAILRKKAE  258 (408)
T ss_pred             hHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhc--eeEEeeCCCCHHHHHHHHHHHHH
Confidence            11 222222211 12355899998643         34444444  57899999999999999988664

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.47  E-value=0.019  Score=63.62  Aligned_cols=52  Identities=33%  Similarity=0.399  Sum_probs=40.2

Q ss_pred             CCCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          183 FDGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .+++.|.+..++++.+++..           +-...+-+.++|.+|+|||+||+.+++.....
T Consensus       177 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~  239 (733)
T TIGR01243       177 YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAY  239 (733)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCe
Confidence            34588999999999887641           11235678999999999999999999876543

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

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.46  E-value=0.0032  Score=65.93  Aligned_cols=50  Identities=26%  Similarity=0.340  Sum_probs=41.5

Q ss_pred             CCccccchhHHHHHHhhh----cCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          184 DGLVGLNSRIEKIKSLLC----IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~----~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .+++|.++.++++.+.|.    ..+..-+++.++|++|+||||||+.+++.+..
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~  129 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMER  129 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHh
Confidence            468999999999999883    22345679999999999999999999886544

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.45  E-value=0.0034  Score=56.43  Aligned_cols=37  Identities=27%  Similarity=0.498  Sum_probs=31.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ...+|.++|+.|+||||+|+.++..+...+...+++.
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~   42 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLD   42 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            3569999999999999999999999887777777774

>PRK09183 transposase/IS protein; Provisional

Probab=96.43  E-value=0.0026  Score=61.13  Aligned_cols=24  Identities=33%  Similarity=0.274  Sum_probs=21.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+.|+|.+|+|||+||..+++..
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHH
Confidence            467899999999999999998764

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

Probab=96.43  E-value=0.032  Score=58.17  Aligned_cols=133  Identities=23%  Similarity=0.302  Sum_probs=87.6

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc------cccceEeee--------------
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK------EFEGNCFLG--------------  242 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~------~f~~~~~~~--------------  242 (471)
                      .+++||-+...+.|...|..+. -..--...|.-|+||||+|+.++..+-.      ..-+.|-.+              
T Consensus        15 F~evvGQe~v~~~L~nal~~~r-i~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~DviEi   93 (515)
T COG2812          15 FDDVVGQEHVVKTLSNALENGR-IAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLIDVIEI   93 (515)
T ss_pred             HHHhcccHHHHHHHHHHHHhCc-chhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhcCCcccchhh
Confidence            3568999999999999887432 2445678999999999999999876321      122333321              


Q ss_pred             ---------hhhhhhhc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCChh-hhh-hhCcCCCc
Q 041795          243 ---------NVREESEK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRDKW-ILD-KFGVHDTN  297 (471)
Q Consensus       243 ---------~~~~~~~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~-~~~~~~~~  297 (471)
                               ++++....       +     ++|.|.  ....|+.|+.-+.........|+.|.+.+ +.. ....  ..
T Consensus        94 DaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlSR--cq  171 (515)
T COG2812          94 DAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSR--CQ  171 (515)
T ss_pred             hhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhhc--cc
Confidence                     11221111       0     889886  45678888887766566666666665543 222 2222  56


Q ss_pred             eEEeCCCCHHHHHHHHHhccc
Q 041795          298 VYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      .|.++.|+.++-...+...+-
T Consensus       172 ~f~fkri~~~~I~~~L~~i~~  192 (515)
T COG2812         172 RFDFKRLDLEEIAKHLAAILD  192 (515)
T ss_pred             cccccCCCHHHHHHHHHHHHH
Confidence            799999999988887777663

>PRK06921 hypothetical protein; Provisional

Probab=96.42  E-value=0.0029  Score=60.98  Aligned_cols=36  Identities=22%  Similarity=0.248  Sum_probs=28.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc-ccceEeee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNCFLG  242 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~~~  242 (471)
                      ...+.++|..|+|||.||.++++.+..+ -..++|+.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~  153 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP  153 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence            4678999999999999999999986654 33345554

>PRK06526 transposase; Provisional

Probab=96.39  E-value=0.002  Score=61.54  Aligned_cols=26  Identities=35%  Similarity=0.157  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..-+.|+|.+|+|||+||..+.+...
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~  123 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRAC  123 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHH
Confidence            35689999999999999999988743

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

Probab=96.36  E-value=0.012  Score=65.25  Aligned_cols=52  Identities=23%  Similarity=0.332  Sum_probs=41.2

Q ss_pred             CCccccchhHHHHHHhhhc----CCCCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          184 DGLVGLNSRIEKIKSLLCI----GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      .+.+|.++.+++|.++|..    +......+.++|++|+||||+|+.++..+...|
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~  377 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKY  377 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            4579999999999988862    122356899999999999999999998754443

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

Probab=96.35  E-value=0.0028  Score=52.08  Aligned_cols=26  Identities=35%  Similarity=0.508  Sum_probs=22.1

Q ss_pred             EEEeccCcchhhhHHHHHHHhhhccc
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      |-|+|.+|+|||+||..++..+..++
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~   26 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHI   26 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            45899999999999999988876554

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PRK07261 topology modulation protein; Provisional

Probab=96.31  E-value=0.0027  Score=56.99  Aligned_cols=23  Identities=35%  Similarity=0.515  Sum_probs=20.4

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|.|+|++|+||||||+.+....
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            48999999999999999987663

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

Probab=96.30  E-value=0.0016  Score=58.73  Aligned_cols=36  Identities=33%  Similarity=0.264  Sum_probs=24.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ..-+.++|.+|+|||.||..+.+....+=..+.|+.
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~   82 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT   82 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee
Confidence            356899999999999999999987444322344443

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

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

Probab=96.29  E-value=0.0028  Score=53.28  Aligned_cols=22  Identities=41%  Similarity=0.711  Sum_probs=20.4

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |+|.|.+|+||||||+++....
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999998875

...

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

Probab=96.26  E-value=0.0031  Score=53.27  Aligned_cols=25  Identities=40%  Similarity=0.417  Sum_probs=21.9

Q ss_pred             EEEeccCcchhhhHHHHHHHhhhcc
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      |.|+|.+|+|||++|+.+++....+
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~   25 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFP   25 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSE
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccc
Confidence            5799999999999999999987533

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=96.26  E-value=0.026  Score=55.72  Aligned_cols=131  Identities=15%  Similarity=0.143  Sum_probs=84.2

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------ccceEeeeh-----
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------FEGNCFLGN-----  243 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------f~~~~~~~~-----  243 (471)
                      .+++|-+..++.+.+.+..+. -.....++|..|+||+++|..+++.+-..               ++...|+.-     
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~r-l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~   82 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNR-IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQ   82 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEecccccc
Confidence            458899999999998886432 24689999999999999999998874221               222233321     


Q ss_pred             --------------------------hhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeC
Q 041795          244 --------------------------VREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTR  283 (471)
Q Consensus       244 --------------------------~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR  283 (471)
                                                +++....       +     |+|+++.  ....+.|+..+...+ .+.+|++|.
T Consensus        83 g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fILi~~  161 (314)
T PRK07399         83 GKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLILIAP  161 (314)
T ss_pred             ccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEEEEEC
Confidence                                      1111110       0     8888863  445666666655444 445555554


Q ss_pred             Ch-hhhhhhCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          284 DK-WILDKFGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       284 ~~-~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      +. .+...+.. ....+++++++.++..+.+.+..
T Consensus       162 ~~~~Ll~TI~S-Rcq~i~f~~l~~~~~~~~L~~~~  195 (314)
T PRK07399        162 SPESLLPTIVS-RCQIIPFYRLSDEQLEQVLKRLG  195 (314)
T ss_pred             ChHhCcHHHHh-hceEEecCCCCHHHHHHHHHHhh
Confidence            43 33333221 15679999999999999988764

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.25  E-value=0.0033  Score=57.61  Aligned_cols=25  Identities=48%  Similarity=0.732  Sum_probs=22.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +|+|.|.+|+||||+|+.+...+..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~   25 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNK   25 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCc
Confidence            6999999999999999999988764

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.25  E-value=0.005  Score=61.08  Aligned_cols=35  Identities=23%  Similarity=0.258  Sum_probs=27.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .-+.++|.+|+|||.||.++++.+...--.+.|+.
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t  218 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT  218 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            67999999999999999999998654433445543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.23  E-value=0.03  Score=62.85  Aligned_cols=49  Identities=22%  Similarity=0.367  Sum_probs=38.2

Q ss_pred             CCccccchhHHHHHHhhhcC------CC-CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIG------RP-DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~------~~-~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|-+..++.+...+...      .+ ...++.++|..|+|||+||+.+++...
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~  623 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMF  623 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhh
Confidence            46889999988888877521      11 235789999999999999999987653

>TIGR00767 rho transcription termination factor Rho

Probab=96.17  E-value=0.0044  Score=62.39  Aligned_cols=39  Identities=21%  Similarity=-0.012  Sum_probs=33.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc-ccceEeeehhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNCFLGNVR  245 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~~~~~~  245 (471)
                      -..++|+|.+|.|||||++.+++.+... |+..+|+..+.
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIg  207 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLID  207 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcC
Confidence            4579999999999999999999986655 99999998553

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

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.17  E-value=0.048  Score=57.07  Aligned_cols=133  Identities=20%  Similarity=0.146  Sum_probs=73.1

Q ss_pred             CCccccchhHHHHHHhhh--------cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccce-------Eeeeh----h
Q 041795          184 DGLVGLNSRIEKIKSLLC--------IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN-------CFLGN----V  244 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~--------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~-------~~~~~----~  244 (471)
                      +++.|.+..++.+.+...        .+-...+-|.++|++|+|||.+|+.+++...-.|-..       -|+..    +
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~vGese~~l  307 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGESESRM  307 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccccChHHHHH
Confidence            567787766666654221        1123467799999999999999999998754322100       01111    1


Q ss_pred             hhhhhc------C--cccccCCHh--------------hHHHHhcCCCCCCCCcEEEEEeCChhhh-----hhhCcCCCc
Q 041795          245 REESEK------G--VLDDVNKIG--------------QLQYLTCGLDRFGPGSRIIITTRDKWIL-----DKFGVHDTN  297 (471)
Q Consensus       245 ~~~~~~------~--VLDdv~~~~--------------~~~~l~~~~~~~~~gs~IiiTTR~~~v~-----~~~~~~~~~  297 (471)
                      ++....      .  ++|+++...              .+..++..+.....+.-||.||.+...+     .....  +.
T Consensus       308 ~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRF--D~  385 (489)
T CHL00195        308 RQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRF--DE  385 (489)
T ss_pred             HHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcC--Ce
Confidence            111100      0  577775210              1122222222223344566677655422     21123  56


Q ss_pred             eEEeCCCCHHHHHHHHHhccc
Q 041795          298 VYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      .+.++..+.++-.++|..+.-
T Consensus       386 ~i~v~lP~~~eR~~Il~~~l~  406 (489)
T CHL00195        386 IFFLDLPSLEEREKIFKIHLQ  406 (489)
T ss_pred             EEEeCCcCHHHHHHHHHHHHh
Confidence            788999999988888887653

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.14  E-value=0.031  Score=62.90  Aligned_cols=49  Identities=22%  Similarity=0.367  Sum_probs=39.0

Q ss_pred             CCccccchhHHHHHHhhhcC------CC-CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIG------RP-DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~------~~-~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|.+..++.+...+...      .+ ...++.++|++|+|||+||+.+.....
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~  620 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLF  620 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            46899999999998877631      11 245788999999999999999998653

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

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.12  E-value=0.021  Score=56.83  Aligned_cols=64  Identities=13%  Similarity=0.117  Sum_probs=45.2

Q ss_pred             cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCceEEeCCCCHHHHHHHHHhc
Q 041795          252 VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTNVYEVNGLRYHEALELFCNC  316 (471)
Q Consensus       252 VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~  316 (471)
                      |+|+++  +....+.|+..+....+++.+|++|.+. .++..+.. ....+.+++++.++..+.+...
T Consensus       137 iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~S-Rcq~i~~~~~~~~~~~~~L~~~  203 (342)
T PRK06964        137 VLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILS-RCRQFPMTVPAPEAAAAWLAAQ  203 (342)
T ss_pred             EEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHh-cCEEEEecCCCHHHHHHHHHHc
Confidence            788886  4566778887777666788777766654 44433221 1467999999999999888765

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

Probab=96.08  E-value=0.014  Score=59.74  Aligned_cols=108  Identities=25%  Similarity=0.284  Sum_probs=65.2

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhhhhhhc-------------------------CcccccCCH
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEK-------------------------GVLDDVNKI  259 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~~~~~~-------------------------~VLDdv~~~  259 (471)
                      .....+.+.|.+|+|||+||..++..  ..|+.+--+   +.....                         .|+||+...
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~--S~FPFvKii---Spe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiErL  610 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALS--SDFPFVKII---SPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIERL  610 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhh--cCCCeEEEe---ChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcchhhh
Confidence            34778899999999999999998753  334422222   111111                         188888533


Q ss_pred             hhH------------HHHhcCCCCCC-CCcEE--EEEeCChhhhhhhCcCC--CceEEeCCCCH-HHHHHHHHhcc
Q 041795          260 GQL------------QYLTCGLDRFG-PGSRI--IITTRDKWILDKFGVHD--TNVYEVNGLRY-HEALELFCNCA  317 (471)
Q Consensus       260 ~~~------------~~l~~~~~~~~-~gs~I--iiTTR~~~v~~~~~~~~--~~~~~l~~L~~-~ea~~Lf~~~a  317 (471)
                      -+|            +.|+-.+.... .|-|.  +-||-...++..++..+  ...|+++.++. ++....++..-
T Consensus       611 iD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~n  686 (744)
T KOG0741|consen  611 LDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEELN  686 (744)
T ss_pred             hcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHHHHcc
Confidence            222            23322222222 34444  44777788888776421  45789999987 67777776543

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

Probab=96.07  E-value=0.0045  Score=53.30  Aligned_cols=24  Identities=29%  Similarity=0.422  Sum_probs=21.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +|.++|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            588999999999999999986544

...

>PRK06762 hypothetical protein; Provisional

Probab=96.06  E-value=0.0051  Score=54.68  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=22.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+|.|+|++|+||||+|+.+.+.+
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999998876

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.03  E-value=0.0058  Score=56.60  Aligned_cols=26  Identities=42%  Similarity=0.641  Sum_probs=23.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|+|.|.+|+||||||+.++..+
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999998876

>PRK08233 hypothetical protein; Provisional

Probab=96.03  E-value=0.0052  Score=55.33  Aligned_cols=26  Identities=31%  Similarity=0.428  Sum_probs=23.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+|+|.|.+|+||||||+.++..+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999988753

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

Probab=96.02  E-value=0.0081  Score=61.43  Aligned_cols=45  Identities=29%  Similarity=0.283  Sum_probs=37.1

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++++.+..++.+...|..    .+.+.++|++|+|||++|+.+++.+.
T Consensus       175 ~d~~i~e~~le~l~~~L~~----~~~iil~GppGtGKT~lA~~la~~l~  219 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI----KKNIILQGPPGVGKTFVARRLAYLLT  219 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc----CCCEEEECCCCCCHHHHHHHHHHHhc
Confidence            4577888888888888863    34688899999999999999998764

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.02  E-value=0.0064  Score=51.27  Aligned_cols=28  Identities=36%  Similarity=0.328  Sum_probs=24.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      ..+.|+|.+|+||||+|+.++..+....
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~   30 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG   30 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC
Confidence            5789999999999999999998866554

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PRK03839 putative kinase; Provisional

Probab=96.01  E-value=0.005  Score=55.59  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=21.6

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .|.|.|++|+||||+|+.+++.+.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999998864

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

Probab=96.00  E-value=0.017  Score=48.69  Aligned_cols=60  Identities=13%  Similarity=0.134  Sum_probs=51.1

Q ss_pred             EEEcccccccCcchHHHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccC
Q 041795           14 VSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKH   76 (471)
Q Consensus        14 vFiS~~~~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~   76 (471)
                      |||-|. .|  ..+++.+...|+..|+.+.+=......|..+.+.+.+.+.+++.+|+++||+
T Consensus         2 VFIvhg-~~--~~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpD   61 (125)
T PF10137_consen    2 VFIVHG-RD--LAAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPD   61 (125)
T ss_pred             EEEEeC-CC--HHHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEccc
Confidence            899997 66  5589999999998888765433355889999999999999999999999984

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

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

Probab=95.99  E-value=0.0076  Score=63.83  Aligned_cols=52  Identities=25%  Similarity=0.413  Sum_probs=43.6

Q ss_pred             CCccccchhHHHHHHhhh----cCCCCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          184 DGLVGLNSRIEKIKSLLC----IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~----~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      ++-+|+++.++++.+.+.    .++.+-++++.+|++|+|||.+|+.|+..+...|
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkF  466 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKF  466 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCce
Confidence            345899999999999886    2344578999999999999999999999876654

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

Probab=95.99  E-value=0.025  Score=53.09  Aligned_cols=52  Identities=27%  Similarity=0.418  Sum_probs=40.6

Q ss_pred             CCCCccccchhHHHHHHhhh--cCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          182 NFDGLVGLNSRIEKIKSLLC--IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~--~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..+.++|.+..++.|.+-..  ..+....-+.++|..|.|||+|++++.+.+..
T Consensus        25 ~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~   78 (249)
T PF05673_consen   25 RLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYAD   78 (249)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhh
Confidence            44679999999999887543  12334566788999999999999999987654

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=95.98  E-value=0.023  Score=56.11  Aligned_cols=123  Identities=24%  Similarity=0.194  Sum_probs=73.1

Q ss_pred             ccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc---------------------cceEeeeh-
Q 041795          186 LVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF---------------------EGNCFLGN-  243 (471)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f---------------------~~~~~~~~-  243 (471)
                      ++|-+....++..+..........+.++|++|+||||+|..+++.+....                     +....+.. 
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s   82 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPS   82 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEeccc
Confidence            56667777777777764433344699999999999999999998865322                     22222221 


Q ss_pred             -----------hhhhhhc-------C-----cccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCCc
Q 041795          244 -----------VREESEK-------G-----VLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDTN  297 (471)
Q Consensus       244 -----------~~~~~~~-------~-----VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~~  297 (471)
                                 +++....       +     ++|+++..  +.-+.+...+......+++|++|.+.. +...+.. ...
T Consensus        83 ~~~~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~S-Rc~  161 (325)
T COG0470          83 DLRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRS-RCQ  161 (325)
T ss_pred             ccCCCcchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhhh-cce
Confidence                       1111111       0     78998753  345666666665567888888887442 2222211 134


Q ss_pred             eEEeCCCCHHHH
Q 041795          298 VYEVNGLRYHEA  309 (471)
Q Consensus       298 ~~~l~~L~~~ea  309 (471)
                      .+++++.+..+.
T Consensus       162 ~i~f~~~~~~~~  173 (325)
T COG0470         162 RIRFKPPSRLEA  173 (325)
T ss_pred             eeecCCchHHHH
Confidence            566766444433

>TIGR00235 udk uridine kinase

Probab=95.95  E-value=0.007  Score=56.02  Aligned_cols=28  Identities=43%  Similarity=0.603  Sum_probs=24.3

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +...+|+|+|.+|+||||||+.+...+.
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3467999999999999999999987654

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.94  E-value=0.011  Score=55.75  Aligned_cols=31  Identities=39%  Similarity=0.478  Sum_probs=26.4

Q ss_pred             CCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .....+++|.|.+|.|||||++.+...+...
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            3457899999999999999999998876543

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=95.93  E-value=0.023  Score=63.64  Aligned_cols=49  Identities=27%  Similarity=0.415  Sum_probs=38.2

Q ss_pred             CCccccchhHHHHHHhhhc-------CCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCI-------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|-+..++.+.+.+..       ......++.++|++|+|||.||+.++..+.
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~  621 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLY  621 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4678999999888887642       112355789999999999999999887753

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

>PTZ00301 uridine kinase; Provisional

Probab=95.91  E-value=0.0061  Score=56.50  Aligned_cols=29  Identities=28%  Similarity=0.545  Sum_probs=24.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      ..+|||.|.+|+||||||+.+.+.+...+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~~~~   31 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELMAHC   31 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHHhhc
Confidence            36899999999999999999988765443

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.91  E-value=0.06  Score=55.47  Aligned_cols=29  Identities=28%  Similarity=0.392  Sum_probs=24.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+|.++|.+|+||||+|..++..+...
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~  122 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKK  122 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            46799999999999999999998876543

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

Probab=95.89  E-value=0.006  Score=45.73  Aligned_cols=23  Identities=35%  Similarity=0.563  Sum_probs=20.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +|+|.|.+|+||||+|+.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998875

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

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.87  E-value=0.035  Score=53.70  Aligned_cols=30  Identities=27%  Similarity=0.358  Sum_probs=25.1

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+++.++|.+|+||||++..++..+...
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~~~   99 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLKKQ   99 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            346899999999999999999988776543

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

>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

Probab=95.86  E-value=0.01  Score=52.00  Aligned_cols=35  Identities=29%  Similarity=0.364  Sum_probs=29.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .+|-|.|++|.||||||+++...+...-....+++
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD   37 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLLD   37 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence            58899999999999999999999877665566654

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=95.86  E-value=0.011  Score=54.58  Aligned_cols=45  Identities=22%  Similarity=0.234  Sum_probs=34.5

Q ss_pred             hhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeeh
Q 041795          199 LLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGN  243 (471)
Q Consensus       199 ~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~  243 (471)
                      +|..+-..-.++.|+|.+|+|||++|.+++......-...+|++.
T Consensus         4 ~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~   48 (209)
T TIGR02237         4 LLGGGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDT   48 (209)
T ss_pred             hhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEC
Confidence            344344556899999999999999999988876555566777763

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

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.81  E-value=0.016  Score=54.24  Aligned_cols=49  Identities=22%  Similarity=0.211  Sum_probs=36.8

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeeh
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGN  243 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~  243 (471)
                      .|.++|..+-..-.++.|+|.+|+|||+||.+++......-..++|++.
T Consensus        11 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~   59 (225)
T PRK09361         11 MLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDT   59 (225)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEC
Confidence            4555555444556799999999999999999998876555566777763

>PRK00131 aroK shikimate kinase; Reviewed

Probab=95.81  E-value=0.0074  Score=53.79  Aligned_cols=25  Identities=20%  Similarity=0.276  Sum_probs=22.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...|.|+|++|+||||+|+.++..+
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999999876

>PRK00625 shikimate kinase; Provisional

Probab=95.79  E-value=0.0067  Score=54.45  Aligned_cols=24  Identities=21%  Similarity=0.366  Sum_probs=21.2

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .|.|+||+|+||||+++.+.+.+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            378999999999999999988753

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.78  E-value=0.034  Score=56.81  Aligned_cols=99  Identities=24%  Similarity=0.243  Sum_probs=66.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhccccceEeee--hh--------------hhhhh--c--CcccccCCHhhHHHHhcC
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG--NV--------------REESE--K--GVLDDVNKIGQLQYLTCG  268 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~--~~--------------~~~~~--~--~VLDdv~~~~~~~~l~~~  268 (471)
                      ++.|.|+-++|||||++.+.......   .+++.  +.              .+...  +  -+||.|.....|+..+..
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~~~~~l~d~~~~~~~~~~~~~~yifLDEIq~v~~W~~~lk~  115 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRLDRIELLDLLRAYIELKEREKSYIFLDEIQNVPDWERALKY  115 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhcchhhHHHHHHHHHHhhccCCceEEEecccCchhHHHHHHH
Confidence            99999999999999997777665444   22221  00              00000  0  189999998899887777


Q ss_pred             CCCCCCCcEEEEEeCChhhhhhhC----cCCCceEEeCCCCHHHHHH
Q 041795          269 LDRFGPGSRIIITTRDKWILDKFG----VHDTNVYEVNGLRYHEALE  311 (471)
Q Consensus       269 ~~~~~~gs~IiiTTR~~~v~~~~~----~~~~~~~~l~~L~~~ea~~  311 (471)
                      +-..++. +|++|+-+..+.....    ++....+++-||+..|-..
T Consensus       116 l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373         116 LYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             HHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence            6655555 8899887765443211    1125679999999999865

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.77  E-value=0.024  Score=52.10  Aligned_cols=27  Identities=33%  Similarity=0.473  Sum_probs=22.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .+|.|+|..|.||||++..+...+...
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~   28 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKN   28 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            378999999999999999887765433

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>cd01394 radB RadB

Probab=95.77  E-value=0.018  Score=53.61  Aligned_cols=49  Identities=20%  Similarity=0.221  Sum_probs=35.6

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ..|..+|..+-..-.++.|.|.+|+||||||.+++.....+=..++|++
T Consensus         6 ~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~   54 (218)
T cd01394           6 KGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID   54 (218)
T ss_pred             hHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3455556544455789999999999999999999887654434455664

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

>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

Probab=95.77  E-value=0.0072  Score=50.88  Aligned_cols=31  Identities=39%  Similarity=0.408  Sum_probs=21.6

Q ss_pred             EEEeccCcchhhhHHHHHHHhhhccccceEe
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF  240 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~  240 (471)
                      |.|.|.+|+||||+|+.++..+...|.-+-+
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~RIq~   32 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFKRIQF   32 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EEEEE-
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCceeEEEe
Confidence            6799999999999999999998888865444

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.76  E-value=0.043  Score=56.19  Aligned_cols=29  Identities=21%  Similarity=0.334  Sum_probs=24.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+|.++|.+|+||||+|..++..+..+
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~  127 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRK  127 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            36899999999999999999988765543

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

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=95.71  E-value=0.05  Score=53.88  Aligned_cols=50  Identities=32%  Similarity=0.353  Sum_probs=41.7

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCC-ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPD-FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+++.+|+.+++.+..++...+.. +..|-|+|..|.|||.+.+.+++..
T Consensus         4 l~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~   54 (438)
T KOG2543|consen    4 LEPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL   54 (438)
T ss_pred             cccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc
Confidence            3467899999999999999765544 4455899999999999999999875

>cd01858 NGP_1 NGP-1

Probab=95.68  E-value=0.098  Score=45.93  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=19.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ...|+++|++|+|||||...+..
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~  124 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRS  124 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhc
Confidence            35688999999999999988865

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

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=95.68  E-value=0.012  Score=54.15  Aligned_cols=30  Identities=37%  Similarity=0.460  Sum_probs=26.8

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..+.+|||-|.+|.||||+|+.+++.+..+
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            346899999999999999999999988866

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.66  E-value=0.0091  Score=54.02  Aligned_cols=26  Identities=31%  Similarity=0.340  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +.++|.|.|++|+||||+|+.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998654

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=95.65  E-value=0.038  Score=61.95  Aligned_cols=49  Identities=16%  Similarity=0.264  Sum_probs=37.5

Q ss_pred             CCccccchhHHHHHHhhhc------CC-CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCI------GR-PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~------~~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|-+..++.+...+..      .. .....+.++|+.|+|||+||+.+++.+.
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~  564 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFF  564 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhc
Confidence            5688999888888776642      11 1245678999999999999999988753

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=95.64  E-value=0.023  Score=56.44  Aligned_cols=109  Identities=17%  Similarity=0.117  Sum_probs=63.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc----------------------ccceEeee------------------hhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE----------------------FEGNCFLG------------------NVRE  246 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~----------------------f~~~~~~~------------------~~~~  246 (471)
                      ...+.++|+.|+||||+|+.++..+...                      .....++.                  .+++
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR~  100 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVRE  100 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHHH
Confidence            4578899999999999999998874311                      01111221                  1121


Q ss_pred             hhhc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCCceEEeCCCCHHHHHH
Q 041795          247 ESEK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDTNVYEVNGLRYHEALE  311 (471)
Q Consensus       247 ~~~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~~~~~l~~L~~~ea~~  311 (471)
                      ....       +     ++|+++  +....+.++..+.....++.+|++|.+.. +...+.. ....+.+.+++.+++.+
T Consensus       101 l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~S-Rc~~~~~~~~~~~~~~~  179 (325)
T PRK08699        101 IIDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKS-RCRKMVLPAPSHEEALA  179 (325)
T ss_pred             HHHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHH-HhhhhcCCCCCHHHHHH
Confidence            1111       0     455554  33444445444443334566777887754 3322211 14678999999999988


Q ss_pred             HHHhc
Q 041795          312 LFCNC  316 (471)
Q Consensus       312 Lf~~~  316 (471)
                      .+...
T Consensus       180 ~L~~~  184 (325)
T PRK08699        180 YLRER  184 (325)
T ss_pred             HHHhc
Confidence            77654

>PRK13531 regulatory ATPase RavA; Provisional

Probab=95.59  E-value=0.012  Score=60.88  Aligned_cols=45  Identities=20%  Similarity=0.110  Sum_probs=37.7

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++||++.++.+...+..+    .-|.|.|.+|+|||+||+.+.....
T Consensus        20 ~~i~gre~vI~lll~aalag----~hVLL~GpPGTGKT~LAraLa~~~~   64 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQ   64 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC----CCEEEECCCChhHHHHHHHHHHHhc
Confidence            45899999999888877644    3588999999999999999988643

>PRK04040 adenylate kinase; Provisional

Probab=95.56  E-value=0.012  Score=53.68  Aligned_cols=25  Identities=28%  Similarity=0.465  Sum_probs=22.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+|+|+|++|+||||+++.+.+.+.
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            5899999999999999999988874

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=95.55  E-value=0.011  Score=56.56  Aligned_cols=28  Identities=39%  Similarity=0.287  Sum_probs=24.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...-+.++|.+|+|||.||.++.+.+..
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~  131 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLK  131 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHH
Confidence            4567899999999999999999999774

>PRK13947 shikimate kinase; Provisional

Probab=95.54  E-value=0.0093  Score=53.19  Aligned_cols=25  Identities=28%  Similarity=0.332  Sum_probs=22.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      -|.|+|++|+||||+|+.+.+.+.-
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~   27 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSF   27 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4889999999999999999987643

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.52  E-value=0.018  Score=51.73  Aligned_cols=28  Identities=32%  Similarity=0.343  Sum_probs=24.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+|.|+|++|+||||+|+.++.....
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~   30 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLRE   30 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3469999999999999999999988643

>PRK06547 hypothetical protein; Provisional

Probab=95.51  E-value=0.012  Score=52.68  Aligned_cols=26  Identities=46%  Similarity=0.469  Sum_probs=23.4

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....+|+|.|.+|+||||+|+.+.+.
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999876

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

Probab=95.50  E-value=0.092  Score=49.05  Aligned_cols=142  Identities=24%  Similarity=0.311  Sum_probs=80.1

Q ss_pred             cc-ccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhhhhhhc---
Q 041795          186 LV-GLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREESEK---  250 (471)
Q Consensus       186 ~v-Gr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~~~~~~---  250 (471)
                      ++ |.+..+++|.+.+..           +-..++=+.++|++|.|||-||+++++.     ..+.|+..+.....+   
T Consensus       148 MiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahh-----t~c~firvsgselvqk~i  222 (404)
T KOG0728|consen  148 MIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHH-----TDCTFIRVSGSELVQKYI  222 (404)
T ss_pred             HhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhh-----cceEEEEechHHHHHHHh
Confidence            44 457777777776542           2234677899999999999999999873     334444443332222   


Q ss_pred             --C-------------------cccccCCH-------------h---hHHHHhcCCCCCC--CCcEEEEEeCChhhhhh-
Q 041795          251 --G-------------------VLDDVNKI-------------G---QLQYLTCGLDRFG--PGSRIIITTRDKWILDK-  290 (471)
Q Consensus       251 --~-------------------VLDdv~~~-------------~---~~~~l~~~~~~~~--~gs~IiiTTR~~~v~~~-  290 (471)
                        |                   ..|.+++.             +   ..-.|+..++.|.  +.-++|..|..-+++.. 
T Consensus       223 gegsrmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~a  302 (404)
T KOG0728|consen  223 GEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPA  302 (404)
T ss_pred             hhhHHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHh
Confidence              1                   44655421             1   1123444454443  46778887765444332 


Q ss_pred             ----hCcCCCceEEeCCCCHHHHHHHHHhccccCC-CCCchHHHHHHHH
Q 041795          291 ----FGVHDTNVYEVNGLRYHEALELFCNCAFKEN-HCPSGFLASSKRV  334 (471)
Q Consensus       291 ----~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~l~~~i  334 (471)
                          -..  +.-++.++-+.+.-.+++.-+.-+-+ ...-++..+++++
T Consensus       303 llrpgri--drkiefp~p~e~ar~~ilkihsrkmnl~rgi~l~kiaekm  349 (404)
T KOG0728|consen  303 LLRPGRI--DRKIEFPPPNEEARLDILKIHSRKMNLTRGINLRKIAEKM  349 (404)
T ss_pred             hcCCCcc--cccccCCCCCHHHHHHHHHHhhhhhchhcccCHHHHHHhC
Confidence                222  45677777776666666665442211 1123566666665

>PRK08939 primosomal protein DnaI; Reviewed

Probab=95.43  E-value=0.019  Score=56.45  Aligned_cols=28  Identities=32%  Similarity=0.368  Sum_probs=24.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .+-+.|+|..|+|||.||.++++.+...
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~  183 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELAKK  183 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4678999999999999999999986543

>PHA00729 NTP-binding motif containing protein

Probab=95.43  E-value=0.02  Score=53.30  Aligned_cols=27  Identities=33%  Similarity=0.466  Sum_probs=23.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +...|.|.|.+|+||||||..+.+.+.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            445789999999999999999988753

>PRK03846 adenylylsulfate kinase; Provisional

Probab=95.40  E-value=0.022  Score=52.35  Aligned_cols=37  Identities=24%  Similarity=0.293  Sum_probs=28.3

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      +...+|+|+|++|+||||||+.+...+...-...+++
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l   58 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLL   58 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence            3567999999999999999999998764432234444

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.40  E-value=0.059  Score=53.29  Aligned_cols=29  Identities=24%  Similarity=0.323  Sum_probs=25.0

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+++++|++|+||||++..++..+...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            46899999999999999999998876543

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.39  E-value=0.021  Score=48.76  Aligned_cols=26  Identities=31%  Similarity=0.261  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .-.+|.+.|.-|.|||||++.++..+
T Consensus        21 ~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        21 FGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34589999999999999999998864

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

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=95.39  E-value=0.12  Score=51.20  Aligned_cols=122  Identities=16%  Similarity=0.177  Sum_probs=75.8

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEee----------e
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCFL----------G  242 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~~----------~  242 (471)
                      +.|.+.+..+ .-.....+.|+.|+||+++|..++..+-..                     .+...++          +
T Consensus        12 ~~l~~~~~~~-rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~id   90 (325)
T PRK06871         12 QQITQAFQQG-LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGVD   90 (325)
T ss_pred             HHHHHHHHcC-CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCHH
Confidence            3444544422 124577899999999999999998864321                     0111122          1


Q ss_pred             hhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCceEEeCCCCHH
Q 041795          243 NVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTNVYEVNGLRYH  307 (471)
Q Consensus       243 ~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~~~~l~~L~~~  307 (471)
                      .+++....       |     |+|+++.  ....+.|+..+.....++.+|++|.+. .++..+.. ....+.+.+++.+
T Consensus        91 ~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~S-RC~~~~~~~~~~~  169 (325)
T PRK06871         91 QVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYS-RCQTWLIHPPEEQ  169 (325)
T ss_pred             HHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHh-hceEEeCCCCCHH
Confidence            12211110       1     7899874  456777777776666788888888765 33333211 1467999999999


Q ss_pred             HHHHHHHhcc
Q 041795          308 EALELFCNCA  317 (471)
Q Consensus       308 ea~~Lf~~~a  317 (471)
                      +..+.+....
T Consensus       170 ~~~~~L~~~~  179 (325)
T PRK06871        170 QALDWLQAQS  179 (325)
T ss_pred             HHHHHHHHHh
Confidence            9998887653

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

Probab=95.37  E-value=0.012  Score=50.60  Aligned_cols=23  Identities=48%  Similarity=0.495  Sum_probs=20.8

Q ss_pred             EEEeccCcchhhhHHHHHHHhhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      |.|+|.+|+|||+||+.++..+.
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~   24 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLG   24 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            67999999999999999998763

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=95.37  E-value=0.01  Score=53.57  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.7

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +|.|+|++|+||||+|+.++..+
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            57899999999999999998765

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

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

Probab=95.34  E-value=0.29  Score=53.17  Aligned_cols=136  Identities=22%  Similarity=0.216  Sum_probs=78.6

Q ss_pred             CCCCccccchhHHHHHHhhh----------cCCCCceEEEEeccCcchhhhHHHHHHHhhh--------ccccceEeee-
Q 041795          182 NFDGLVGLNSRIEKIKSLLC----------IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY--------KEFEGNCFLG-  242 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~----------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~--------~~f~~~~~~~-  242 (471)
                      ...++.|.++..++|.+...          .+..-++=+.++|++|.|||-||++++-.-.        .+|-...+-. 
T Consensus       309 ~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~~~g~~  388 (774)
T KOG0731|consen  309 KFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEMFVGVG  388 (774)
T ss_pred             ccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHHhcccc
Confidence            34678999887777766443          1223377889999999999999999976311        1121111110 


Q ss_pred             --hhhhhhhcC--------cccccC-----------------CHhhHHHHhcCCCCCCCCcEEEE--EeCChhhhhh---
Q 041795          243 --NVREESEKG--------VLDDVN-----------------KIGQLQYLTCGLDRFGPGSRIII--TTRDKWILDK---  290 (471)
Q Consensus       243 --~~~~~~~~~--------VLDdv~-----------------~~~~~~~l~~~~~~~~~gs~Iii--TTR~~~v~~~---  290 (471)
                        .+++.....        .+|+++                 ....+++|+..++.+..++.+|+  +|...+++..   
T Consensus       389 asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~ld~all  468 (774)
T KOG0731|consen  389 ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDILDPALL  468 (774)
T ss_pred             hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCccccCHHhc
Confidence              111111100        223321                 12346778777776665544443  5655544432   


Q ss_pred             --hCcCCCceEEeCCCCHHHHHHHHHhcccc
Q 041795          291 --FGVHDTNVYEVNGLRYHEALELFCNCAFK  319 (471)
Q Consensus       291 --~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~  319 (471)
                        -..  +..+.++.-+...-.++|.-|+-+
T Consensus       469 rpGRf--dr~i~i~~p~~~~r~~i~~~h~~~  497 (774)
T KOG0731|consen  469 RPGRF--DRQIQIDLPDVKGRASILKVHLRK  497 (774)
T ss_pred             CCCcc--ccceeccCCchhhhHHHHHHHhhc
Confidence              122  566778888888888888877743

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

Probab=95.31  E-value=0.017  Score=52.12  Aligned_cols=25  Identities=44%  Similarity=0.606  Sum_probs=22.2

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +|+|.|.+|+||||||+.+...+..
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~   25 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRV   25 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5899999999999999999887653

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.28  E-value=0.014  Score=52.39  Aligned_cols=25  Identities=28%  Similarity=0.453  Sum_probs=22.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ++|.+.|++|+||||+|+.+.....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            5899999999999999999987643

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>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

Probab=95.27  E-value=0.018  Score=51.43  Aligned_cols=45  Identities=31%  Similarity=0.299  Sum_probs=33.5

Q ss_pred             ccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          186 LVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ++|.+..++++.+.+..-......|.|+|..|+||+.+|+.+.+.
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHC
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHh
Confidence            478888888888877643333456779999999999999999985

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.22  E-value=0.012  Score=54.03  Aligned_cols=23  Identities=48%  Similarity=0.739  Sum_probs=20.8

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +|+|.|.+|+||||||+.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999987765

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PRK06217 hypothetical protein; Validated

Probab=95.18  E-value=0.014  Score=52.88  Aligned_cols=23  Identities=35%  Similarity=0.512  Sum_probs=21.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|.|.|.+|.||||||+++...+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999875

>PRK14974 cell division protein FtsY; Provisional

Probab=95.17  E-value=0.095  Score=52.13  Aligned_cols=28  Identities=29%  Similarity=0.353  Sum_probs=24.0

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+|+++|++|+||||++..++..+..
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~  166 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKK  166 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3689999999999999999888876554

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=95.17  E-value=0.016  Score=50.03  Aligned_cols=35  Identities=23%  Similarity=0.321  Sum_probs=26.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh-ccccceEeee
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY-KEFEGNCFLG  242 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~-~~f~~~~~~~  242 (471)
                      ++|.|+|..|+|||||++.+.+.+. ..+...+..+
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~   36 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKH   36 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEE
Confidence            4799999999999999999999866 4455544443

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=95.17  E-value=0.025  Score=53.38  Aligned_cols=32  Identities=25%  Similarity=0.275  Sum_probs=26.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhccccc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG  237 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~  237 (471)
                      ....|.++||+|.||||..+.++..+...+..
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~p   49 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKTP   49 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccCC
Confidence            46688999999999999999999887666543

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

Probab=95.15  E-value=0.033  Score=52.09  Aligned_cols=48  Identities=27%  Similarity=0.248  Sum_probs=34.3

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc------cceEeee
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF------EGNCFLG  242 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f------~~~~~~~  242 (471)
                      .|.++|..+-..-.++.|+|.+|+|||+||..++......-      ..++|++
T Consensus         7 ~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~   60 (226)
T cd01393           7 ALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYID   60 (226)
T ss_pred             HHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEe
Confidence            44555544445567999999999999999999877654333      4456665

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

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=95.15  E-value=0.013  Score=54.84  Aligned_cols=24  Identities=38%  Similarity=0.491  Sum_probs=21.8

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +|||.|.+|+||||||+.+...+.
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            589999999999999999988765

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

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

Probab=95.14  E-value=0.064  Score=58.45  Aligned_cols=50  Identities=20%  Similarity=0.309  Sum_probs=39.0

Q ss_pred             CCccccchhHHHHHHhhhc-------CCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          184 DGLVGLNSRIEKIKSLLCI-------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..++|-+..++.+.+.+..       .+....+....|+.|+|||.||+.++..+.+
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg  547 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFG  547 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcC
Confidence            4688998888888776642       1233678889999999999999999987543

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

Probab=95.13  E-value=0.013  Score=53.14  Aligned_cols=23  Identities=48%  Similarity=0.706  Sum_probs=21.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +|+|.|.+|+||||||+.+...+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998875

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

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

Probab=95.11  E-value=0.024  Score=61.72  Aligned_cols=47  Identities=21%  Similarity=0.318  Sum_probs=38.0

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +.++||+++++++.+.|.....+-+  .++|.+|+|||+++.-++.++.
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNP--vLiGEpGVGKTAIvEGLA~rIv  216 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNP--VLVGEPGVGKTAIVEGLAQRIV  216 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCC--eEecCCCCCHHHHHHHHHHHHh
Confidence            5689999999999999985443332  3689999999999998888743

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.10  E-value=0.016  Score=52.12  Aligned_cols=25  Identities=28%  Similarity=0.348  Sum_probs=21.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+++|+|++|+|||||++.+...+.
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999887643

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.07  E-value=0.026  Score=50.51  Aligned_cols=28  Identities=29%  Similarity=0.374  Sum_probs=24.7

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+++|+|..|+|||||++.+...+..
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~   32 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCA   32 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhh
Confidence            4679999999999999999999987654

>PRK13949 shikimate kinase; Provisional

Probab=95.07  E-value=0.016  Score=51.77  Aligned_cols=24  Identities=33%  Similarity=0.324  Sum_probs=21.6

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .|.|+|++|.||||+++.++..+.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999998754

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=95.07  E-value=0.15  Score=50.35  Aligned_cols=122  Identities=20%  Similarity=0.183  Sum_probs=73.4

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc------------------ccceEee-------------
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE------------------FEGNCFL-------------  241 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------------------f~~~~~~-------------  241 (471)
                      .+.+...+..+ .-...+.+.|..|+||+++|..++..+-..                  .....|+             
T Consensus        13 ~~~l~~~~~~~-rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~   91 (319)
T PRK08769         13 YDQTVAALDAG-RLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRT   91 (319)
T ss_pred             HHHHHHHHHcC-CcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccc
Confidence            34444444322 224578899999999999999988764221                  1112233             


Q ss_pred             ----ehhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCceEEeC
Q 041795          242 ----GNVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTNVYEVN  302 (471)
Q Consensus       242 ----~~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~~~~l~  302 (471)
                          +.+++....       +     |+|+++.  ...-+.|+..+.....++.+|++|.+. .++..+.. ....+.+.
T Consensus        92 ~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrS-RCq~i~~~  170 (319)
T PRK08769         92 EIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRS-RCQRLEFK  170 (319)
T ss_pred             cccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHh-hheEeeCC
Confidence                111111110       1     8899874  445666766666556678787777654 33333211 14678999


Q ss_pred             CCCHHHHHHHHHhc
Q 041795          303 GLRYHEALELFCNC  316 (471)
Q Consensus       303 ~L~~~ea~~Lf~~~  316 (471)
                      +++.+++.+.+...
T Consensus       171 ~~~~~~~~~~L~~~  184 (319)
T PRK08769        171 LPPAHEALAWLLAQ  184 (319)
T ss_pred             CcCHHHHHHHHHHc
Confidence            99999998888653

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

Probab=95.04  E-value=0.34  Score=45.21  Aligned_cols=57  Identities=26%  Similarity=0.299  Sum_probs=43.8

Q ss_pred             CCCCccccchhHHHHHHhhh--cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccce
Q 041795          182 NFDGLVGLNSRIEKIKSLLC--IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN  238 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~--~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~  238 (471)
                      .-..++|.+...+.|.+-..  ..+-...-|.+||--|+|||.|.+++.+.+....-..
T Consensus        58 ~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrL  116 (287)
T COG2607          58 DLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLRL  116 (287)
T ss_pred             CHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCeE
Confidence            44568999999998877443  2233456788999999999999999999887765543

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.03  E-value=0.056  Score=54.49  Aligned_cols=28  Identities=21%  Similarity=0.277  Sum_probs=24.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..++|+++|.+|+||||++..++..+..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~  267 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHG  267 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            3579999999999999999999876543

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

Probab=95.02  E-value=0.017  Score=50.29  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=20.2

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |.|+|++|.||||+|+.+...+
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998775

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

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

Probab=95.01  E-value=0.028  Score=51.59  Aligned_cols=28  Identities=21%  Similarity=0.312  Sum_probs=24.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++++.++|+.|+||||.+.+++.....+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~   28 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK   28 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc
Confidence            4689999999999999999988876554

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

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

Probab=95.00  E-value=0.037  Score=53.14  Aligned_cols=47  Identities=30%  Similarity=0.215  Sum_probs=38.2

Q ss_pred             HhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehh
Q 041795          198 SLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNV  244 (471)
Q Consensus       198 ~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~  244 (471)
                      +.|..+-+.-+++.|.|.+|+|||++|.++......+.+.++|+...
T Consensus        14 ~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~   60 (260)
T COG0467          14 EILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTE   60 (260)
T ss_pred             HHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEec
Confidence            34444446678999999999999999999999988888888888733

>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

Probab=95.00  E-value=0.016  Score=49.93  Aligned_cols=23  Identities=35%  Similarity=0.536  Sum_probs=20.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +|.|.|.+|+||||+|+.+....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998865

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=94.99  E-value=0.053  Score=57.44  Aligned_cols=47  Identities=23%  Similarity=0.278  Sum_probs=40.2

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..++|....++++.+.+..-......|.|+|..|+|||++|+.+.+.
T Consensus       187 ~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~  233 (509)
T PRK05022        187 GEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAA  233 (509)
T ss_pred             CceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHh
Confidence            56899999999999888754445567899999999999999999875

>PRK13948 shikimate kinase; Provisional

Probab=94.97  E-value=0.021  Score=51.72  Aligned_cols=27  Identities=22%  Similarity=0.327  Sum_probs=23.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+.|.++|+.|+||||+++.+.+.+.
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg   35 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALM   35 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            457899999999999999999998754

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=94.97  E-value=0.016  Score=50.49  Aligned_cols=22  Identities=32%  Similarity=0.595  Sum_probs=19.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ++.++|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            3789999999999999999876

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=94.91  E-value=0.038  Score=52.05  Aligned_cols=48  Identities=23%  Similarity=0.239  Sum_probs=32.8

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc------ccceEeee
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE------FEGNCFLG  242 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~~~  242 (471)
                      .|..+|..+-..-.++.|+|.+|+|||+||.+++......      -..++|++
T Consensus         7 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~   60 (235)
T cd01123           7 ALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYID   60 (235)
T ss_pred             hhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEe
Confidence            3444554444556799999999999999999987553221      24566665

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

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=94.89  E-value=0.045  Score=60.24  Aligned_cols=47  Identities=28%  Similarity=0.310  Sum_probs=38.5

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..++|....++.+.+.+..-......|.|+|..|+|||++|+.+++.
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~  422 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNL  422 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence            46899999999988777643334457899999999999999999875

>PRK05439 pantothenate kinase; Provisional

Probab=94.86  E-value=0.036  Score=54.39  Aligned_cols=30  Identities=30%  Similarity=0.309  Sum_probs=25.1

Q ss_pred             CCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ....-+|||.|.+|+||||+|+.+...+..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~~l~~  112 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQALLSR  112 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            345789999999999999999998876543

>PRK13946 shikimate kinase; Provisional

Probab=94.85  E-value=0.021  Score=51.85  Aligned_cols=26  Identities=27%  Similarity=0.402  Sum_probs=23.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+.|.++|++|+||||+|+.+.+.+.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            35799999999999999999998763

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=94.76  E-value=0.029  Score=48.93  Aligned_cols=34  Identities=26%  Similarity=0.308  Sum_probs=26.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ++.|+|.+|+||||++..+.......-..++|+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   34 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVD   34 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEE
Confidence            3689999999999999999887655434445544

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

>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 [, ]

Probab=94.75  E-value=1.5  Score=44.71  Aligned_cols=39  Identities=26%  Similarity=0.359  Sum_probs=31.6

Q ss_pred             cchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHH-HHHHH
Q 041795          189 LNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLA-GAIFN  229 (471)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA-~~v~~  229 (471)
                      |.+.+++|..||....  -..|.|.|+-|+||+.|. .++..
T Consensus         1 R~e~~~~L~~wL~e~~--~TFIvV~GPrGSGK~elV~d~~L~   40 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENP--NTFIVVQGPRGSGKRELVMDHVLK   40 (431)
T ss_pred             CchHHHHHHHHHhcCC--CeEEEEECCCCCCccHHHHHHHHh
Confidence            5677899999998544  458999999999999999 55544

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=94.73  E-value=0.023  Score=51.83  Aligned_cols=26  Identities=38%  Similarity=0.413  Sum_probs=23.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+|+|-||=|+||||||+.+.+++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            46899999999999999999998866

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

Probab=94.73  E-value=0.03  Score=53.79  Aligned_cols=39  Identities=31%  Similarity=0.423  Sum_probs=33.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVR  245 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~  245 (471)
                      -..++|+|..|+|||||++.+++.++.+|+..|++..+.
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iG  107 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVG  107 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEec
Confidence            457899999999999999999999988888888776443

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

>PRK14530 adenylate kinase; Provisional

Probab=94.73  E-value=0.023  Score=52.84  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=20.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|.|+|++|+||||+|+.++..+
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999998765

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=94.67  E-value=0.13  Score=55.99  Aligned_cols=108  Identities=25%  Similarity=0.239  Sum_probs=60.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccccce-------Eeee----hhhhhhhc--------CcccccCCH---------
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN-------CFLG----NVREESEK--------GVLDDVNKI---------  259 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~-------~~~~----~~~~~~~~--------~VLDdv~~~---------  259 (471)
                      +-|.|+|.+|+|||++|+.+++.....|-..       .|+.    .++.....        -++|+++..         
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~  265 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLG  265 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhhcccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCC
Confidence            4589999999999999999988754433110       0000    00110000        167887532         


Q ss_pred             -------hhHHHHhcCCCCCC--CCcEEEEEeCChhhhhhh-----CcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          260 -------GQLQYLTCGLDRFG--PGSRIIITTRDKWILDKF-----GVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       260 -------~~~~~l~~~~~~~~--~gs~IiiTTR~~~v~~~~-----~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                             ..+..++..++.+.  .+.-+|.||.....+...     ..  +..+.++..+.++-.+++..+.
T Consensus       266 g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRf--dr~i~v~~Pd~~~R~~Il~~~~  335 (644)
T PRK10733        266 GGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRF--DRQVVVGLPDVRGREQILKVHM  335 (644)
T ss_pred             CCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCccc--ceEEEcCCCCHHHHHHHHHHHh
Confidence                   12334443333322  244455577766543321     12  4677888888877777777655

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=94.67  E-value=0.049  Score=52.29  Aligned_cols=38  Identities=18%  Similarity=0.283  Sum_probs=28.3

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ..-.++.|.|.+|+|||+||.+++......=+.++|++
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis   71 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVT   71 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence            44679999999999999999998665433333555655

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

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.66  E-value=0.021  Score=49.15  Aligned_cols=25  Identities=24%  Similarity=0.384  Sum_probs=21.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .|+|+|+.|+|||||++.+...+..
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~~   25 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFDP   25 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCCc
Confidence            3789999999999999999876543

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

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

Probab=94.66  E-value=0.024  Score=54.80  Aligned_cols=25  Identities=36%  Similarity=0.511  Sum_probs=23.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -|+|.++|++|.|||+|++++++.+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkL  201 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKL  201 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhh
Confidence            5899999999999999999999974

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=94.65  E-value=0.072  Score=46.20  Aligned_cols=25  Identities=32%  Similarity=0.413  Sum_probs=22.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||++.+....
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCC
Confidence            4689999999999999999997754

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=94.65  E-value=0.025  Score=50.23  Aligned_cols=28  Identities=25%  Similarity=0.389  Sum_probs=23.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      +-|.++||.|.||||+.+.+++.+.-.|
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F   30 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPF   30 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCc
Confidence            3578999999999999999998765554

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=94.64  E-value=0.028  Score=50.40  Aligned_cols=25  Identities=24%  Similarity=0.307  Sum_probs=22.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...|.|+|+.|.||||||+.+....
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            3469999999999999999999874

>PRK14738 gmk guanylate kinase; Provisional

Probab=94.63  E-value=0.03  Score=51.84  Aligned_cols=31  Identities=23%  Similarity=0.184  Sum_probs=24.9

Q ss_pred             hhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          200 LCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       200 L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +..+....+.+.|+|.+|+|||||++.+...
T Consensus         6 ~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          6 LFNKPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             ccCCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            3344456789999999999999999998653

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=94.63  E-value=0.029  Score=51.46  Aligned_cols=25  Identities=36%  Similarity=0.371  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|.|.|.+|+||||+|+.++.+.
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998864

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=94.60  E-value=0.053  Score=52.48  Aligned_cols=36  Identities=17%  Similarity=0.178  Sum_probs=29.5

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhccccceEe
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF  240 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~  240 (471)
                      .+..++.|.|.+|.|||||...+.+.+.......+.
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~~~~VI  137 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMRLKDSVPCAVI  137 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHhccCCCEEEE
Confidence            458899999999999999999999987666544443

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

Probab=94.59  E-value=0.026  Score=50.92  Aligned_cols=23  Identities=35%  Similarity=0.437  Sum_probs=20.8

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|.|.|.+|.||||+|+.+.+.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999883

>TIGR03263 guanyl_kin guanylate kinase

Probab=94.56  E-value=0.024  Score=51.03  Aligned_cols=24  Identities=33%  Similarity=0.426  Sum_probs=21.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ++++|+|+.|+||||||+.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            478999999999999999998753

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.56  E-value=0.04  Score=55.92  Aligned_cols=50  Identities=18%  Similarity=0.203  Sum_probs=34.9

Q ss_pred             CCccccchhHHHHHHhhhc------------CCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          184 DGLVGLNSRIEKIKSLLCI------------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~------------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..++|.++.++.+.-.+..            +....+-|.++|++|+|||+||+.++..+..
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~   73 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANA   73 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3467777666666443331            1112467899999999999999999987644

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

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

Probab=94.55  E-value=0.047  Score=58.33  Aligned_cols=50  Identities=16%  Similarity=0.189  Sum_probs=38.6

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +..+-|.+..+.|.++.........+|.|+|++|+||||+|+.++..+..
T Consensus       369 P~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        369 PEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             ChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            34566777777777766544455668999999999999999999988654

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=94.53  E-value=0.067  Score=50.21  Aligned_cols=48  Identities=23%  Similarity=0.182  Sum_probs=33.7

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .|.++|..+-..-..+.|.|.+|+||||||..+.......-+..+|+.
T Consensus         8 ~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is   55 (229)
T TIGR03881         8 GLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT   55 (229)
T ss_pred             hHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence            444555434345679999999999999999987765433445566765

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

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

Probab=94.52  E-value=0.11  Score=50.09  Aligned_cols=27  Identities=26%  Similarity=0.281  Sum_probs=22.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      -..|.|.|..|.||||++..+.+.+..
T Consensus        80 ~GlilisG~tGSGKTT~l~all~~i~~  106 (264)
T cd01129          80 HGIILVTGPTGSGKTTTLYSALSELNT  106 (264)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhhhCC
Confidence            358999999999999999988776543

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PLN02318 phosphoribulokinase/uridine kinase

Probab=94.52  E-value=0.04  Score=58.20  Aligned_cols=33  Identities=30%  Similarity=0.556  Sum_probs=27.0

Q ss_pred             hhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          199 LLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       199 ~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +|....++..+|+|.|.+|.||||||+.+...+
T Consensus        57 lL~~~~~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         57 LLAQKNDGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             HHHhcCCCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            444345568899999999999999999998764

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=94.51  E-value=0.066  Score=50.64  Aligned_cols=49  Identities=20%  Similarity=0.232  Sum_probs=35.0

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ..|.++|..+=+.-.++.|.|.+|+|||+||.++.......=+..+|+.
T Consensus         8 ~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs   56 (237)
T TIGR03877         8 PGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA   56 (237)
T ss_pred             HhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            3445556544456789999999999999999987665334445566665

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

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=94.51  E-value=0.053  Score=51.24  Aligned_cols=40  Identities=25%  Similarity=0.351  Sum_probs=28.1

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .++.+.+.....+..+|||.|.||.|||||...+...+..
T Consensus        16 ~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~   55 (266)
T PF03308_consen   16 RELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRE   55 (266)
T ss_dssp             HHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhh
Confidence            3444444444446789999999999999999988876543

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

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

Probab=94.50  E-value=0.045  Score=55.58  Aligned_cols=50  Identities=18%  Similarity=0.186  Sum_probs=36.6

Q ss_pred             CCccccchhHHHHHHhhhc---------C---CCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          184 DGLVGLNSRIEKIKSLLCI---------G---RPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~---------~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..++|.+..++.+...+..         +   ......|.++|++|+|||+||+.+...+..
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~   76 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4478888888777665532         0   011467899999999999999999887543

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=94.50  E-value=0.023  Score=50.27  Aligned_cols=22  Identities=32%  Similarity=0.599  Sum_probs=19.8

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |.|+|++|+||||+|+.+....
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998875

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=94.47  E-value=0.37  Score=47.61  Aligned_cols=121  Identities=12%  Similarity=0.109  Sum_probs=75.4

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc--------------------ccceEeee-----------
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE--------------------FEGNCFLG-----------  242 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------f~~~~~~~-----------  242 (471)
                      +.+.+.+..+ .-...+.+.|..|+||+++|..++..+-..                    .....++.           
T Consensus        13 ~~l~~~~~~~-rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~vd   91 (319)
T PRK06090         13 QNWKAGLDAG-RIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITVE   91 (319)
T ss_pred             HHHHHHHHcC-CcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCHH
Confidence            4444444322 225578999999999999999998753211                    11222232           


Q ss_pred             hhhhhhhc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCceEEeCCCCHH
Q 041795          243 NVREESEK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTNVYEVNGLRYH  307 (471)
Q Consensus       243 ~~~~~~~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~~~~l~~L~~~  307 (471)
                      .+++....       +     |+|+++  +....+.|+..+.....++.+|++|.+. .++..+.. ....+.+++++.+
T Consensus        92 qiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~S-RCq~~~~~~~~~~  170 (319)
T PRK06090         92 QIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVS-RCQQWVVTPPSTA  170 (319)
T ss_pred             HHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHh-cceeEeCCCCCHH
Confidence            11211110       0     889987  4556777877776666778887777665 34433321 1567999999999


Q ss_pred             HHHHHHHhc
Q 041795          308 EALELFCNC  316 (471)
Q Consensus       308 ea~~Lf~~~  316 (471)
                      ++.+.+...
T Consensus       171 ~~~~~L~~~  179 (319)
T PRK06090        171 QAMQWLKGQ  179 (319)
T ss_pred             HHHHHHHHc
Confidence            999888754

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=94.46  E-value=0.25  Score=49.25  Aligned_cols=122  Identities=18%  Similarity=0.149  Sum_probs=75.7

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEeee---------
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCFLG---------  242 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~~~---------  242 (471)
                      -+++.+.+..+ .-...+.+.|..|+||+++|..++..+...                     .+...++.         
T Consensus        11 ~~~l~~~~~~~-rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~   89 (334)
T PRK07993         11 YEQLVGSYQAG-RGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLG   89 (334)
T ss_pred             HHHHHHHHHcC-CcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCC
Confidence            34455555422 225578899999999999999988864321                     11122221         


Q ss_pred             --hhhhhhhc-------C-----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCCceEEeCCCC
Q 041795          243 --NVREESEK-------G-----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDTNVYEVNGLR  305 (471)
Q Consensus       243 --~~~~~~~~-------~-----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~~~~~l~~L~  305 (471)
                        .+++....       +     |+|+++  +....+.|+..+..-..++.+|++|.+.. ++..+.. ....+.+++++
T Consensus        90 idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrS-RCq~~~~~~~~  168 (334)
T PRK07993         90 VDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRS-RCRLHYLAPPP  168 (334)
T ss_pred             HHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHh-ccccccCCCCC
Confidence              11111111       1     889887  44566777777766667888888777643 4433221 14568999999


Q ss_pred             HHHHHHHHHhc
Q 041795          306 YHEALELFCNC  316 (471)
Q Consensus       306 ~~ea~~Lf~~~  316 (471)
                      .+++.+.+...
T Consensus       169 ~~~~~~~L~~~  179 (334)
T PRK07993        169 EQYALTWLSRE  179 (334)
T ss_pred             HHHHHHHHHHc
Confidence            99998877654

>PRK13975 thymidylate kinase; Provisional

Probab=94.44  E-value=0.032  Score=50.89  Aligned_cols=26  Identities=27%  Similarity=0.400  Sum_probs=23.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..|.|.|+.|+||||+|+.+.+.+..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            47999999999999999999988754

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=94.44  E-value=0.041  Score=50.85  Aligned_cols=50  Identities=22%  Similarity=0.256  Sum_probs=39.5

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .-.++||-++.++++.-.-.  ..+.+-+.|.||+|+||||-+..+++.+..
T Consensus        25 ~l~dIVGNe~tv~rl~via~--~gnmP~liisGpPG~GKTTsi~~LAr~LLG   74 (333)
T KOG0991|consen   25 VLQDIVGNEDTVERLSVIAK--EGNMPNLIISGPPGTGKTTSILCLARELLG   74 (333)
T ss_pred             HHHHhhCCHHHHHHHHHHHH--cCCCCceEeeCCCCCchhhHHHHHHHHHhC
Confidence            34568999998888876554  335778889999999999999988887443

>PRK04182 cytidylate kinase; Provisional

Probab=94.43  E-value=0.031  Score=50.07  Aligned_cols=24  Identities=38%  Similarity=0.449  Sum_probs=21.6

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +|.|.|+.|+||||+|+.+++.+.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg   25 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999988753

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

Probab=94.42  E-value=0.1  Score=53.90  Aligned_cols=47  Identities=28%  Similarity=0.292  Sum_probs=33.7

Q ss_pred             CCccccchhHHHHH---Hhhhc-------CCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          184 DGLVGLNSRIEKIK---SLLCI-------GRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       184 ~~~vGr~~~~~~l~---~~L~~-------~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +++-|.|+...+|+   +.|..       ++.=++=|.++|++|.|||-||++++-.
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGE  360 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGE  360 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcc
Confidence            45678876655554   45542       2222678899999999999999999764

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

Probab=94.40  E-value=0.031  Score=49.93  Aligned_cols=24  Identities=38%  Similarity=0.415  Sum_probs=20.7

Q ss_pred             EEEeccCcchhhhHHHHHHHhhhc
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      |.|.|.+|+|||||.+.+++.++.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhc
Confidence            679999999999999999988754

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PRK07952 DNA replication protein DnaC; Validated

Probab=94.38  E-value=0.069  Score=50.66  Aligned_cols=36  Identities=28%  Similarity=0.229  Sum_probs=27.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ...+.++|.+|+|||+||.++++.+...-..++++.
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it  134 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT  134 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            457899999999999999999998655433444443

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=94.36  E-value=0.038  Score=50.02  Aligned_cols=32  Identities=28%  Similarity=0.360  Sum_probs=27.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccce
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN  238 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~  238 (471)
                      .+++.|+|+.|+|||||++.+.......|...
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~   33 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRV   33 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccccccc
Confidence            47899999999999999999999888877533

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

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

Probab=94.36  E-value=0.029  Score=48.98  Aligned_cols=24  Identities=29%  Similarity=0.631  Sum_probs=21.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +|.|+|.+|+||||||+.+...+.
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999988754

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>TIGR00959 ffh signal recognition particle protein

Probab=94.36  E-value=0.26  Score=50.71  Aligned_cols=26  Identities=27%  Similarity=0.439  Sum_probs=23.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +.++.++|.+|+||||+|..++..+.
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            67999999999999999998887754

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK00300 gmk guanylate kinase; Provisional

Probab=94.35  E-value=0.03  Score=51.52  Aligned_cols=25  Identities=28%  Similarity=0.340  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|+|+|.+|+||||||+.++...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998864

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=94.35  E-value=0.038  Score=52.72  Aligned_cols=25  Identities=20%  Similarity=0.430  Sum_probs=21.7

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .|.++|++|+||||+|+.+...+..
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~   25 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSE   25 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3789999999999999999887643

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>TIGR02012 tigrfam_recA protein RecA

Probab=94.34  E-value=0.073  Score=52.50  Aligned_cols=49  Identities=31%  Similarity=0.308  Sum_probs=35.4

Q ss_pred             HHHHhhh-cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeeh
Q 041795          195 KIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGN  243 (471)
Q Consensus       195 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~  243 (471)
                      .|..+|. .+-+.-+++-|+|.+|+||||||.+++......=..++|++.
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~   91 (321)
T TIGR02012        42 SLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDA   91 (321)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcc
Confidence            4445554 344557899999999999999999987776554445667753

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

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

Probab=94.30  E-value=0.03  Score=49.45  Aligned_cols=20  Identities=35%  Similarity=0.539  Sum_probs=18.5

Q ss_pred             EEEEeccCcchhhhHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~  228 (471)
                      .|+|.|.||+||||+|+.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999886

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=94.29  E-value=0.034  Score=49.57  Aligned_cols=24  Identities=29%  Similarity=0.279  Sum_probs=21.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .|.|+|++|+||||+|+.+.+.+.
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~lg   27 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQALG   27 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            578899999999999999998753

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

Probab=94.28  E-value=0.061  Score=53.59  Aligned_cols=48  Identities=33%  Similarity=0.257  Sum_probs=37.8

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      ..++|.++.+..+...+..+    +-+.+.|.+|+|||+||+.++..+...|
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~----~~vll~G~PG~gKT~la~~lA~~l~~~~   71 (329)
T COG0714          24 KVVVGDEEVIELALLALLAG----GHVLLEGPPGVGKTLLARALARALGLPF   71 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcC----CCEEEECCCCccHHHHHHHHHHHhCCCe
Confidence            34889888888777666544    3688999999999999999998766444

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=94.28  E-value=0.032  Score=49.10  Aligned_cols=26  Identities=27%  Similarity=0.387  Sum_probs=22.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +++|+|..|+|||||+..+...+..+
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~   26 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR   26 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            57899999999999999999987654

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=94.26  E-value=0.035  Score=48.41  Aligned_cols=24  Identities=33%  Similarity=0.528  Sum_probs=21.7

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +|.|-|.+|+||||+|+.+++.+.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~g   25 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLG   25 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhC
Confidence            689999999999999999998754

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=94.25  E-value=0.044  Score=53.31  Aligned_cols=28  Identities=29%  Similarity=0.219  Sum_probs=23.5

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +...+|||.|..|+||||+|+.+...+.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4578999999999999999988765544

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

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=94.25  E-value=0.051  Score=52.50  Aligned_cols=34  Identities=24%  Similarity=0.260  Sum_probs=28.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ++|+|+|.+|+|||||+..+...++... .++-+.
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IK   35 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVK   35 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEE
Confidence            5799999999999999999999887765 344444

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=94.24  E-value=0.03  Score=50.84  Aligned_cols=24  Identities=25%  Similarity=0.438  Sum_probs=21.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+.|+|+.|+|||||++.++...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            378999999999999999997654

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

Probab=94.21  E-value=0.38  Score=50.79  Aligned_cols=133  Identities=26%  Similarity=0.243  Sum_probs=76.2

Q ss_pred             CCccccchhHHHHHHhhh---c--------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceE-------eeehhh
Q 041795          184 DGLVGLNSRIEKIKSLLC---I--------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC-------FLGNVR  245 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~---~--------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~-------~~~~~~  245 (471)
                      ....|.+...+.+.+...   .        +-...+.+.++|++|.|||.||+++++.....|-..-       |+..+.
T Consensus       242 ~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk~vGese  321 (494)
T COG0464         242 DDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESE  321 (494)
T ss_pred             ehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhccccchHH
Confidence            345566666665555432   1        1234668999999999999999999996555443222       222111


Q ss_pred             hhh----hc--------CcccccCCH-------------hhHHHHhcCCCCCCC--CcEEEEEeCChhhhhhh-----Cc
Q 041795          246 EES----EK--------GVLDDVNKI-------------GQLQYLTCGLDRFGP--GSRIIITTRDKWILDKF-----GV  293 (471)
Q Consensus       246 ~~~----~~--------~VLDdv~~~-------------~~~~~l~~~~~~~~~--gs~IiiTTR~~~v~~~~-----~~  293 (471)
                      ...    ..        -.+|+++..             .....++..++....  +..+|-||-........     ..
T Consensus       322 k~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRf  401 (494)
T COG0464         322 KNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRF  401 (494)
T ss_pred             HHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCcc
Confidence            111    00        056776421             233444444432222  33445555544433311     22


Q ss_pred             CCCceEEeCCCCHHHHHHHHHhccc
Q 041795          294 HDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       294 ~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                        +..+.++.-+.++....|..+.-
T Consensus       402 --d~~i~v~~pd~~~r~~i~~~~~~  424 (494)
T COG0464         402 --DRLIYVPLPDLEERLEIFKIHLR  424 (494)
T ss_pred             --ceEeecCCCCHHHHHHHHHHHhc
Confidence              56789999999999999998774

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=94.19  E-value=0.075  Score=53.71  Aligned_cols=50  Identities=24%  Similarity=0.192  Sum_probs=36.8

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      +.++.+.|..+-..-.++.|.|.+|+|||||+.+++......-..++|+.
T Consensus        68 i~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs  117 (372)
T cd01121          68 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS  117 (372)
T ss_pred             CHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            34555666544445679999999999999999999887665545566665

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

>PRK15453 phosphoribulokinase; Provisional

Probab=94.18  E-value=0.063  Score=51.66  Aligned_cols=27  Identities=26%  Similarity=0.420  Sum_probs=23.7

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+|+|.|.+|+||||+|+.+.+.+.
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if~   30 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIFR   30 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            467999999999999999999987654

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=94.18  E-value=0.071  Score=52.72  Aligned_cols=52  Identities=23%  Similarity=0.280  Sum_probs=43.3

Q ss_pred             CCCccccchhHHHHHHhhhcC----CCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          183 FDGLVGLNSRIEKIKSLLCIG----RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...|+|.++.++++.+.|...    +..-+++.+.|+.|.||||||..+-+-+...
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y  115 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEY  115 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheE
Confidence            347999999999999988732    2447899999999999999999988766554

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

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

Probab=94.16  E-value=0.081  Score=52.23  Aligned_cols=49  Identities=31%  Similarity=0.286  Sum_probs=36.1

Q ss_pred             HHHHhhh-cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeeh
Q 041795          195 KIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGN  243 (471)
Q Consensus       195 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~  243 (471)
                      .|..+|. .+-+.-+++-|+|.+|+||||||.+++......-...+|++.
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~   91 (325)
T cd00983          42 SLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDA   91 (325)
T ss_pred             HHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECc
Confidence            4445554 334557799999999999999999988776555556777764

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=94.14  E-value=0.065  Score=53.15  Aligned_cols=39  Identities=23%  Similarity=0.258  Sum_probs=29.0

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ++.+.+........+|+|.|.+|+|||||+..+...+..
T Consensus        44 ~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~   82 (332)
T PRK09435         44 ELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLIE   82 (332)
T ss_pred             HHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            344444332345789999999999999999998877654

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

Probab=94.13  E-value=0.062  Score=56.25  Aligned_cols=52  Identities=31%  Similarity=0.366  Sum_probs=41.5

Q ss_pred             CCCCccccchhHHHHHHhhhc----------CCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...++-|.+..+.+|.+++..          +-...+=|.++|++|+|||.||+++++...-
T Consensus       188 ~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~v  249 (802)
T KOG0733|consen  188 SFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGV  249 (802)
T ss_pred             chhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCC
Confidence            446788999999999988752          1123677899999999999999999987543

>PRK14527 adenylate kinase; Provisional

Probab=94.12  E-value=0.043  Score=50.02  Aligned_cols=26  Identities=27%  Similarity=0.309  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|.|+|.+|.||||+|+.+++..
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998764

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

Probab=94.11  E-value=0.043  Score=51.18  Aligned_cols=27  Identities=37%  Similarity=0.433  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      -.++||+|.+|+|||||++.+.--.+.
T Consensus        33 Ge~lgivGeSGsGKSTL~r~l~Gl~~p   59 (252)
T COG1124          33 GETLGIVGESGSGKSTLARLLAGLEKP   59 (252)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhcccCC
Confidence            458999999999999999998754433

>PLN02200 adenylate kinase family protein

Probab=94.10  E-value=0.046  Score=51.62  Aligned_cols=26  Identities=27%  Similarity=0.225  Sum_probs=22.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|.|+|++|+||||+|+.++...
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998754

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=94.08  E-value=0.087  Score=49.67  Aligned_cols=50  Identities=24%  Similarity=0.190  Sum_probs=34.6

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeeh
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGN  243 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~  243 (471)
                      ..|.++|..+-+.-.++.|.|.+|+|||+||.++......+=..++|+..
T Consensus        12 ~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~   61 (234)
T PRK06067         12 EELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITT   61 (234)
T ss_pred             HHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEc
Confidence            34455555444567899999999999999999986553333345566653

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.07  E-value=0.45  Score=48.35  Aligned_cols=136  Identities=20%  Similarity=0.125  Sum_probs=74.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc-ccceEe-eeh---hhhhhhc------CcccccCCH----------------
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNCF-LGN---VREESEK------GVLDDVNKI----------------  259 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~-~~~---~~~~~~~------~VLDdv~~~----------------  259 (471)
                      -|=-.++|++|.|||++..++++.+.-. |+...= +..   .+.....      -|+.|++-.                
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n~dLr~LL~~t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~  314 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLDSDLRHLLLATPNKSILLIEDIDCSFDLRERRKKKKENFEG  314 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccCcHHHHHHHHhCCCCcEEEEeecccccccccccccccccccC
Confidence            3556799999999999999999865432 221110 110   1111111      167777521                


Q ss_pred             ----hhHHHHhcCCCCCCC---CcEEEE-EeCChhh-----hhhhCcCCCceEEeCCCCHHHHHHHHHhccccCCCCCch
Q 041795          260 ----GQLQYLTCGLDRFGP---GSRIII-TTRDKWI-----LDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSG  326 (471)
Q Consensus       260 ----~~~~~l~~~~~~~~~---gs~Iii-TTR~~~v-----~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~  326 (471)
                          -.+.-|+..++....   +=|||| ||-..+-     +..-.+  +..+.++-=+.+.-..|+.+..... .+..-
T Consensus       315 ~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRm--DmhI~mgyCtf~~fK~La~nYL~~~-~~h~L  391 (457)
T KOG0743|consen  315 DLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRM--DMHIYMGYCTFEAFKTLASNYLGIE-EDHRL  391 (457)
T ss_pred             CcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcc--eeEEEcCCCCHHHHHHHHHHhcCCC-CCcch
Confidence                012234444432211   235555 6654432     222223  4567788888888888888766332 23444


Q ss_pred             HHHHHHHH-------HHHHhhhhcCC
Q 041795          327 FLASSKRV-------LKVLGSFFHRK  345 (471)
Q Consensus       327 ~~~l~~~i-------l~~lg~~L~~~  345 (471)
                      +.++.+.+       +.+.+.++..+
T Consensus       392 ~~eie~l~~~~~~tPA~V~e~lm~~~  417 (457)
T KOG0743|consen  392 FDEIERLIEETEVTPAQVAEELMKNK  417 (457)
T ss_pred             hHHHHHHhhcCccCHHHHHHHHhhcc
Confidence            55555544       77777888776

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

Probab=94.01  E-value=0.067  Score=51.42  Aligned_cols=39  Identities=26%  Similarity=0.354  Sum_probs=29.9

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+|...+.....+..+|||.|.||+|||||...+-..+.
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~   76 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELR   76 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHH
Confidence            345555555556678999999999999999988877653

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=94.00  E-value=0.041  Score=48.66  Aligned_cols=21  Identities=43%  Similarity=0.355  Sum_probs=17.7

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |+|.|..|+|||||++.+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999876

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

Probab=94.00  E-value=0.041  Score=47.29  Aligned_cols=23  Identities=35%  Similarity=0.381  Sum_probs=20.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +-|.|.|-+|+||||||..++..
T Consensus         8 PNILvtGTPG~GKstl~~~lae~   30 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEK   30 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHH
Confidence            45889999999999999999864

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

Probab=93.98  E-value=0.091  Score=44.16  Aligned_cols=40  Identities=23%  Similarity=0.281  Sum_probs=29.3

Q ss_pred             hHHHHHHhhhc-CCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          192 RIEKIKSLLCI-GRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       192 ~~~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .++.|...+.. .++.+-|++..|.+|+|||.+++.+++.+
T Consensus        37 v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   37 VVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            33444444443 34457899999999999999999998873

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

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=93.98  E-value=0.061  Score=49.74  Aligned_cols=29  Identities=21%  Similarity=0.381  Sum_probs=25.3

Q ss_pred             CCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++++|+++|..|+|||||..++.+...
T Consensus        19 ~~~~~~i~~~G~~gsGKTTli~~l~~~~~   47 (207)
T TIGR00073        19 KHGLVVLNFMSSPGSGKTTLIEKLIDNLK   47 (207)
T ss_pred             hcCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34699999999999999999999887654

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>TIGR00602 rad24 checkpoint protein rad24

Probab=93.97  E-value=0.052  Score=58.44  Aligned_cols=50  Identities=24%  Similarity=0.238  Sum_probs=40.7

Q ss_pred             CCCCccccchhHHHHHHhhhcCC---CCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGR---PDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~---~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+++|-+..++++..+|....   ...+++.|+|.+|+||||+++.++..+
T Consensus        82 ~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        82 TQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            44678999999999999887432   234679999999999999999998764

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

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=93.95  E-value=0.49  Score=40.66  Aligned_cols=47  Identities=11%  Similarity=0.102  Sum_probs=29.3

Q ss_pred             HHHHHHhhhcceEEEEEccCcccchhhHHHHHHHHHhhhcCCCeEEeEE
Q 041795           57 PALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVF  105 (471)
Q Consensus        57 ~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~~~~~~~~~viPif  105 (471)
                      .++.++|++++.+|+|++.....+.+. .++...+.... .+..++.|+
T Consensus         3 ~~~~~~i~~aD~vl~ViD~~~p~~~~~-~~l~~~l~~~~-~~k~~iivl   49 (141)
T cd01857           3 RQLWRVVERSDIVVQIVDARNPLLFRP-PDLERYVKEVD-PRKKNILLL   49 (141)
T ss_pred             HHHHHHHhhCCEEEEEEEccCCcccCC-HHHHHHHHhcc-CCCcEEEEE
Confidence            467889999999999999765544442 24555544321 234455554

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=93.95  E-value=0.045  Score=48.59  Aligned_cols=23  Identities=39%  Similarity=0.531  Sum_probs=21.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +|+|.|..|+||||+|+.+.+..
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            68999999999999999998764

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=93.94  E-value=0.044  Score=45.34  Aligned_cols=21  Identities=29%  Similarity=0.417  Sum_probs=19.3

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.|+|..|+|||||.+.+...
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~   22 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGG   22 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            789999999999999998875

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

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

Probab=93.92  E-value=0.042  Score=49.96  Aligned_cols=22  Identities=27%  Similarity=0.314  Sum_probs=20.0

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |.|.|++|+||||+|+.++...
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998763

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PLN02348 phosphoribulokinase

Probab=93.91  E-value=0.075  Score=53.54  Aligned_cols=30  Identities=17%  Similarity=0.264  Sum_probs=26.3

Q ss_pred             CCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .+...+|+|.|.+|+||||+|+.+.+.+..
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~~Lg~   75 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTSVFGG   75 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            356789999999999999999999988754

>PRK14532 adenylate kinase; Provisional

Probab=93.89  E-value=0.042  Score=49.84  Aligned_cols=22  Identities=23%  Similarity=0.249  Sum_probs=19.8

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |.+.|++|+||||+|+.++...
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7789999999999999998754

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=93.83  E-value=0.14  Score=49.99  Aligned_cols=47  Identities=26%  Similarity=0.270  Sum_probs=37.1

Q ss_pred             CCccccchhHHHHHHhhhcC--CCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          184 DGLVGLNSRIEKIKSLLCIG--RPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..++|-.++-..+.+++...  .++...+.|+|+.|.|||+|......+
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~   72 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSD   72 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhh
Confidence            45899999999999888631  134567889999999999998777665

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

Probab=93.82  E-value=0.061  Score=48.50  Aligned_cols=34  Identities=26%  Similarity=0.158  Sum_probs=25.2

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ++.|.|.+|+|||+||.++.......=..++|+.
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            3679999999999999998776443334455654

A related protein is found in archaea.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=93.81  E-value=0.047  Score=42.95  Aligned_cols=25  Identities=40%  Similarity=0.602  Sum_probs=21.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ++.+.|.+|+||||++..+...++.
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l~~   25 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAALAK   25 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4678999999999999999988765

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=93.80  E-value=0.07  Score=52.65  Aligned_cols=27  Identities=26%  Similarity=0.454  Sum_probs=23.6

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +....|+++|+.|+||||+++.++..+
T Consensus       131 ~~~~~I~l~G~~GsGKStvg~~La~~L  157 (309)
T PRK08154        131 ARRRRIALIGLRGAGKSTLGRMLAARL  157 (309)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            345689999999999999999998765

>PLN02796 D-glycerate 3-kinase

Probab=93.79  E-value=0.22  Score=49.40  Aligned_cols=28  Identities=36%  Similarity=0.368  Sum_probs=24.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..-+|+|.|..|+|||||++.+...+..
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL~~  126 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLFNA  126 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHhcc
Confidence            4678999999999999999999887654

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

Probab=93.79  E-value=0.072  Score=49.81  Aligned_cols=51  Identities=35%  Similarity=0.427  Sum_probs=38.8

Q ss_pred             CccccchhHHHHHHhhh-----------cCCCCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          185 GLVGLNSRIEKIKSLLC-----------IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~-----------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      ++-|.+-...++.+...           -+-+..+-|.++|++|.|||.||+++++.....|
T Consensus       156 diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~f  217 (408)
T KOG0727|consen  156 DIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAF  217 (408)
T ss_pred             ccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchhe
Confidence            45677777777776543           1235578899999999999999999999765554

>PRK09354 recA recombinase A; Provisional

Probab=93.79  E-value=0.11  Score=51.79  Aligned_cols=50  Identities=32%  Similarity=0.290  Sum_probs=36.7

Q ss_pred             HHHHhhh-cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehh
Q 041795          195 KIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNV  244 (471)
Q Consensus       195 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~  244 (471)
                      .|..+|. .+-+.-+++-|+|.+|+||||||.+++......=...+|++.-
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E   97 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAE   97 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCc
Confidence            4455565 3445578999999999999999999887765555566777643

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=93.77  E-value=0.057  Score=47.36  Aligned_cols=25  Identities=32%  Similarity=0.426  Sum_probs=21.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..++.|+|.+|+||||+.+.+....
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5799999999999999988876655

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=93.77  E-value=0.05  Score=47.96  Aligned_cols=28  Identities=32%  Similarity=0.523  Sum_probs=24.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .++++|+|..|+|||||...+...++.+
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L~~~   29 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKLKAR   29 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHHHhC
Confidence            3689999999999999999998886654

>PHA02244 ATPase-like protein

Probab=93.76  E-value=0.058  Score=53.89  Aligned_cols=45  Identities=20%  Similarity=0.180  Sum_probs=30.3

Q ss_pred             CCccccchhHHH----HHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEK----IKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~----l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|.......    +..++..    ...|.|+|.+|+|||+||++++....
T Consensus        96 ~~~ig~sp~~~~~~~ri~r~l~~----~~PVLL~GppGtGKTtLA~aLA~~lg  144 (383)
T PHA02244         96 TTKIASNPTFHYETADIAKIVNA----NIPVFLKGGAGSGKNHIAEQIAEALD  144 (383)
T ss_pred             CcccCCCHHHHHHHHHHHHHHhc----CCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            346665555543    3333332    23577899999999999999998754

>PRK14531 adenylate kinase; Provisional

Probab=93.75  E-value=0.053  Score=49.08  Aligned_cols=23  Identities=26%  Similarity=0.224  Sum_probs=20.8

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|.|+|++|+||||+|+.+...+
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998764

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

Probab=93.68  E-value=0.052  Score=54.06  Aligned_cols=30  Identities=33%  Similarity=0.495  Sum_probs=25.8

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..++.++|+|++|+|||.+|+++++.....
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~~  175 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGIE  175 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCCC
Confidence            457899999999999999999999975443

>TIGR00750 lao LAO/AO transport system ATPase

Probab=93.67  E-value=0.092  Score=51.60  Aligned_cols=31  Identities=32%  Similarity=0.312  Sum_probs=25.5

Q ss_pred             CCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          203 GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       203 ~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ......+|+|.|.+|+|||||+..+......
T Consensus        30 ~~~~~~~i~i~G~~G~GKttl~~~l~~~~~~   60 (300)
T TIGR00750        30 YTGNAHRVGITGTPGAGKSTLLEALGMELRR   60 (300)
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3345789999999999999999998876443

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

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=93.65  E-value=0.1  Score=55.56  Aligned_cols=45  Identities=33%  Similarity=0.543  Sum_probs=36.7

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ++++|.+..++.+...+..  ....-+.|+|.+|+|||++|+.+++.
T Consensus        65 ~~iiGqs~~i~~l~~al~~--~~~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCG--PNPQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhC--CCCceEEEECCCCCCHHHHHHHHHHH
Confidence            4689999999999887653  23456789999999999999999764

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

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=93.63  E-value=0.072  Score=50.17  Aligned_cols=37  Identities=19%  Similarity=0.181  Sum_probs=26.2

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhh-hccccceEeee
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLI-YKEFEGNCFLG  242 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~-~~~f~~~~~~~  242 (471)
                      +.-.++.|.|.+|+||||||.+++... ... ...+++.
T Consensus        22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g-~~~~yi~   59 (230)
T PRK08533         22 PAGSLILIEGDESTGKSILSQRLAYGFLQNG-YSVSYVS   59 (230)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHhCC-CcEEEEe
Confidence            445699999999999999987766554 333 3345544

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=93.61  E-value=0.054  Score=48.77  Aligned_cols=25  Identities=24%  Similarity=0.392  Sum_probs=22.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+++|+|..|.|||||++.++....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~   28 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFS   28 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4789999999999999999998654

>PTZ00088 adenylate kinase 1; Provisional

Probab=93.60  E-value=0.052  Score=51.03  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=20.6

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|.|.|++|+||||+|+.+++.+
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999999999999998764

>PRK06761 hypothetical protein; Provisional

Probab=93.60  E-value=0.056  Score=52.29  Aligned_cols=34  Identities=26%  Similarity=0.444  Sum_probs=26.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc-cccceEee
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK-EFEGNCFL  241 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~~  241 (471)
                      ++|.|.|++|+||||+++.+++.+.. .++..++.
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~~~~   38 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILSQNGIEVELYL   38 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCcCceEEEEEe
Confidence            57999999999999999999998654 34444443

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=93.58  E-value=0.056  Score=49.65  Aligned_cols=22  Identities=36%  Similarity=0.531  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .+|||+|+.|+||||.|+.+.+
T Consensus         3 ~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           3 LIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             eEEEEecCCCCCHHHHHHHHHH
Confidence            5899999999999999998765

>PRK04328 hypothetical protein; Provisional

Probab=93.56  E-value=0.12  Score=49.29  Aligned_cols=48  Identities=21%  Similarity=0.254  Sum_probs=33.6

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .|.++|..+-+.-.++.|.|.+|.|||+||.++...-...=+...|+.
T Consensus        11 ~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis   58 (249)
T PRK04328         11 GMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA   58 (249)
T ss_pred             hHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            444555444445679999999999999999987665333345566665

>PRK14737 gmk guanylate kinase; Provisional

Probab=93.56  E-value=0.06  Score=48.95  Aligned_cols=25  Identities=24%  Similarity=0.320  Sum_probs=22.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .++|.|+|++|+|||||++.+....
T Consensus         4 ~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          4 PKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhcC
Confidence            5789999999999999999998753

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=93.55  E-value=0.065  Score=53.31  Aligned_cols=47  Identities=28%  Similarity=0.288  Sum_probs=38.6

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..++|....++++.+.+..-......|.|+|..|+||+++|+.+...
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~   52 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYL   52 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            46899999999998887644444457889999999999999999764

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

Probab=93.54  E-value=0.058  Score=44.12  Aligned_cols=22  Identities=41%  Similarity=0.270  Sum_probs=19.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~  228 (471)
                      -..++|.|..|.|||||+..+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4689999999999999999976

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

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=93.53  E-value=0.056  Score=52.95  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=21.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+|.++|.+|+||||+|+.+....
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            578899999999999999988765

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

Probab=93.53  E-value=0.059  Score=50.46  Aligned_cols=48  Identities=33%  Similarity=0.279  Sum_probs=32.0

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc-ccceEeee
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNCFLG  242 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~~~  242 (471)
                      .|.++|..+-+.-.++.|.|.+|+|||+||.++...-... =+.++|+.
T Consensus         7 ~LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs   55 (226)
T PF06745_consen    7 GLDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVS   55 (226)
T ss_dssp             THHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEE
T ss_pred             hHHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEE
Confidence            3445554343456799999999999999999877654333 34455555

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

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=93.51  E-value=0.11  Score=54.84  Aligned_cols=46  Identities=28%  Similarity=0.355  Sum_probs=35.5

Q ss_pred             ccccchhHHHHHHhhhc---CCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          186 LVGLNSRIEKIKSLLCI---GRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       186 ~vGr~~~~~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ++--..-++++..||..   +....+++.+.|++|+||||.++.+++.+
T Consensus        21 LavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el   69 (519)
T PF03215_consen   21 LAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL   69 (519)
T ss_pred             hhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            44445667888888863   23346799999999999999999998864

>TIGR00416 sms DNA repair protein RadA

Probab=93.50  E-value=0.13  Score=53.60  Aligned_cols=50  Identities=20%  Similarity=0.146  Sum_probs=35.6

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      +.+|.++|..+-..-.++.|.|.+|+|||||+.+++......=..++|+.
T Consensus        80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs  129 (454)
T TIGR00416        80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS  129 (454)
T ss_pred             cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            45666666544455679999999999999999998776544323345554

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

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=93.49  E-value=0.07  Score=47.15  Aligned_cols=27  Identities=30%  Similarity=0.591  Sum_probs=23.7

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++++|+|..|+|||||+..+...+...
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l~~~   28 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPALSAR   28 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            589999999999999999999876543

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>PRK13695 putative NTPase; Provisional

Probab=93.49  E-value=0.078  Score=47.49  Aligned_cols=33  Identities=36%  Similarity=0.481  Sum_probs=24.7

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc-cccceEee
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK-EFEGNCFL  241 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~~  241 (471)
                      .++|+|.+|+|||||++.+++.+.. .+...-|+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~~~G~~~~g~~   35 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLKEEGYKVGGFY   35 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            3789999999999999999887653 34433343

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=93.48  E-value=0.068  Score=52.01  Aligned_cols=28  Identities=21%  Similarity=0.234  Sum_probs=23.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..++++|+|.+|+||||++..++.....
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~  220 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVL  220 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3579999999999999999998877543

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

Probab=93.48  E-value=0.094  Score=46.84  Aligned_cols=26  Identities=31%  Similarity=0.457  Sum_probs=22.6

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++.++|++|+||||++..++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            68899999999999999998876544

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

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

Probab=93.47  E-value=0.083  Score=54.15  Aligned_cols=25  Identities=28%  Similarity=0.381  Sum_probs=22.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+.++|.+|+|||+||+.++....
T Consensus       109 ~~iLl~Gp~GtGKT~lAr~lA~~l~  133 (412)
T PRK05342        109 SNILLIGPTGSGKTLLAQTLARILD  133 (412)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhC
Confidence            5689999999999999999987653

>PRK08356 hypothetical protein; Provisional

Probab=93.45  E-value=0.065  Score=49.04  Aligned_cols=21  Identities=43%  Similarity=0.434  Sum_probs=19.3

Q ss_pred             eEEEEeccCcchhhhHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~  228 (471)
                      .+|+|+|++|+||||+|+.+.
T Consensus         6 ~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          6 MIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999993

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

Probab=93.43  E-value=0.085  Score=50.41  Aligned_cols=52  Identities=37%  Similarity=0.445  Sum_probs=40.0

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      .++-|.+..+++|.+....           +-..++=|.++|.+|.|||-||++|+|+-+.-|
T Consensus       185 ~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATF  247 (440)
T KOG0726|consen  185 ADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATF  247 (440)
T ss_pred             cccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhh
Confidence            3567888899988876531           224467788999999999999999999765544

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

Probab=93.42  E-value=0.1  Score=46.08  Aligned_cols=35  Identities=31%  Similarity=0.495  Sum_probs=28.5

Q ss_pred             hhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          191 SRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       191 ~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +.+++|.+.|.    + +++.++|..|+|||||...+...
T Consensus        24 ~g~~~l~~~l~----~-k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   24 EGIEELKELLK----G-KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             TTHHHHHHHHT----T-SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCHHHHHHHhc----C-CEEEEECCCCCCHHHHHHHHHhh
Confidence            45677777775    2 79999999999999999988653

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

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

Probab=93.41  E-value=0.064  Score=48.73  Aligned_cols=25  Identities=28%  Similarity=0.385  Sum_probs=22.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +|+|.|+.|+||||+++.+.+.+..
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~~   26 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLEA   26 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6899999999999999999987643

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>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 []

Probab=93.38  E-value=0.06  Score=51.94  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=20.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +.|.|+|.+|+||||+|+.+...+..
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~   27 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEE   27 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHh
Confidence            47899999999999999999887554

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK01184 hypothetical protein; Provisional

Probab=93.37  E-value=0.061  Score=48.59  Aligned_cols=18  Identities=39%  Similarity=0.831  Sum_probs=16.6

Q ss_pred             eEEEEeccCcchhhhHHH
Q 041795          208 RIVGIWGMGGTGKTTLAG  225 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~  225 (471)
                      .+|+|+|++|+||||+|+
T Consensus         2 ~~i~l~G~~GsGKsT~a~   19 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK   19 (184)
T ss_pred             cEEEEECCCCCCHHHHHH
Confidence            479999999999999987

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=93.31  E-value=0.087  Score=49.66  Aligned_cols=35  Identities=26%  Similarity=0.394  Sum_probs=29.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      -.++|+|..|+|||||...+.......|.....+.
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t   48 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLIT   48 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEe
Confidence            46789999999999999999998888886665554

This is thought to be an ATPase involved in viral DNA packaging [].

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=93.29  E-value=0.066  Score=48.67  Aligned_cols=28  Identities=29%  Similarity=0.434  Sum_probs=23.7

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      +.|.+.|.+|+||||+|++++..+++.-
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i   29 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEI   29 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhh
Confidence            4678999999999999999998766553

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=93.28  E-value=0.055  Score=48.80  Aligned_cols=21  Identities=38%  Similarity=0.569  Sum_probs=19.3

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      +|+|+|+.|+||||+|+.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999876

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

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

Probab=93.25  E-value=0.071  Score=56.76  Aligned_cols=27  Identities=33%  Similarity=0.445  Sum_probs=24.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..-|.|.|..|+|||+||+++++.+.+
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~k  457 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYSK  457 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhcc
Confidence            567899999999999999999998763

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=93.25  E-value=0.12  Score=49.81  Aligned_cols=50  Identities=32%  Similarity=0.232  Sum_probs=35.0

Q ss_pred             CccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          185 GLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .+.-.....+.+.++|...-.....|.|.|..|.||||++..+...+...
T Consensus       105 ~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~  154 (270)
T PF00437_consen  105 DLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE  154 (270)
T ss_dssp             CCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT
T ss_pred             hccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhcccc
Confidence            33333344456666665332345799999999999999999998876655

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>PRK13768 GTPase; Provisional

Probab=93.20  E-value=0.11  Score=49.69  Aligned_cols=26  Identities=38%  Similarity=0.498  Sum_probs=22.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .++.|.|.||+||||++..+......
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~~   28 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLEE   28 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHHh
Confidence            57899999999999999988876544

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

Probab=93.20  E-value=0.07  Score=56.96  Aligned_cols=26  Identities=42%  Similarity=0.490  Sum_probs=23.2

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +.-++..++|++|+||||||.-++++
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkq  349 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQ  349 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHh
Confidence            45789999999999999999999875

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

Probab=93.15  E-value=0.067  Score=54.65  Aligned_cols=26  Identities=35%  Similarity=0.477  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -++.|+|+|..|.|||||++.+++..
T Consensus       218 ~~~~IvI~G~~gsGKTTL~~~La~~~  243 (399)
T PRK08099        218 FVRTVAILGGESSGKSTLVNKLANIF  243 (399)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999988753

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.15  E-value=0.22  Score=50.77  Aligned_cols=25  Identities=28%  Similarity=0.266  Sum_probs=22.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..++.++|.+|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998754

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=93.13  E-value=0.13  Score=50.67  Aligned_cols=24  Identities=46%  Similarity=0.545  Sum_probs=20.7

Q ss_pred             CCCceEEEEeccCcchhhhHHHHH
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAI  227 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v  227 (471)
                      .+++..|.+.|.+|.|||-||-+.
T Consensus       242 d~dI~lV~L~G~AGtGKTlLALaA  265 (436)
T COG1875         242 DDDIDLVSLGGKAGTGKTLLALAA  265 (436)
T ss_pred             CCCCCeEEeeccCCccHhHHHHHH
Confidence            456899999999999999998653

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=93.11  E-value=0.14  Score=45.46  Aligned_cols=35  Identities=20%  Similarity=0.271  Sum_probs=28.0

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhccccceE
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC  239 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~  239 (471)
                      +...+|=+.|++|.||||||.+++..+...--...
T Consensus        21 ~~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y   55 (197)
T COG0529          21 QKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVY   55 (197)
T ss_pred             CCCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEE
Confidence            34678999999999999999999998766543333

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=93.10  E-value=0.08  Score=48.07  Aligned_cols=26  Identities=38%  Similarity=0.437  Sum_probs=22.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      -..++|+|..|.|||||++.+...+.
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i~   50 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            46899999999999999999887654

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>TIGR01351 adk adenylate kinases

Probab=93.09  E-value=0.068  Score=49.53  Aligned_cols=22  Identities=32%  Similarity=0.326  Sum_probs=19.6

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |.|+|++|+||||+|+.+...+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6799999999999999998753

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>PRK12338 hypothetical protein; Provisional

Probab=93.05  E-value=0.079  Score=52.05  Aligned_cols=25  Identities=24%  Similarity=0.321  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|.|.|.+|+||||+|+.++.++
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l   28 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTL   28 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHC
Confidence            4789999999999999999998864

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.03  E-value=0.16  Score=52.35  Aligned_cols=26  Identities=27%  Similarity=0.235  Sum_probs=22.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+++.++|++|+||||++..++....
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~  246 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYA  246 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999998877654

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=93.02  E-value=0.29  Score=47.21  Aligned_cols=28  Identities=21%  Similarity=0.102  Sum_probs=24.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +..-++|+|..|.|||||.+.+...+..
T Consensus       110 ~~~~~~i~g~~g~GKttl~~~l~~~~~~  137 (270)
T TIGR02858       110 RVLNTLIISPPQCGKTTLLRDLARILST  137 (270)
T ss_pred             CeeEEEEEcCCCCCHHHHHHHHhCccCC
Confidence            3578999999999999999999877654

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>PLN02165 adenylate isopentenyltransferase

Probab=93.01  E-value=0.084  Score=52.12  Aligned_cols=27  Identities=26%  Similarity=0.336  Sum_probs=23.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+++|+|+.|+|||+||..++..+.
T Consensus        42 ~g~iivIiGPTGSGKStLA~~LA~~l~   68 (334)
T PLN02165         42 KDKVVVIMGATGSGKSRLSVDLATRFP   68 (334)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHcC
Confidence            355899999999999999999988754

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=93.01  E-value=0.21  Score=50.07  Aligned_cols=34  Identities=24%  Similarity=0.382  Sum_probs=26.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEe
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF  240 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~  240 (471)
                      -..+.|.|..|.||||+.+.+...+.......++
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~  155 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHII  155 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEE
Confidence            3689999999999999999988876544444333

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>PRK11823 DNA repair protein RadA; Provisional

Probab=92.98  E-value=0.17  Score=52.62  Aligned_cols=50  Identities=22%  Similarity=0.138  Sum_probs=35.1

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      +.++.++|..+-..-.++.|.|.+|+|||||+.+++.....+-..++|+.
T Consensus        66 i~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs  115 (446)
T PRK11823         66 IGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS  115 (446)
T ss_pred             cHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            45566666544445679999999999999999999887653323345544

>PRK00279 adk adenylate kinase; Reviewed

Probab=92.97  E-value=0.074  Score=49.46  Aligned_cols=23  Identities=30%  Similarity=0.222  Sum_probs=20.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|.|+|++|+||||+|+.++..+
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

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

Probab=92.97  E-value=0.082  Score=50.23  Aligned_cols=29  Identities=31%  Similarity=0.431  Sum_probs=24.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .-.+++|+|.+|+|||||++.+..-....
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~pt   66 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEPT   66 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCCC
Confidence            35689999999999999999998765443

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=92.96  E-value=0.087  Score=47.98  Aligned_cols=26  Identities=35%  Similarity=0.470  Sum_probs=23.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..|+|.|..|+||||+|+.+.+.+..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57999999999999999999987654

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

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

Probab=92.96  E-value=0.29  Score=44.09  Aligned_cols=25  Identities=32%  Similarity=0.319  Sum_probs=22.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -..+-++|.+|.|||||.+.+|...
T Consensus        28 Gef~fl~GpSGAGKSTllkLi~~~e   52 (223)
T COG2884          28 GEFVFLTGPSGAGKSTLLKLIYGEE   52 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhh
Confidence            4588999999999999999999753

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=92.94  E-value=0.16  Score=53.42  Aligned_cols=51  Identities=20%  Similarity=0.175  Sum_probs=38.3

Q ss_pred             hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      -+.+|.++|..+-..-.++.|.|.+|+|||||+.+++.....+=+.++++.
T Consensus       248 Gi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s  298 (484)
T TIGR02655       248 GVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFA  298 (484)
T ss_pred             ChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            345677777655566789999999999999999999887655444455554

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

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=92.93  E-value=0.084  Score=49.98  Aligned_cols=23  Identities=26%  Similarity=0.466  Sum_probs=19.1

Q ss_pred             EeccCcchhhhHHHHHHHhhhcc
Q 041795          212 IWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       212 I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      |+|++|+||||+++.+.+.+...
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~   23 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESN   23 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhc
Confidence            68999999999999998876544

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK02496 adk adenylate kinase; Provisional

Probab=92.91  E-value=0.078  Score=47.90  Aligned_cols=23  Identities=26%  Similarity=0.235  Sum_probs=20.4

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+.|.|++|+||||+|+.+...+
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=92.90  E-value=0.089  Score=48.83  Aligned_cols=25  Identities=36%  Similarity=0.614  Sum_probs=21.2

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .|+|+|=||+||||+|..++.++..
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~   26 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLS   26 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHh
Confidence            5899999999999999997766443

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=92.89  E-value=0.097  Score=52.10  Aligned_cols=45  Identities=29%  Similarity=0.294  Sum_probs=35.5

Q ss_pred             ccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          186 LVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ++|....++++.+.+..-......|.|+|..|+||+++|+.+.+.
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~   45 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYL   45 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHh
Confidence            467888888888777643444557899999999999999999765

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=92.88  E-value=0.17  Score=46.93  Aligned_cols=24  Identities=38%  Similarity=0.529  Sum_probs=20.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHH
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .-.+-+|.|+.|.||||||..+.-
T Consensus        29 ~GEvhaiMGPNGsGKSTLa~~i~G   52 (251)
T COG0396          29 EGEVHAIMGPNGSGKSTLAYTIMG   52 (251)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            446889999999999999998864

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=92.88  E-value=0.15  Score=46.16  Aligned_cols=27  Identities=26%  Similarity=0.389  Sum_probs=23.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...++.|.|.+|.||||+|+.+...+.
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~~l~   43 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEKKLE   43 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            357999999999999999999988754

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=92.87  E-value=0.37  Score=48.69  Aligned_cols=75  Identities=21%  Similarity=0.411  Sum_probs=43.0

Q ss_pred             cccccC---CHhhHHHHhcCCCCCCCCcEEEEEeCChhhhhhhCcCCCceEEeCCCCHHHHHHHHHhccccCCCCCchHH
Q 041795          252 VLDDVN---KIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFL  328 (471)
Q Consensus       252 VLDdv~---~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~  328 (471)
                      |||.--   +.+..+.|...++.+. |. ||+.|.+..+...-+   ...+-+..-+.+              ....+|.
T Consensus       727 ILDEPTNNLDIESIDALaEAIney~-Gg-Vi~VsHDeRLi~eT~---C~LwVvE~Q~i~--------------eIdGdFe  787 (807)
T KOG0066|consen  727 ILDEPTNNLDIESIDALAEAINEYN-GG-VIMVSHDERLIVETD---CNLWVVENQGID--------------EIDGDFE  787 (807)
T ss_pred             EecCCCCCcchhhHHHHHHHHHhcc-Cc-EEEEecccceeeecC---ceEEEEccCChh--------------hccccHH
Confidence            677653   4566677766665443 44 566666665443322   233444433222              3345677


Q ss_pred             HHHHHHHHHHhhhhcCC
Q 041795          329 ASSKRVLKVLGSFFHRK  345 (471)
Q Consensus       329 ~l~~~il~~lg~~L~~~  345 (471)
                      +.-++++..+|..+-++
T Consensus       788 DYkkEVLdaLGEv~vs~  804 (807)
T KOG0066|consen  788 DYKKEVLDALGEVLVSK  804 (807)
T ss_pred             HHHHHHHHHHHHHhhCC
Confidence            77888888888877554

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=92.87  E-value=0.065  Score=45.68  Aligned_cols=34  Identities=35%  Similarity=0.452  Sum_probs=25.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|+|||||.+.++..... ..+.+++
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~~~~-~~G~i~~   44 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGLLPP-DSGSILI   44 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTSSHE-SEEEEEE
T ss_pred             CCEEEEEccCCCccccceeeecccccc-ccccccc
Confidence            358999999999999999998776544 3344443

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional

Probab=92.85  E-value=0.098  Score=53.01  Aligned_cols=30  Identities=30%  Similarity=0.432  Sum_probs=26.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcccc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFE  236 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~  236 (471)
                      .-+|+|+|..|+|||||+..+...+...+.
T Consensus         5 ~~~i~i~G~~gsGKTTl~~~l~~~l~~~~~   34 (369)
T PRK14490          5 PFEIAFCGYSGSGKTTLITALVRRLSERFS   34 (369)
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHHhhCce
Confidence            468999999999999999999998776543

>cd03114 ArgK-like The function of this protein family is unkown

Probab=92.83  E-value=0.08  Score=46.18  Aligned_cols=25  Identities=36%  Similarity=0.671  Sum_probs=21.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ++++.|.+|+||||++..+......
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~~~   25 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITALRA   25 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHHH
Confidence            4789999999999999999877543

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>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

Probab=92.83  E-value=0.14  Score=47.00  Aligned_cols=42  Identities=24%  Similarity=0.206  Sum_probs=30.0

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHH
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ..++|-+..+..|+-....    ..-+.++|.+|+|||+||+.+-.
T Consensus         3 ~dI~GQe~aKrAL~iAAaG----~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG----GHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC----C--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcC----CCCeEEECCCCCCHHHHHHHHHH
Confidence            4578877777766654442    24788999999999999999876

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

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

Probab=92.82  E-value=0.16  Score=50.47  Aligned_cols=57  Identities=35%  Similarity=0.302  Sum_probs=38.8

Q ss_pred             CCCCccccchhHHH---HHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccce
Q 041795          182 NFDGLVGLNSRIEK---IKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN  238 (471)
Q Consensus       182 ~~~~~vGr~~~~~~---l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~  238 (471)
                      ....+||.....+.   +.+++..+.-.-+.|.|.|++|.|||+||..+++.+....+.+
T Consensus        22 ~~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~   81 (398)
T PF06068_consen   22 IADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFV   81 (398)
T ss_dssp             EETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EE
T ss_pred             ccccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCee
Confidence            34679998776654   3445554444568999999999999999999999988665533

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

>smart00072 GuKc Guanylate kinase homologues

Probab=92.81  E-value=0.085  Score=47.78  Aligned_cols=26  Identities=31%  Similarity=0.341  Sum_probs=22.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+.|.|+|++|+||+||+..+.....
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~~   27 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEIP   27 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcCC
Confidence            36899999999999999999987653

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>PRK05973 replicative DNA helicase; Provisional

Probab=92.78  E-value=0.17  Score=47.72  Aligned_cols=37  Identities=22%  Similarity=0.086  Sum_probs=27.2

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .-.++.|.|.+|+|||++|.++......+=..++|+.
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfS   99 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFT   99 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            4568999999999999999998776443333344543

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=92.76  E-value=0.19  Score=46.91  Aligned_cols=48  Identities=25%  Similarity=0.300  Sum_probs=32.1

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .|.++|..+-..-.++.|.|.+|+|||++|.+++.....+=..++|++
T Consensus         4 ~LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s   51 (224)
T TIGR03880         4 GLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYIS   51 (224)
T ss_pred             hhHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            344555434345679999999999999999988766433323444554

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

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=92.75  E-value=0.18  Score=49.92  Aligned_cols=50  Identities=18%  Similarity=0.232  Sum_probs=33.9

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc------cceEeeeh
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF------EGNCFLGN  243 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f------~~~~~~~~  243 (471)
                      ..+..+|..+-..-.++-|+|.+|+|||+||.+++.......      ...+|++.
T Consensus        89 ~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~t  144 (317)
T PRK04301         89 KELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDT  144 (317)
T ss_pred             HHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeC
Confidence            344455544445577999999999999999999876532211      25667763

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

Probab=92.75  E-value=0.081  Score=48.56  Aligned_cols=22  Identities=36%  Similarity=0.442  Sum_probs=19.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~  228 (471)
                      -.+++|+|++|+|||||.+.+.
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN   49 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLN   49 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            4699999999999999998874

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=92.74  E-value=0.079  Score=46.23  Aligned_cols=22  Identities=32%  Similarity=0.388  Sum_probs=19.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+++|.+|+|||||+..+.+.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~   23 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYD   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988753

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>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

Probab=92.74  E-value=0.072  Score=46.47  Aligned_cols=20  Identities=35%  Similarity=0.380  Sum_probs=18.3

Q ss_pred             EeccCcchhhhHHHHHHHhh
Q 041795          212 IWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       212 I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |+|.+|+||||+|+.++.++
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            68999999999999999864

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=92.74  E-value=0.2  Score=44.13  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=18.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..|-|++..|.||||+|...+-+
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~r   25 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALR   25 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            36778888899999999877655

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

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

Probab=92.74  E-value=0.71  Score=49.13  Aligned_cols=49  Identities=29%  Similarity=0.295  Sum_probs=37.7

Q ss_pred             CCCCccccchhHHHHHHhhh--cCC--------CCceEEEEeccCcchhhhHHHHHHHh
Q 041795          182 NFDGLVGLNSRIEKIKSLLC--IGR--------PDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~--~~~--------~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...+..|.++.++++.+.+.  .++        .=++=|.++|++|.|||.||++++..
T Consensus       148 ~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgE  206 (596)
T COG0465         148 TFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGE  206 (596)
T ss_pred             ChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcc
Confidence            44668899988888777654  111        22677899999999999999999875

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=92.73  E-value=0.11  Score=49.55  Aligned_cols=25  Identities=24%  Similarity=0.484  Sum_probs=21.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +|+|.|.+|+||||+|+.+.+.+..
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~   25 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFAR   25 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5899999999999999998877653

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=92.70  E-value=0.15  Score=42.47  Aligned_cols=25  Identities=36%  Similarity=0.609  Sum_probs=21.8

Q ss_pred             EEEeccCcchhhhHHHHHHHhhhcc
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      |.+.|.||+||||++..++..+...
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~~~   26 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLAEK   26 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC
Confidence            7899999999999999998876543

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>PF13245 AAA_19: Part of AAA domain

Probab=92.68  E-value=0.11  Score=39.62  Aligned_cols=22  Identities=36%  Similarity=0.332  Sum_probs=16.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~  228 (471)
                      .+++.|.|.+|.|||+++....
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i   31 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARI   31 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            4578889999999996655443

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=92.67  E-value=0.17  Score=49.86  Aligned_cols=43  Identities=23%  Similarity=0.135  Sum_probs=30.7

Q ss_pred             ccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          186 LVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ++=..+....+...|..    .+.|.|.|.+|+||||+|+.++..+.
T Consensus        47 y~f~~~~~~~vl~~l~~----~~~ilL~G~pGtGKTtla~~lA~~l~   89 (327)
T TIGR01650        47 YLFDKATTKAICAGFAY----DRRVMVQGYHGTGKSTHIEQIAARLN   89 (327)
T ss_pred             ccCCHHHHHHHHHHHhc----CCcEEEEeCCCChHHHHHHHHHHHHC
Confidence            33334445556666643    24699999999999999999988643

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

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

Probab=92.66  E-value=0.07  Score=49.41  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=20.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .-|+++|++|+|||||...+.+.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~   28 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGD   28 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcC
Confidence            56899999999999999998876

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=92.65  E-value=0.13  Score=55.63  Aligned_cols=55  Identities=31%  Similarity=0.344  Sum_probs=41.2

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc-ccceEeee
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNCFLG  242 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~~~  242 (471)
                      +.++|.++.++.+...+...    +-+.++|++|+||||+|+.+.+.+... |...+++.
T Consensus        18 ~~viG~~~a~~~l~~a~~~~----~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~   73 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQK----RNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYP   73 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcC----CCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEe
Confidence            56889998888888777633    255699999999999999999887654 34344443

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

>PRK10867 signal recognition particle protein; Provisional

Probab=92.63  E-value=0.21  Score=51.39  Aligned_cols=29  Identities=31%  Similarity=0.484  Sum_probs=24.6

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+|.++|.+|+||||+|..++..+...
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            36899999999999999998888776544

>PRK14528 adenylate kinase; Provisional

Probab=92.61  E-value=0.099  Score=47.48  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=20.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +.|.|.|.+|+||||+|+.+...+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999987664

>PRK00698 tmk thymidylate kinase; Validated

Probab=92.56  E-value=0.11  Score=47.68  Aligned_cols=25  Identities=28%  Similarity=0.419  Sum_probs=22.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..|+|.|+.|+||||+++.+.+.+.
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~l~   28 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKELLE   28 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5899999999999999999988753

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=92.56  E-value=0.11  Score=46.67  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=22.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..++.|.|++|+|||||+++++.+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            3688999999999999999999876

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

Probab=92.55  E-value=0.14  Score=52.25  Aligned_cols=25  Identities=28%  Similarity=0.400  Sum_probs=22.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+.++|++|+|||+||+.++..+.
T Consensus       117 ~~iLL~GP~GsGKT~lAraLA~~l~  141 (413)
T TIGR00382       117 SNILLIGPTGSGKTLLAQTLARILN  141 (413)
T ss_pred             ceEEEECCCCcCHHHHHHHHHHhcC
Confidence            5799999999999999999987653

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

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=92.52  E-value=0.14  Score=46.32  Aligned_cols=34  Identities=24%  Similarity=0.385  Sum_probs=30.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEe
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF  240 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~  240 (471)
                      ...|++-|.+|+|||+|..+.+..++++|...+-
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI   46 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLRALKDEYKIAVI   46 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEE
Confidence            5799999999999999999999999888876554

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

Probab=92.52  E-value=0.15  Score=56.30  Aligned_cols=49  Identities=16%  Similarity=0.152  Sum_probs=38.5

Q ss_pred             CCccccchhHHHHHHhhhcC-------CCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIG-------RPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|-+..++.|.+.+...       ......+.++|++|+|||+||+.++..+.
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~  513 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            45789999999888877521       12245789999999999999999988763

>TIGR01817 nifA Nif-specific regulatory protein

Probab=92.52  E-value=0.12  Score=55.14  Aligned_cols=49  Identities=27%  Similarity=0.350  Sum_probs=40.3

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....++|....++++.+.+..-......|.|+|..|+|||++|+.+++.
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~  242 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYL  242 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHh
Confidence            4467999999999999887643334456789999999999999999875

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

>TIGR01287 nifH nitrogenase iron protein

Probab=92.50  E-value=0.094  Score=50.73  Aligned_cols=26  Identities=35%  Similarity=0.592  Sum_probs=22.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +.|+|+|=||+||||+|..++..+..
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~   26 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAE   26 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHH
Confidence            46899999999999999998887654

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=92.49  E-value=0.14  Score=51.60  Aligned_cols=28  Identities=21%  Similarity=0.216  Sum_probs=24.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..+++++|+.|+||||++..+.......
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~  164 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMR  164 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            5699999999999999999998875433

>PRK07429 phosphoribulokinase; Provisional

Probab=92.48  E-value=0.16  Score=50.49  Aligned_cols=30  Identities=30%  Similarity=0.439  Sum_probs=25.4

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ....+|+|.|..|+||||+|+.+...+...
T Consensus         6 ~~~~IIgI~G~SGSGKSTla~~L~~ll~~~   35 (327)
T PRK07429          6 DRPVLLGVAGDSGCGKTTFLRGLADLLGEE   35 (327)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHhHhccC
Confidence            456799999999999999999998776543

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=92.48  E-value=0.092  Score=46.02  Aligned_cols=22  Identities=27%  Similarity=0.401  Sum_probs=19.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988753

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=92.45  E-value=0.19  Score=52.89  Aligned_cols=36  Identities=25%  Similarity=0.193  Sum_probs=27.5

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .|.++|..+-..-+++.|.|.+|+||||||.++...
T Consensus         9 gLD~il~GGlp~g~~~Li~G~pGsGKT~la~qfl~~   44 (484)
T TIGR02655         9 GFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYN   44 (484)
T ss_pred             hHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            344455544456789999999999999999998554

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

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=92.45  E-value=0.16  Score=49.31  Aligned_cols=52  Identities=21%  Similarity=0.254  Sum_probs=35.6

Q ss_pred             CCccccc---hhHHHHHHhhhc-CCCCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          184 DGLVGLN---SRIEKIKSLLCI-GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       184 ~~~vGr~---~~~~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      +..+|-.   ..++.|.++|.. .....+.+.|+|.+|+|||++++.+....-..+
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~   89 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQS   89 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCC
Confidence            3345543   344566666653 234467899999999999999999988754444

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=92.44  E-value=0.15  Score=50.32  Aligned_cols=34  Identities=35%  Similarity=0.310  Sum_probs=26.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEe
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF  240 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~  240 (471)
                      .+++.+.|-||+||||+|.+.+-........+.-
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g~kvLl   35 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESGKKVLL   35 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcCCcEEE
Confidence            4789999999999999999977765555443333

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

Probab=92.43  E-value=0.082  Score=55.36  Aligned_cols=110  Identities=23%  Similarity=0.226  Sum_probs=65.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhccccc-------eEeeehh----hhhhhc--------CcccccCC--------
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG-------NCFLGNV----REESEK--------GVLDDVNK--------  258 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~-------~~~~~~~----~~~~~~--------~VLDdv~~--------  258 (471)
                      ...=|.+||++|+|||-||++|+|.-.-+|-.       ..||..+    +....+        ..+|.++.        
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNkYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~  623 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNKYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDE  623 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHHHhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCC
Confidence            35678899999999999999999986666532       2233221    111111        05676641        


Q ss_pred             -----HhhHHHHhcCCCCCC--CCcEEEEEeCChhhhh-----hhCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          259 -----IGQLQYLTCGLDRFG--PGSRIIITTRDKWILD-----KFGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       259 -----~~~~~~l~~~~~~~~--~gs~IiiTTR~~~v~~-----~~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                           ....++|+..++...  .|.-||-.|-.+++..     --..  +..+-|+.-+.+|=..+++...
T Consensus       624 ~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRl--Dk~LyV~lPn~~eR~~ILK~~t  692 (802)
T KOG0733|consen  624 GSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRL--DKLLYVGLPNAEERVAILKTIT  692 (802)
T ss_pred             CchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCcc--CceeeecCCCHHHHHHHHHHHh
Confidence                 122455655554332  3555666665554432     2222  5677788888888888887665

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=92.42  E-value=0.088  Score=46.09  Aligned_cols=21  Identities=24%  Similarity=0.218  Sum_probs=19.0

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.++|.+|+|||||...+.+.
T Consensus         3 i~~vG~~~vGKTsli~~l~~~   23 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEG   23 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988764

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

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

Probab=92.41  E-value=0.086  Score=43.55  Aligned_cols=20  Identities=40%  Similarity=0.511  Sum_probs=18.9

Q ss_pred             EEEeccCcchhhhHHHHHHH
Q 041795          210 VGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~  229 (471)
                      |+|+|++|+|||||...+.+
T Consensus         2 V~iiG~~~~GKSTlin~l~~   21 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTG   21 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            78999999999999999986

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

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

Probab=92.40  E-value=0.093  Score=48.78  Aligned_cols=25  Identities=36%  Similarity=0.383  Sum_probs=21.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||++.++...
T Consensus        30 G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          30 GEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            4589999999999999999987654

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=92.40  E-value=0.16  Score=54.86  Aligned_cols=23  Identities=35%  Similarity=0.407  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -..++|+|..|.|||||++.+..
T Consensus       361 G~~v~IvG~sGsGKSTLl~lL~g  383 (588)
T PRK13657        361 GQTVAIVGPTGAGKSTLINLLQR  383 (588)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999865

>PHA02774 E1; Provisional

Probab=92.39  E-value=0.22  Score=52.55  Aligned_cols=40  Identities=23%  Similarity=0.392  Sum_probs=29.9

Q ss_pred             hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      -+..|+.+|. +.+.-..+.|+|++|.|||.+|..+.+-+.
T Consensus       420 fl~~lk~~l~-~~PKknciv~~GPP~TGKS~fa~sL~~~L~  459 (613)
T PHA02774        420 FLTALKDFLK-GIPKKNCLVIYGPPDTGKSMFCMSLIKFLK  459 (613)
T ss_pred             HHHHHHHHHh-cCCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3455555653 334456899999999999999999988753

>TIGR00017 cmk cytidylate kinase

Probab=92.38  E-value=0.11  Score=48.47  Aligned_cols=25  Identities=36%  Similarity=0.457  Sum_probs=22.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+|+|.|+.|.||||+|+.++.++.
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~~   27 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKLG   27 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999987653

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

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

Probab=92.38  E-value=0.25  Score=48.62  Aligned_cols=53  Identities=36%  Similarity=0.320  Sum_probs=40.9

Q ss_pred             CCCCccccchhHH---HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          182 NFDGLVGLNSRIE---KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       182 ~~~~~vGr~~~~~---~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..+.+||-.+..+   -+.++...+.-.-+.|.|+|++|.|||.||-.+.+.+...
T Consensus        37 ~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~d   92 (450)
T COG1224          37 IGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGED   92 (450)
T ss_pred             cCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            4567898776554   3456666555567899999999999999999999987654

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

Probab=92.34  E-value=2.8  Score=43.44  Aligned_cols=49  Identities=31%  Similarity=0.325  Sum_probs=40.5

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....++|+...++++.+.+..-.+.-..|.|.|..|+||-.+|+.+.+.
T Consensus       139 ~~~~liG~S~am~~l~~~i~kvA~s~a~VLI~GESGtGKElvAr~IH~~  187 (464)
T COG2204         139 LGGELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELVARAIHQA  187 (464)
T ss_pred             ccCCceecCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHhh
Confidence            4567999999999999988744444456889999999999999999764

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=92.32  E-value=0.13  Score=55.52  Aligned_cols=56  Identities=34%  Similarity=0.391  Sum_probs=44.1

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc-cccceEeeeh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK-EFEGNCFLGN  243 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~~~~  243 (471)
                      +.++|.+..++.|...+...    +.+.++|.+|+||||+|+.+.+.+.. +++...|+.+
T Consensus        31 ~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n   87 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN   87 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC
Confidence            56889988888888766533    36899999999999999999987543 3577777664

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=92.32  E-value=0.17  Score=50.49  Aligned_cols=46  Identities=26%  Similarity=0.302  Sum_probs=34.2

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+||-+..+..|.-.+.  ++...-+.|.|..|+|||||++.+..-+
T Consensus         4 ~~ivgq~~~~~al~~~~~--~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVI--DPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             cccccHHHHHHHHHHHhc--CCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            457898888777654443  2234567899999999999999997643

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=92.28  E-value=0.11  Score=48.11  Aligned_cols=26  Identities=31%  Similarity=0.576  Sum_probs=22.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ++|+|.|=||+||||++..++..+..
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~la~   26 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAALAE   26 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHHHH
Confidence            47899999999999999988877654

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PLN02674 adenylate kinase

Probab=92.25  E-value=0.19  Score=47.59  Aligned_cols=25  Identities=24%  Similarity=0.169  Sum_probs=21.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...|.|.|++|+||||+|+.++..+
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~~~   55 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKDEY   55 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHc
Confidence            3457899999999999999988754

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=92.23  E-value=0.09  Score=50.87  Aligned_cols=25  Identities=32%  Similarity=0.519  Sum_probs=21.8

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +|+|.|..|+|||||++.+...+..
T Consensus         1 iigI~G~sGsGKSTl~~~L~~ll~~   25 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSLFGS   25 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhhCC
Confidence            5899999999999999999876543

This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

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

Probab=92.22  E-value=0.1  Score=48.23  Aligned_cols=25  Identities=36%  Similarity=0.409  Sum_probs=21.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||++.++...
T Consensus        27 G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          27 GEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999987643

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=92.20  E-value=0.12  Score=48.83  Aligned_cols=27  Identities=30%  Similarity=0.468  Sum_probs=22.7

Q ss_pred             eEEEEecc-CcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGM-GGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~-gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++|+|+|. ||+|||||+..++..+...
T Consensus         2 ~~iai~s~kGGvG~TTltAnLA~aL~~~   29 (243)
T PF06564_consen    2 KVIAIVSPKGGVGKTTLTANLAWALARL   29 (243)
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHHHHC
Confidence            57999996 9999999999988765543

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

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

Probab=92.19  E-value=0.27  Score=45.04  Aligned_cols=28  Identities=36%  Similarity=0.379  Sum_probs=23.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      -+++.|.|.+|.||||+...+...+...
T Consensus        18 ~~~~~l~G~aGtGKT~~l~~~~~~~~~~   45 (196)
T PF13604_consen   18 DRVSVLQGPAGTGKTTLLKALAEALEAA   45 (196)
T ss_dssp             CSEEEEEESTTSTHHHHHHHHHHHHHHT
T ss_pred             CeEEEEEECCCCCHHHHHHHHHHHHHhC
Confidence            4688899999999999999988765543

>TIGR00101 ureG urease accessory protein UreG

Probab=92.18  E-value=0.17  Score=46.45  Aligned_cols=28  Identities=29%  Similarity=0.478  Sum_probs=23.7

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      ..|+|.|..|.|||||.+.+.+.+....
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~l~~~~   29 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRALRQKY   29 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhCcCC
Confidence            3689999999999999999998766543

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

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

Probab=92.16  E-value=0.11  Score=44.92  Aligned_cols=23  Identities=39%  Similarity=0.486  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +.|.++|..|.|||||++.+-..
T Consensus         2 krimliG~~g~GKTTL~q~L~~~   24 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGE   24 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCC
Confidence            45789999999999999998764

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=92.16  E-value=0.12  Score=50.38  Aligned_cols=26  Identities=27%  Similarity=0.319  Sum_probs=23.2

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+-+|.|.|.+|+||||+|..+++.+
T Consensus        91 ~p~iIlI~G~sgsGKStlA~~La~~l  116 (301)
T PRK04220         91 EPIIILIGGASGVGTSTIAFELASRL  116 (301)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999999876

>cd01862 Rab7 Rab7 subfamily

Probab=92.16  E-value=0.096  Score=46.21  Aligned_cols=22  Identities=41%  Similarity=0.442  Sum_probs=19.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999988764

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

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

Probab=92.11  E-value=0.11  Score=45.18  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=19.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|.+|+|||||...+.+.
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~   24 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQN   24 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999888754

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

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

Probab=92.09  E-value=0.14  Score=47.47  Aligned_cols=36  Identities=39%  Similarity=0.398  Sum_probs=22.9

Q ss_pred             hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+.+...|...    .+..|.|++|.||||++..+...+
T Consensus         6 Q~~Ai~~~~~~~----~~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    6 QREAIQSALSSN----GITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHHCTSS----E-EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCC----CCEEEECCCCCChHHHHHHHHHHh
Confidence            344455555321    278999999999998877766654

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

Probab=92.08  E-value=0.22  Score=44.53  Aligned_cols=26  Identities=35%  Similarity=0.424  Sum_probs=23.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++.+.|+.|+|||.||+.++..+.
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~   28 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLF   28 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            45789999999999999999998876

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=92.07  E-value=0.11  Score=47.20  Aligned_cols=25  Identities=28%  Similarity=0.461  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.+....
T Consensus        18 Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        18 GEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999987643

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=92.07  E-value=0.12  Score=47.29  Aligned_cols=23  Identities=26%  Similarity=0.375  Sum_probs=20.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..|+|+|+.|+||||+|+.+.+.
T Consensus         2 ~~i~itG~~gsGKst~~~~l~~~   24 (195)
T PRK14730          2 RRIGLTGGIASGKSTVGNYLAQQ   24 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            36999999999999999998764

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.04  E-value=0.2  Score=50.87  Aligned_cols=27  Identities=26%  Similarity=0.268  Sum_probs=23.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|.++|..|+||||.+..++..+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~  199 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYG  199 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            367999999999999999999887654

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

Probab=92.03  E-value=0.11  Score=48.27  Aligned_cols=34  Identities=24%  Similarity=0.280  Sum_probs=25.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|.|||||.+.++..... ..+.+++
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~Gl~~~-~~G~i~~   62 (216)
T TIGR00960        29 GEMVFLVGHSGAGKSTFLKLILGIEKP-TRGKIRF   62 (216)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC-CceEEEE
Confidence            468999999999999999998865432 2344444

>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]

Probab=92.03  E-value=0.14  Score=44.45  Aligned_cols=28  Identities=25%  Similarity=0.493  Sum_probs=24.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      .++.|.|.+|.||||+++++.+.+.-.|
T Consensus        13 ~~i~vmGvsGsGKSTigk~L~~~l~~~F   40 (191)
T KOG3354|consen   13 YVIVVMGVSGSGKSTIGKALSEELGLKF   40 (191)
T ss_pred             eeEEEEecCCCChhhHHHHHHHHhCCcc
Confidence            4899999999999999999999877554

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.02  E-value=0.2  Score=50.44  Aligned_cols=28  Identities=32%  Similarity=0.399  Sum_probs=24.0

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..++++++|+.|+||||++..++.....
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~  232 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLK  232 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4689999999999999999998876533

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

Probab=92.00  E-value=0.27  Score=47.47  Aligned_cols=50  Identities=30%  Similarity=0.309  Sum_probs=37.9

Q ss_pred             HHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhh
Q 041795          196 IKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVR  245 (471)
Q Consensus       196 l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~  245 (471)
                      |.++|..+-+.-+++=|+|+.|.||||||.+++-.....-...+|++.-.
T Consensus        49 LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE~   98 (279)
T COG0468          49 LDEALGGGLPRGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTEH   98 (279)
T ss_pred             HHHHhcCCcccceEEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEeCCC
Confidence            33445434456789999999999999999998877666666788887444

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=91.98  E-value=0.12  Score=46.52  Aligned_cols=34  Identities=32%  Similarity=0.404  Sum_probs=25.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|.|||||++.++.... ...+.+.+
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~~~-~~~G~i~~   59 (178)
T cd03229          26 GEIVALLGPSGSGKSTLLRCIAGLEE-PDSGSILI   59 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC-CCceEEEE
Confidence            45899999999999999999976432 23444443

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

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=91.94  E-value=0.13  Score=47.81  Aligned_cols=26  Identities=38%  Similarity=0.673  Sum_probs=22.7

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .. .+++|+|..|.|||||++.+...+
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhCCC
Confidence            45 799999999999999999987654

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

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

Probab=91.93  E-value=0.12  Score=48.54  Aligned_cols=23  Identities=39%  Similarity=0.445  Sum_probs=20.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -..|+|+|.+|+|||||-+.++-
T Consensus        29 GEfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          29 GEFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999998875

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=91.89  E-value=0.13  Score=49.84  Aligned_cols=26  Identities=31%  Similarity=0.461  Sum_probs=22.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ++|+|+|=||+||||+|..++..+..
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~La~   27 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAALAE   27 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            57889999999999999998877554

>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional

Probab=91.89  E-value=0.15  Score=47.73  Aligned_cols=27  Identities=33%  Similarity=0.575  Sum_probs=24.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++++|+|..|+|||||+..+...+..+
T Consensus         2 ~vi~ivG~~gsGKTtl~~~l~~~L~~~   28 (229)
T PRK14494          2 RAIGVIGFKDSGKTTLIEKILKNLKER   28 (229)
T ss_pred             eEEEEECCCCChHHHHHHHHHHHHHhC
Confidence            589999999999999999999887654

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

Probab=91.88  E-value=0.13  Score=46.32  Aligned_cols=25  Identities=36%  Similarity=0.494  Sum_probs=22.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.+....
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            4589999999999999999988654

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

>PRK06851 hypothetical protein; Provisional

Probab=91.86  E-value=0.17  Score=50.88  Aligned_cols=41  Identities=27%  Similarity=0.245  Sum_probs=32.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh-ccccceEeeehhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY-KEFEGNCFLGNVRE  246 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~-~~f~~~~~~~~~~~  246 (471)
                      .-+++.|.|.+|+|||||.+.+.+.+. ..|+...+.+....
T Consensus        29 ~~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~   70 (367)
T PRK06851         29 ANRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDN   70 (367)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCC
Confidence            357899999999999999999999875 45777777664443

>cd04163 Era Era subfamily

Probab=91.85  E-value=0.13  Score=44.58  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=20.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ..+|+++|..|+|||||...+..
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~   25 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVG   25 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhC
Confidence            35799999999999999999865

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>cd04113 Rab4 Rab4 subfamily

Probab=91.83  E-value=0.12  Score=45.18  Aligned_cols=21  Identities=33%  Similarity=0.368  Sum_probs=18.7

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.|+|.+|+|||||...+.+.
T Consensus         3 i~v~G~~~vGKTsli~~l~~~   23 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVEN   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998753

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=91.83  E-value=0.23  Score=53.60  Aligned_cols=26  Identities=27%  Similarity=0.496  Sum_probs=22.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .-..++|+|..|.|||||++.+..-+
T Consensus       375 ~G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        375 AGQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999987654

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=91.82  E-value=0.12  Score=47.13  Aligned_cols=25  Identities=32%  Similarity=0.412  Sum_probs=22.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||++.++...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         26 SAITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4589999999999999999997654

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=91.80  E-value=0.36  Score=44.83  Aligned_cols=27  Identities=33%  Similarity=0.215  Sum_probs=22.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .-..|.|.+|+|||||.+.++..++..
T Consensus       138 lntLiigpP~~GKTTlLRdiaR~~s~g  164 (308)
T COG3854         138 LNTLIIGPPQVGKTTLLRDIARLLSDG  164 (308)
T ss_pred             eeeEEecCCCCChHHHHHHHHHHhhcc
Confidence            347899999999999999998876554

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=91.79  E-value=0.12  Score=44.23  Aligned_cols=22  Identities=27%  Similarity=0.306  Sum_probs=19.4

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+++|.+|+|||||...+...
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~   24 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGN   24 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999888654

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=91.79  E-value=0.35  Score=50.74  Aligned_cols=27  Identities=22%  Similarity=0.263  Sum_probs=23.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..+++|+|.+|+||||++..++..+..
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~  376 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAA  376 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            579999999999999999998876543

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

Probab=91.78  E-value=0.12  Score=47.66  Aligned_cols=34  Identities=32%  Similarity=0.497  Sum_probs=25.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|.|||||++.+...... ..+.+++
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~~~~-~~G~i~~   59 (210)
T cd03269          26 GEIFGLLGPNGAGKTTTIRMILGIILP-DSGEVLF   59 (210)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCC-CceEEEE
Confidence            468999999999999999999865432 3444444

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=91.78  E-value=0.12  Score=47.81  Aligned_cols=34  Identities=24%  Similarity=0.307  Sum_probs=25.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|.|||||++.+..... ...+.+++
T Consensus        28 G~~~~l~G~nGsGKSTLl~~i~Gl~~-~~~G~i~~   61 (214)
T TIGR02673        28 GEFLFLTGPSGAGKTTLLKLLYGALT-PSRGQVRI   61 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC-CCCceEEE
Confidence            45899999999999999999876432 23444444

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=91.78  E-value=2.2  Score=41.26  Aligned_cols=23  Identities=26%  Similarity=0.219  Sum_probs=19.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ...++++|++|+|||||...+..
T Consensus       118 ~~~~~~vG~~nvGKSslin~l~~  140 (276)
T TIGR03596       118 PIRAMIVGIPNVGKSTLINRLAG  140 (276)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhC
Confidence            45689999999999999988864

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

>cd04155 Arl3 Arl3 subfamily

Probab=91.77  E-value=0.11  Score=46.06  Aligned_cols=24  Identities=25%  Similarity=0.266  Sum_probs=21.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|+|+|.+|+|||||...+...
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcC
Confidence            456999999999999999998764

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=91.76  E-value=0.12  Score=48.65  Aligned_cols=25  Identities=40%  Similarity=0.562  Sum_probs=21.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||++.++...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          26 GEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999997644

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK06851 hypothetical protein; Provisional

Probab=91.75  E-value=0.31  Score=48.99  Aligned_cols=38  Identities=21%  Similarity=0.200  Sum_probs=31.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh-hccccceEeeehh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI-YKEFEGNCFLGNV  244 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~-~~~f~~~~~~~~~  244 (471)
                      -+++.|.|.+|+|||||++.++... ...++..++-+.+
T Consensus       214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~  252 (367)
T PRK06851        214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGF  252 (367)
T ss_pred             ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCC
Confidence            5789999999999999999999985 5567777776643

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

Probab=91.74  E-value=0.24  Score=49.26  Aligned_cols=69  Identities=33%  Similarity=0.483  Sum_probs=44.8

Q ss_pred             hHHHHHHHHhhhhcccccccccCCCCccccchhHHHHHHhhhc---------C-CCCceEEEEeccCcchhhhHHHHHHH
Q 041795          160 AELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLLCI---------G-RPDFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       160 ~~~i~~i~~~v~~~l~~~~~~~~~~~~vGr~~~~~~l~~~L~~---------~-~~~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ..+++.+-.++.+.-+.    +.=+++.|.++.++-|++....         + ...=+-|..+|++|.|||-||++|+.
T Consensus       192 ~~Lve~lerdIl~~np~----ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvAT  267 (491)
T KOG0738|consen  192 ADLVEALERDILQRNPN----IKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVAT  267 (491)
T ss_pred             HHHHHHHHHHHhccCCC----cChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHH
Confidence            34444444444433222    2335688998888888775431         1 12246789999999999999999998


Q ss_pred             hhh
Q 041795          230 LIY  232 (471)
Q Consensus       230 ~~~  232 (471)
                      .-.
T Consensus       268 Ec~  270 (491)
T KOG0738|consen  268 ECG  270 (491)
T ss_pred             hhc
Confidence            643

>smart00175 RAB Rab subfamily of small GTPases

Probab=91.74  E-value=0.11  Score=45.33  Aligned_cols=21  Identities=24%  Similarity=0.354  Sum_probs=19.0

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |+++|.+|+|||||...+.+.
T Consensus         3 v~v~G~~~~GKTtli~~l~~~   23 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDG   23 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999998754

Rab GTPases are implicated in vesicle trafficking.

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=91.73  E-value=0.1  Score=48.62  Aligned_cols=22  Identities=32%  Similarity=0.330  Sum_probs=19.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~  228 (471)
                      ...+.|+|.+|+||||+|+.+.
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~   33 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLP   33 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcC
Confidence            4569999999999999999874

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=91.70  E-value=0.13  Score=47.69  Aligned_cols=25  Identities=36%  Similarity=0.402  Sum_probs=21.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||++.++..+
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          26 GEFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999987643

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=91.68  E-value=0.12  Score=47.01  Aligned_cols=22  Identities=32%  Similarity=0.416  Sum_probs=20.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +|+|.|+.|+||||+++.+.+.
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~   22 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEH   22 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999875

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=91.67  E-value=0.13  Score=48.68  Aligned_cols=25  Identities=32%  Similarity=0.484  Sum_probs=21.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||++.++...
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          27 GEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCc
Confidence            4589999999999999999998643

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

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=91.66  E-value=0.19  Score=50.17  Aligned_cols=48  Identities=29%  Similarity=0.356  Sum_probs=36.1

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ....+||-++.+..|...+.  ++.+.-|.|.|..|+||||+|+.+++-.
T Consensus        15 pf~~ivGq~~~k~al~~~~~--~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVI--DPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             CHHHHhChHHHHHHHHHhcc--CCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            33568998877776665544  3345667799999999999999997753

>cd04124 RabL2 RabL2 subfamily

Probab=91.64  E-value=0.13  Score=45.19  Aligned_cols=21  Identities=19%  Similarity=0.257  Sum_probs=18.3

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.++|.+|+|||||+..+.+.
T Consensus         3 i~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999887653

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>PRK10646 ADP-binding protein; Provisional

Probab=91.62  E-value=0.24  Score=43.25  Aligned_cols=40  Identities=15%  Similarity=0.257  Sum_probs=27.5

Q ss_pred             hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +..++-+.|...-..-.+|.+.|-=|.||||+++.++..+
T Consensus        13 ~t~~l~~~la~~l~~g~vi~L~GdLGaGKTtf~rgl~~~L   52 (153)
T PRK10646         13 ATLDLGARVAKACDGATVIYLYGDLGAGKTTFSRGFLQAL   52 (153)
T ss_pred             HHHHHHHHHHHhCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3334444443222233589999999999999999998864

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=91.60  E-value=0.13  Score=48.70  Aligned_cols=34  Identities=35%  Similarity=0.442  Sum_probs=25.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|.|||||++.++..... ..+.+++
T Consensus        28 Ge~~~l~G~nGsGKSTLl~~l~Gl~~~-~~G~i~~   61 (243)
T TIGR02315        28 GEFVAIIGPSGAGKSTLLRCINRLVEP-SSGSILL   61 (243)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCcCC-CccEEEE
Confidence            468999999999999999998764322 3344443

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd04136 Rap_like Rap-like subfamily

Probab=91.59  E-value=0.13  Score=44.84  Aligned_cols=22  Identities=32%  Similarity=0.444  Sum_probs=18.8

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.|+|.+|+|||||+..+...
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~   24 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQG   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999887653

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=91.58  E-value=0.13  Score=48.06  Aligned_cols=25  Identities=32%  Similarity=0.361  Sum_probs=22.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||++.++...
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          26 GEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            4689999999999999999988654

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=91.58  E-value=0.13  Score=47.80  Aligned_cols=25  Identities=32%  Similarity=0.433  Sum_probs=22.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++...
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          28 GEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999998654

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=91.56  E-value=0.18  Score=51.28  Aligned_cols=27  Identities=33%  Similarity=0.288  Sum_probs=23.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..-+|||.|..|.|||||++.+...+.
T Consensus       211 ~PlIIGIsG~qGSGKSTLa~~L~~lL~  237 (460)
T PLN03046        211 PPLVIGFSAPQGCGKTTLVFALDYLFR  237 (460)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            467999999999999999999866553

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=91.55  E-value=0.13  Score=47.84  Aligned_cols=25  Identities=36%  Similarity=0.391  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++...
T Consensus        30 G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          30 GEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999987643

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

>cd00876 Ras Ras family

Probab=91.55  E-value=0.13  Score=44.53  Aligned_cols=21  Identities=29%  Similarity=0.472  Sum_probs=18.6

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.|+|.+|+|||||...+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988653

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>PRK14526 adenylate kinase; Provisional

Probab=91.54  E-value=0.14  Score=47.46  Aligned_cols=22  Identities=32%  Similarity=0.422  Sum_probs=19.4

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +.|+|++|+||||+|+.+...+
T Consensus         3 i~l~G~pGsGKsT~a~~La~~~   24 (211)
T PRK14526          3 LVFLGPPGSGKGTIAKILSNEL   24 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999987653

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

Probab=91.53  E-value=0.13  Score=44.86  Aligned_cols=21  Identities=33%  Similarity=0.491  Sum_probs=19.1

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.++|.+|+|||||...+.+.
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~   22 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLING   22 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            689999999999999998774

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=91.53  E-value=0.12  Score=47.76  Aligned_cols=25  Identities=40%  Similarity=0.571  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||++.++...
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          25 GEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCC
Confidence            4589999999999999999987643

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

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=91.52  E-value=0.14  Score=47.47  Aligned_cols=25  Identities=32%  Similarity=0.336  Sum_probs=21.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++...
T Consensus        27 G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          27 GEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4589999999999999999997643

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

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=91.52  E-value=0.12  Score=47.71  Aligned_cols=32  Identities=31%  Similarity=0.437  Sum_probs=24.2

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      +++|+|..|.|||||++.++..... ..+.+++
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~~~-~~G~i~~   58 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLTPP-SSGTIRI   58 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCCCC-CccEEEE
Confidence            8999999999999999999764322 3444444

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=91.48  E-value=0.15  Score=49.03  Aligned_cols=26  Identities=31%  Similarity=0.570  Sum_probs=22.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ++|+|.|=||+||||+|..++..+..
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La~   27 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALAE   27 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHHh
Confidence            46888899999999999998887654

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

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

Probab=91.47  E-value=0.14  Score=47.99  Aligned_cols=25  Identities=28%  Similarity=0.397  Sum_probs=22.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||++.++...
T Consensus        36 Ge~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         36 GETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            4699999999999999999998643

>cd00154 Rab Rab family

Probab=91.45  E-value=0.14  Score=44.01  Aligned_cols=21  Identities=29%  Similarity=0.349  Sum_probs=19.0

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.++|.+|+|||||...+.+.
T Consensus         3 i~~~G~~~~GKStl~~~l~~~   23 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDG   23 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998764

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=91.45  E-value=0.17  Score=47.60  Aligned_cols=26  Identities=27%  Similarity=0.401  Sum_probs=22.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      -.+++|.|..|.|||||.+.++..+.
T Consensus        12 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   37 (230)
T TIGR02770        12 GEVLALVGESGSGKSLTCLAILGLLP   37 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            45899999999999999999987654

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=91.43  E-value=0.2  Score=49.87  Aligned_cols=47  Identities=28%  Similarity=0.362  Sum_probs=34.7

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...++|.+..++.|.-.+..  .+..-+.+.|.+|+||||||+.+..-+
T Consensus         7 f~~i~Gq~~~~~~l~~~~~~--~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          7 FSAIVGQEEMKQAMVLTAID--PGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             HHHhCCHHHHHHHHHHHHhc--cCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            35688999888877643321  122348999999999999999997754

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=91.41  E-value=0.18  Score=42.32  Aligned_cols=26  Identities=23%  Similarity=0.262  Sum_probs=22.6

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .-.+|.+.|.=|.||||+++.++..+
T Consensus        14 ~g~vi~L~GdLGaGKTtf~r~l~~~l   39 (123)
T PF02367_consen   14 PGDVILLSGDLGAGKTTFVRGLARAL   39 (123)
T ss_dssp             S-EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            34799999999999999999998864

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=91.39  E-value=0.23  Score=48.99  Aligned_cols=49  Identities=18%  Similarity=0.228  Sum_probs=33.8

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc------ccceEeeeh
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE------FEGNCFLGN  243 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~~~~  243 (471)
                      .+.++|..+-..-.++-|+|.+|+||||||.+++......      =...+|++.
T Consensus        83 ~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~t  137 (310)
T TIGR02236        83 ELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDT  137 (310)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEEC
Confidence            4445555443456899999999999999999987664321      125677763

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

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=91.39  E-value=0.14  Score=47.61  Aligned_cols=34  Identities=29%  Similarity=0.403  Sum_probs=25.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|.|||||.+.++.... ...+.+++
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G~~~-~~~G~i~~   59 (220)
T cd03265          26 GEIFGLLGPNGAGKTTTIKMLTTLLK-PTSGRATV   59 (220)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC-CCceEEEE
Confidence            46899999999999999999876432 23444444

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd01864 Rab19 Rab19 subfamily

Probab=91.39  E-value=0.14  Score=45.03  Aligned_cols=22  Identities=18%  Similarity=0.144  Sum_probs=19.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .-|+|+|.+|+|||||...+..
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~   25 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKS   25 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhh
Confidence            4688999999999999988754

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

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

Probab=91.38  E-value=0.25  Score=50.03  Aligned_cols=32  Identities=28%  Similarity=0.441  Sum_probs=27.2

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc-ccc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEG  237 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~  237 (471)
                      ..++|+|+|..|+|||||+..+...++.+ +..
T Consensus       204 ~~~~~~~~g~~~~GKtt~~~~l~~~l~~~g~~v  236 (366)
T PRK14489        204 APPLLGVVGYSGTGKTTLLEKLIPELIARGYRI  236 (366)
T ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHHcCCEE
Confidence            46799999999999999999999987664 443

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=91.37  E-value=0.14  Score=48.21  Aligned_cols=34  Identities=29%  Similarity=0.370  Sum_probs=25.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|.|||||++.++..... ..+.+++
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~~p-~~G~i~~   60 (236)
T TIGR03864        27 GEFVALLGPNGAGKSTLFSLLTRLYVA-QEGQISV   60 (236)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCcCC-CceEEEE
Confidence            468999999999999999998754322 2344444

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

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

Probab=91.36  E-value=0.16  Score=45.38  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=19.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      +-|+|+|.+|+|||||+..+..
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~   23 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVE   23 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            3578999999999999988764

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

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

Probab=91.35  E-value=0.14  Score=48.35  Aligned_cols=34  Identities=32%  Similarity=0.382  Sum_probs=25.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|.|||||++.++..... ..+.+++
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~~~-~~G~i~~   61 (239)
T cd03296          28 GELVALLGPSGSGKTTLLRLIAGLERP-DSGTILF   61 (239)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC-CceEEEE
Confidence            468999999999999999999765432 2344444

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	471
3ozi_A	204	Crystal Structure Of The Tir Domain From The Flax D		4e-34
3jrn_A	176	Crystal Structure Of Tir Domain From Arabidopsis Th		1e-32

>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease Resistance Protein L6 Length = 204

Iteration: 1
 Score =  142 bits (358), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 76/171 (44%), Positives = 106/171 (61%), Gaps = 3/171 (1%)
Query: 2   ASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFT 61
            S SF S  +Y+V LSFRG DTR+ FT  LY +L R KI TF + DE+ +G +I P L  
Sbjct: 27  PSGSFPSV-EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLR 85
Query: 62  AIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNG-QIVVPVFYHVDPSDVRKQTGSF 120
           AI  SKI V ++S  YA SKWCL EL +I+  +  +  +I++P+FY VDPSDVR QTG +
Sbjct: 86  AIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCY 145
Query: 121 RDAFVKHKKQM-AEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDI 170
           + AF KH  +   + +Q W+DAL +  +L GW+      +  + D +  DI
Sbjct: 146 KKAFRKHANKFDGQTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADI 196

>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana Length = 176

Iteration: 1
 Score =  137 bits (344), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 74/167 (44%), Positives = 106/167 (63%), Gaps = 3/167 (1%)
Query: 8   SSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSK 67
           +++KYDV LSFRG DTR NF S LY  L R+ I+TF +  E+  G   SP L + I+ S+
Sbjct: 5   TATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSR 64
Query: 68  ISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKH 127
            +V+V+S++YA+S WCL ELV I++ +      V+P+FY V+P+ VR QTG   + F KH
Sbjct: 65  FAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKH 124
Query: 128 -KKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKK 173
             ++  EKV KWR ALT  + LSG    +   +++LVD I  +I  K
Sbjct: 125 ASREDPEKVLKWRQALTNFAQLSG--DCSGDDDSKLVDKIANEISNK 169

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	471
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	2e-97
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	6e-97
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	2e-71
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-32
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	7e-31
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-29
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	3e-14
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	1e-13
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	2e-04

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum} Length = 204

 Score =  290 bits (745), Expect = 2e-97
 Identities = 75/180 (41%), Positives = 109/180 (60%), Gaps = 6/180 (3%)

Query: 1   MASTSFSSSS----KYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDIS 56
           ++ ++  S S    +Y+V LSFRG DTR+ FT  LY +L R KI TF + DE+ +G +I 
Sbjct: 21  ISDSTNPSGSFPSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIG 80

Query: 57  PALFTAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNG-QIVVPVFYHVDPSDVRK 115
           P L  AI  SKI V ++S  YA SKWCL EL +I+  +  +  +I++P+FY VDPSDVR 
Sbjct: 81  PNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRH 140

Query: 116 QTGSFRDAFVKH-KKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKL 174
           QTG ++ AF KH  K   + +Q W+DAL +  +L GW+      +  + D +  DI   +
Sbjct: 141 QTGCYKKAFRKHANKFDGQTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADIWSHI 200

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana} Length = 176

 Score =  288 bits (739), Expect = 6e-97
 Identities = 77/179 (43%), Positives = 109/179 (60%), Gaps = 6/179 (3%)

Query: 1   MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF 60
           M+S    +++KYDV LSFRG DTR NF S LY  L R+ I+TF +  E+  G   SP L 
Sbjct: 1   MSS---HTATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELK 57

Query: 61  TAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSF 120
           + I+ S+ +V+V+S++YA+S WCL ELV I++ +      V+P+FY V+P+ VR QTG  
Sbjct: 58  SPIEVSRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVL 117

Query: 121 RDAFVKH-KKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENIT 178
            + F KH  ++  EKV KWR ALT  + LSG  S     +++LVD I  +I  K     
Sbjct: 118 AEQFKKHASREDPEKVLKWRQALTNFAQLSGDCSG--DDDSKLVDKIANEISNKKTIYA 174

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222} Length = 154

 Score =  222 bits (567), Expect = 2e-71
 Identities = 24/143 (16%), Positives = 62/143 (43%), Gaps = 2/143 (1%)

Query: 1   MASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALF 60
             +   +S+  +D+ +S    D + +F   L   L     + + +   +R GD +  ++ 
Sbjct: 10  TTNADLTSAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSID 68

Query: 61  TAIQGSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSF 120
             +  S+  ++VLS H+   +W   EL  + + +S+    ++P+++ V   +V   + + 
Sbjct: 69  KGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEVASFSPTM 128

Query: 121 RDAFVKHKKQM-AEKVQKWRDAL 142
            D    +      +++     A+
Sbjct: 129 ADKLAFNTSTKSVDEIVADLMAI 151

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score =  130 bits (327), Expect = 2e-32
 Identities = 76/507 (14%), Positives = 146/507 (28%), Gaps = 171/507 (33%)

Query: 106 YHVDPSDVRKQTGSFRD-------AFV-----KHKKQMAEKV---QKWRDALTEASNLSG 150
           +H+D  +  +    ++D       AFV     K  + M + +   ++    +     +SG
Sbjct: 5   HHMD-FETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSG 63

Query: 151 -----WNSMTIRSEAELVDVIVKDILKK-----------------LENITVSTNFDGLVG 188
                W    +  + E+V   V+++L+                  +         D L  
Sbjct: 64  TLRLFW--TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN 121

Query: 189 LN--------SRIEKIKSL---LCIGRPDFRIVGIWGMGGTGKTTLAGAIFN--LIYKEF 235
            N        SR++    L   L   RP  + V I G+ G+GKT +A  +     +  + 
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPA-KNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180

Query: 236 EGNCF---LGNVRE---------------------------------ESEKG-------- 251
           +   F   L N                                     S +         
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240

Query: 252 --------VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEV 301
                   VL +V   K           + F    +I++TTR K + D      T    +
Sbjct: 241 KPYENCLLVLLNVQNAKA---------WNAFNLSCKILLTTRFKQVTDFLSAATTTHISL 291

Query: 302 N----GLRYHEALELFCNCAFKENHC-PSGFLASSKRVLKVLGSFFHRKSKLDWEKALEN 356
           +     L   E   L            P   L ++ R L ++          D     +N
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR-----DGLATWDN 346

Query: 357 ISRISDPDIYDVLKISYNDLSLEE-KSIFLDIACFFAGEEKD-YVTRML--------DPN 406
              ++   +  +++ S N L   E + +F  ++ F        ++  +L          +
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF----PPSAHIPTILLSLIWFDVIKS 402

Query: 407 FPHNGLNILIAKSLVTV-SNDNKIQMHDLLQEMGREVVRQECIKEPGKRSRL-------- 457
                +N L   SLV     ++ I +  +  E+     + +   E      +        
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL-----KVKLENEYALHRSIVDHYNIPK 457

Query: 458 ---------------WYHEDVYHVLKK 469
                          +Y    +H LK 
Sbjct: 458 TFDSDDLIPPYLDQYFYSHIGHH-LKN 483

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score =  124 bits (313), Expect = 7e-31
 Identities = 65/413 (15%), Positives = 119/413 (28%), Gaps = 95/413 (23%)

Query: 110 PSDVRKQTGSFRDAFVKHK-KQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVK 168
                    SF +A +    K +A  +      ++ +S     + +T      L +  V 
Sbjct: 61  LKKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVP 120

Query: 169 DILKKLENITVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIF 228
                         F   V     +  I+  L   + +   V I GM G GK+ LA    
Sbjct: 121 QR---------PVVF---VTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAV 168

Query: 229 N---LIYKEFEGNCF----------------------LGNVREESEKGVLDDVNKIGQLQ 263
               L+   F G                         L      S++  L+      +L+
Sbjct: 169 RDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLR 228

Query: 264 YLTCG-----------------LDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRY 306
            L                    L  F    +I++TTRDK + D        V   + L  
Sbjct: 229 ILMLRKHPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGK 288

Query: 307 HEALELFCNCAFKENHCPSGFLASSKRVLK----------VLGSFFHRKSKLDWEKALEN 356
            + LE+            +     +  ++K          ++G+         WE  L+ 
Sbjct: 289 EKGLEILSLFVN---MKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPN-RWEYYLKQ 344

Query: 357 I-----------SRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAGEEKDYVTR---- 401
           +           S      + + + IS   L  + K  + D++      +KD        
Sbjct: 345 LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSIL----QKDVKVPTKVL 400

Query: 402 ----MLDPNFPHNGLNILIAKSLVTVSNDNKI---QMHDLLQEMGREVVRQEC 447
                ++     + L   + KSL+    + K     +HDL  +   E    + 
Sbjct: 401 CILWDMETEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCSQL 453

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  120 bits (301), Expect = 2e-29
 Identities = 38/354 (10%), Positives = 84/354 (23%), Gaps = 97/354 (27%)

Query: 186 LVGLNSRIEKIKS-LLCIGRPDFRIVGIWGMGGTGKTTLAGAIFN---LIYKEFEGNCFL 241
                  ++++   L  +   D   + + G  G+GK+ +A    +    +      +   
Sbjct: 130 CYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVW 189

Query: 242 GNVREESEKG------------------------------------------------VL 253
                 + K                                                 V 
Sbjct: 190 LKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVF 249

Query: 254 DDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELF 313
           DDV +   +++            R ++TTRD  I +          EV  L   E  +  
Sbjct: 250 DDVVQEETIRWA------QELRLRCLVTTRDVEISNAAS-QTCEFIEVTSLEIDECYDFL 302

Query: 314 CNCAFKENHCPSGFLASSKRV----------LKVLGSFFHRKSKLDWE--------KALE 355
                              +           L +       K+             + L 
Sbjct: 303 EAYGMPMPVGEK-EEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLV 361

Query: 356 NISRISDPD---IYDVLKISYNDLSLEEKSIFLDIACFFAGEE--KDYVTRMLDPNFPHN 410
            +  I+      +   L+     LS E++S          G +      + ++  +   N
Sbjct: 362 GVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIPVKLWSCVIPVDICSN 421

Query: 411 G-----------LNILIAKSLVTVSNDNKI---QMHDLLQEMGREVVRQECIKE 450
                       L  L  +  +       +   ++  ++    + VV  + I  
Sbjct: 422 EEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQTIAN 475

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 74.5 bits (183), Expect = 3e-14
 Identities = 65/399 (16%), Positives = 125/399 (31%), Gaps = 83/399 (20%)

Query: 119 SFRDAFVKHK-KQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKKLENI 177
           SF +A +    K +A  +Q     ++ +S       +T      L +  V          
Sbjct: 70  SFYNALLHEGYKDLAALLQSGLPLVSSSSGKDTDGGITSFVRTVLCEGGVPQ-------- 121

Query: 178 TVSTNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAI---FNLIYKE 234
                F   V     +  I+  L     +   V I+GM G GK+ LA       +L+   
Sbjct: 122 -RPVIF---VTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGC 177

Query: 235 FEGNCFLGNVREESEKGVLDDVN----------------------KIGQLQYLTCG---- 268
           F G     ++ ++ + G+L  +                          +L+ L       
Sbjct: 178 FSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPR 237

Query: 269 -------------LDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELFCN 315
                        L  F    +I++TTRDK + D        V   +GL   + LE+   
Sbjct: 238 SLLILDDVWDPWVLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSL 297

Query: 316 CAFKE------------NHCPSGFL-----ASSKRVLKVLGSFFHRKSKLDWEKALENIS 358
               +              C    L      +  R      +++ R+ +    K +   S
Sbjct: 298 FVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSS 357

Query: 359 RISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAG----EEKDYVTRMLDPNFPHNGLNI 414
                 + + + IS   L  + K  + D++          +   V   L+     + L  
Sbjct: 358 SYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQE 417

Query: 415 LIAKSLVTVSNDNK---IQMHDLLQEMGREVVRQECIKE 450
            + KSL+  + + K     +HDL      + + ++   +
Sbjct: 418 FVNKSLLFCNRNGKSFCYYLHDLQ----VDFLTEKNRSQ 452

>3ub2_A TOLL/interleukin-1 receptor domain-containing ADA protein; TIR domain, TLRS adaptor, immune system; 2.40A {Homo sapiens} PDB: 3ub3_A 3ub4_A 2y92_A Length = 146

 Score = 67.4 bits (165), Expect = 1e-13
 Identities = 18/112 (16%), Positives = 40/112 (35%), Gaps = 4/112 (3%)

Query: 7   SSSSKYDVSLSFRGGDTRDNFTSHLYAAL--CRKKIKTFINGDEIRRGDDISPALFTAIQ 64
             S  YDV +     D        L + L      ++ F+   +   G  I   L  A+ 
Sbjct: 6   RWSKDYDVCVCHSEEDLV--AAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALS 63

Query: 65  GSKISVIVLSKHYASSKWCLHELVKILECKSTNGQIVVPVFYHVDPSDVRKQ 116
            S   V++++  +    WC +++++ L          +P+   +  +    +
Sbjct: 64  SSHCRVLLITPGFLQDPWCKYQMLQALTEAPGAEGCTIPLLSGLSRAAYPPE 115

>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity, immune response, leucine-rich repeat, glycoprotein, transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A Length = 178

 Score = 41.1 bits (96), Expect = 2e-04
 Identities = 17/79 (21%), Positives = 32/79 (40%), Gaps = 3/79 (3%)

Query: 11  KYDVSLSFRGGDTRDNFTSHLYAAL--CRKKIKTFINGDEIRRGDDISPALFTAIQGSKI 68
           ++   +S+   D      + L   L      I   +       G  IS  + + I+ S  
Sbjct: 35  RFHAFISYSEHD-SLWVKNELIPNLEKEDGSILICLYESYFDPGKSISENIVSFIEKSYK 93

Query: 69  SVIVLSKHYASSKWCLHEL 87
           S+ VLS ++  ++WC +E 
Sbjct: 94  SIFVLSPNFVQNEWCHYEF 112

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	471
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	100.0
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	100.0
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.98
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.97
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	99.96
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	99.93
2js7_A	160	Myeloid differentiation primary response protein M	99.88
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	99.86
1fyx_A	149	TOLL-like receptor 2; beta-alpha-beta fold, signal	99.86
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	99.85
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.6
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.19
2fna_A	357	Conserved hypothetical protein; structural genomic	99.17
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.14
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.02
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.94
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.94
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.82
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.8
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.72
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.35
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.31
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.29
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.28
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.27
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.16
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.15
3bos_A	242	Putative DNA replication factor; P-loop containing	98.14
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.11
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.09
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.02
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.01
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.89
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.88
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.87
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.83
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.78
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.75
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.72
3pvs_A	447	Replication-associated recombination protein A; ma	97.71
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.71
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.69
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.68
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.64
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.64
1eiw_A	111	Hypothetical protein MTH538; CHEY-like fold, flavo	97.62
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.61
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.59
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.57
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.54
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.54
3co5_A	143	Putative two-component system transcriptional RES	97.48
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.48
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.45
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.44
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.42
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.41
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.39
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.36
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.33
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.31
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.31
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.3
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.29
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.29
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.29
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.28
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.28
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.25
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.25
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	97.22
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.07
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.04
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	96.98
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	96.81
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.72
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.71
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.68
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.62
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.51
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.49
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.39
3hyn_A	189	Putative signal transduction protein; DUF1863 fami	96.32
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.1
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.06
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.06
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.06
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.96
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.91
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	95.9
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	95.87
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.78
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.77
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.76
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	95.74
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.72
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.59
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.53
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.52
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.51
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	95.44
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.43
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	95.41
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.38
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.35
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.34
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.34
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	95.33
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.33
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.32
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.31
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	95.28
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.26
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.21
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.21
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.21
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.18
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.17
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.15
1via_A	175	Shikimate kinase; structural genomics, transferase	95.14
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.14
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.13
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.11
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.08
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.03
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.02
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.01
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.0
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	94.99
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	94.99
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	94.99
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.98
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	94.95
2qgz_A	308	Helicase loader, putative primosome component; str	94.93
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	94.93
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	94.92
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	94.88
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	94.88
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.88
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	94.87
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.86
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.85
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	94.85
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.82
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	94.82
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	94.81
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	94.79
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	94.78
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.77
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.74
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.73
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	94.73
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.71
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	94.7
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.7
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.69
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	94.69
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	94.68
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.67
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	94.66
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	94.66
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	94.65
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.64
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	94.64
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.57
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.55
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	94.52
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	94.49
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.49
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.48
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.47
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	94.46
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.45
2cvh_A	220	DNA repair and recombination protein RADB; filamen	94.42
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	94.39
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.38
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.38
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.34
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	94.32
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.27
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.23
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.22
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.22
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.2
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.18
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	94.18
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.18
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.17
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	94.17
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.15
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.12
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.11
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.09
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.07
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.04
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.02
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	94.01
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.01
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	93.92
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	93.92
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	93.79
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	93.78
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	93.76
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	93.76
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	93.76
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	93.66
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	93.65
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	93.63
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	93.56
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	93.56
1u94_A	356	RECA protein, recombinase A; homologous recombinat	93.55
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	93.54
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	93.53
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	93.5
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	93.46
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	93.46
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	93.46
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	93.45
2og2_A	359	Putative signal recognition particle receptor; nuc	93.45
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	93.43
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	93.42
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.38
2xxa_A	433	Signal recognition particle protein; protein trans	93.37
2eyu_A	261	Twitching motility protein PILT; pilus retraction	93.35
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.3
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	93.29
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	93.28
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	93.25
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	93.24
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.21
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	93.19
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	93.17
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	93.14
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	93.12
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	93.1
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	93.09
3fwy_A	314	Light-independent protochlorophyllide reductase I	93.01
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	92.89
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	92.88
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	92.88
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	92.86
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	92.86
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	92.77
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	92.72
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	92.72
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	92.7
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	92.7
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	92.62
2z43_A	324	DNA repair and recombination protein RADA; archaea	92.57
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	92.56
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	92.46
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	92.45
2r6a_A	454	DNAB helicase, replicative helicase; replication,	92.41
3io5_A	333	Recombination and repair protein; storage dimer, i	92.41
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	92.35
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	92.33
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	92.31
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	92.27
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	92.25
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	92.22
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	92.18
1xp8_A	366	RECA protein, recombinase A; recombination, radior	92.16
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	92.15
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	92.13
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	92.13
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	92.12
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	92.04
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	92.02
2ged_A	193	SR-beta, signal recognition particle receptor beta	92.01
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	92.0
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	91.91
1b0u_A	262	Histidine permease; ABC transporter, transport pro	91.91
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	91.87
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	91.87
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	91.84
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	91.82
1ji0_A	240	ABC transporter; ATP binding protein, structural g	91.78
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	91.78
1g6h_A	257	High-affinity branched-chain amino acid transport	91.74
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	91.7
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	91.64
2wji_A	165	Ferrous iron transport protein B homolog; membrane	91.63
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	91.62
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	91.61
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	91.59
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	91.58
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	91.56
1sgw_A	214	Putative ABC transporter; structural genomics, P p	91.49
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	91.49
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	91.44
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	91.43
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	91.41
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	91.39
2ghi_A	260	Transport protein; multidrug resistance protein, M	91.33
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	91.29
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	91.29
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	91.25
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	91.23
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	91.23
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	91.22
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	91.21
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	91.2
3end_A	307	Light-independent protochlorophyllide reductase ir	91.16
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	91.1
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	91.09
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	91.05
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	91.03
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	91.02
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	90.9
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	90.86
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	90.74
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	90.74
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	90.72
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	90.72
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	90.66
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	90.66
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	90.64
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	90.61
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	90.6
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	90.53
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	90.53
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	90.5
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	90.47
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	90.44
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	90.38
3kta_A	182	Chromosome segregation protein SMC; structural mai	90.37
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	90.36
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	90.36
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	90.35
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	90.34
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	90.33
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	90.31
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	90.27
1nrj_B	218	SR-beta, signal recognition particle receptor beta	90.27
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	90.23
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	90.23
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	90.23
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	90.22
2ewv_A	372	Twitching motility protein PILT; pilus retraction	90.2
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	90.17
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	90.16
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	90.14
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	90.14
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	90.12
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	90.09
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	90.07
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	90.06
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	90.04
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	90.04
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	90.02
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	90.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	90.0
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	89.94
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	89.94
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	89.93
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	89.87
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	89.87
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	89.82
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	89.82
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	89.75
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	89.72
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	89.7
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	89.68
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	89.68
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	89.64
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	89.61
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	89.6
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	89.56
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	89.54
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	89.51
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	89.51
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	89.5
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	89.47
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	89.4
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	89.39
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	89.38
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	89.36
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	89.34
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	89.34
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	89.33
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	89.33
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	89.3
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	89.28
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	89.23
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	89.21
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	89.19
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	89.19
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	89.18
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	89.14
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	89.14
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	89.14
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	89.1
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	89.1
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	89.09
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	89.08
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.06
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	89.05
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	89.03
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	88.97
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	88.96
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	88.88
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	88.84
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	88.83
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	88.83
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	88.82
2fh5_B	214	SR-beta, signal recognition particle receptor beta	88.81
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	88.8
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	88.79
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	88.77
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	88.76
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	88.74
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	88.72
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	88.71
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	88.59
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	88.58
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	88.57
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	88.56
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	88.56
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	88.5
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	88.49
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	88.48
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	88.45
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	88.45
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	88.42
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	88.37
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	88.34
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	88.29
3llu_A	196	RAS-related GTP-binding protein C; structural geno	88.27
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	88.16
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	88.15
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	88.1
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	88.09
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	88.07
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	88.07
1p9r_A	418	General secretion pathway protein E; bacterial typ	88.05
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	88.03
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	88.01
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	87.99
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	87.92
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	87.85
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	87.81
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	87.69
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	87.68
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	87.67
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	87.67
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	87.64
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	87.63
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	87.61
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	87.61
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	87.58
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	87.58
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	87.56
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	87.56
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	87.56
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	87.54
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	87.54
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	87.53
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	87.48
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	87.47
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	87.47
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	87.45
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	87.44
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	87.37
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	87.36
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	87.35
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	87.29
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	87.23
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	87.2
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	87.19
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	87.03
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	86.91
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	86.85
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	86.85
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	86.85
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	86.84
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	86.75
3cwq_A	209	Para family chromosome partitioning protein; alpha	86.68
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	86.64
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	86.59
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	86.59
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	86.55
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	86.52
3ice_A	422	Transcription termination factor RHO; transcriptio	86.48
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	86.32
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	86.26
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	86.22
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	86.14
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	86.13
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	86.11
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	86.11
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	86.03
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	85.96
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	85.95
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	85.94
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	85.94
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	85.9
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	85.9
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	85.89

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana}

Probab=100.00  E-value=5e-48  Score=341.95  Aligned_cols=173  Identities=44%  Similarity=0.714  Sum_probs=143.6

Q ss_pred             CCCCCCceeEEEcccccccCcchHHHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccchhhH
Q 041795            5 SFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCL   84 (471)
Q Consensus         5 ~~~~~~~~dvFiS~~~~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~   84 (471)
                      |++..++|||||||+|+|+|++|++||+.+|+++||++|+|++++++|+.|.++|.+||++|+++|+|||+||++|+||+
T Consensus         2 sss~~~~yDVFiSfrg~D~r~~Fv~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~l~~aIe~Sri~IvV~S~ny~~S~WCl   81 (176)
T 3jrn_A            2 SSHTATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENYAASSWCL   81 (176)
T ss_dssp             -----CCEEEEEEECHHHHTTTHHHHHHHHHHHTTCCEECCCC--------------CCTTEEEEEEEECTTTTTCHHHH
T ss_pred             CCCCCCCCeEEEECcCcccChHHHHHHHHHHHHCCCEEEEEcccccCCCchHHHHHHHHHhCCEEEEEecCCcCCChhHH
Confidence            34456899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcCCCeEEeEEeecCCCcccccCCchHHHHHHHHhhh-HHHHHHHHHHHhhccccCCCCCCCchhhhHHH
Q 041795           85 HELVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQM-AEKVQKWRDALTEASNLSGWNSMTIRSEAELV  163 (471)
Q Consensus        85 ~El~~~~~~~~~~~~~viPif~~v~ps~vr~q~~~~~~~f~~~~~~~-~~~v~~w~~al~~~~~~~g~~~~~~~~e~~~i  163 (471)
                      +||++|++|.++.++.|+||||+|+|++||+|+|+||++|.+|+.+. .+++++||.||+++++++|+++.  ..|+++|
T Consensus        82 ~EL~~i~~~~~~~~~~ViPIfy~V~ps~Vr~q~g~fg~af~~~~~~~~~~~~~~Wr~AL~~va~~~G~~~~--~~e~~~i  159 (176)
T 3jrn_A           82 DELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASREDPEKVLKWRQALTNFAQLSGDCSG--DDDSKLV  159 (176)
T ss_dssp             HHHHHHHHHHHTTSCEEEEEECSSCHHHHHHTCTHHHHHHHHHHTTSCHHHHHHHHHHHHHHTTSCCEECC--SCHHHHH
T ss_pred             HHHHHHHhhhccCCCEEEEEEecCCHHHhhhccCcHHHHHHHHHhccCHHHHHHHHHHHHHHhcccceecC--CCHHHHH
Confidence            99999999998889999999999999999999999999999999874 45699999999999999999984  4599999


Q ss_pred             HHHHHhhhhccccccc
Q 041795          164 DVIVKDILKKLENITV  179 (471)
Q Consensus       164 ~~i~~~v~~~l~~~~~  179 (471)
                      ++|+++|+++++.+++
T Consensus       160 ~~Iv~~v~~~l~~~~~  175 (176)
T 3jrn_A          160 DKIANEISNKKTIYAT  175 (176)
T ss_dssp             HHHHHHHHTTCC----
T ss_pred             HHHHHHHHHHhcCCCC
Confidence            9999999999876654

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum}

Probab=100.00  E-value=4.5e-48  Score=347.34  Aligned_cols=175  Identities=42%  Similarity=0.755  Sum_probs=159.7

Q ss_pred             CCCCCCCCCceeEEEcccccccCcchHHHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccch
Q 041795            2 ASTSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSK   81 (471)
Q Consensus         2 ~~~~~~~~~~~dvFiS~~~~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~   81 (471)
                      +||++++.++|||||||+|+|+|++|++||+.+|+++||++|+|++++++|+.|.++|.+||++|+++|+|||++|++|.
T Consensus        26 ~~s~~~~~~~yDVFISfrg~D~r~~Fv~~L~~aL~~~GI~~f~D~~el~~G~~I~~~l~~aIe~Sri~IvV~S~nYa~S~  105 (204)
T 3ozi_A           26 NPSGSFPSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGYADSK  105 (204)
T ss_dssp             --------CCCCEEEEECHHHHTTTHHHHHHHHHHHTTCCEEEEETTTCCGGGTTTTHHHHHHHCSEEEEEECTTGGGCH
T ss_pred             CCcCCCCCcCCeEEEeccccCCCHHHHHHHHHHHHHCCCcEEEeCCccCCCCchHHHHHHHHHhCcEeeEEEEcccccCc
Confidence            34456678999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhhhc-CCCeEEeEEeecCCCcccccCCchHHHHHHHHhhhH-HHHHHHHHHHhhccccCCCCCCCchhh
Q 041795           82 WCLHELVKILECKST-NGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHKKQMA-EKVQKWRDALTEASNLSGWNSMTIRSE  159 (471)
Q Consensus        82 wc~~El~~~~~~~~~-~~~~viPif~~v~ps~vr~q~~~~~~~f~~~~~~~~-~~v~~w~~al~~~~~~~g~~~~~~~~e  159 (471)
                      ||++||++|++|.++ .++.||||||+|+|++||+|+|+||++|.+|+.++. +++++||.||+++++++|+++.++..+
T Consensus       106 WCl~EL~~I~e~~~~~~~~~ViPIFY~VdPs~Vr~q~g~fg~af~~~~~~~~~~~v~~Wr~AL~~va~lsG~~~~~~~~e  185 (204)
T 3ozi_A          106 WCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFDGQTIQNWKDALKKVGDLKGWHIGKNDKQ  185 (204)
T ss_dssp             HHHHHHHHHHHHHHHCTTSEECCEEESSCHHHHHHTCTTHHHHHHHHTTTSCHHHHHHHHHHHHHHHTSCBEEECTTSCH
T ss_pred             HHHHHHHHHHHHHHhcCCeeeEEEEeecCHHHHHhccccHHHHHHHHHHhhCHHHHHHHHHHHHHHhccCceecCCCCCH
Confidence            999999999999864 578999999999999999999999999999998874 459999999999999999999998889


Q ss_pred             hHHHHHHHHhhhhcccc
Q 041795          160 AELVDVIVKDILKKLEN  176 (471)
Q Consensus       160 ~~~i~~i~~~v~~~l~~  176 (471)
                      ++++++|+.+|+.+++.
T Consensus       186 ~~~i~~Iv~di~~kl~~  202 (204)
T 3ozi_A          186 GAIADKVSADIWSHISK  202 (204)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc
Confidence            99999999999988764

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=5e-37  Score=325.00  Aligned_cols=251  Identities=15%  Similarity=0.151  Sum_probs=196.3

Q ss_pred             cccchhHHHHHHhhhcC-CCCceEEEEeccCcchhhhHHHHHHH----hhhccccceEeeehhhhh--------------
Q 041795          187 VGLNSRIEKIKSLLCIG-RPDFRIVGIWGMGGTGKTTLAGAIFN----LIYKEFEGNCFLGNVREE--------------  247 (471)
Q Consensus       187 vGr~~~~~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~v~~----~~~~~f~~~~~~~~~~~~--------------  247 (471)
                      +||+.++++|.++|..+ ..+.++|+|+||||+||||||+++|+    .+..+|++++|++.....              
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~  210 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  210 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHH
Confidence            59999999999999754 44689999999999999999999997    588999999998643310              


Q ss_pred             ---------------------h--------hc-C---cccccCCHhhHHHHhcCCCCCCCCcEEEEEeCChhhhhhhCcC
Q 041795          248 ---------------------S--------EK-G---VLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVH  294 (471)
Q Consensus       248 ---------------------~--------~~-~---VLDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~~~~~  294 (471)
                                           .        .+ .   ||||||+.+++ .+..     .+||+||||||++.++..++. 
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~~-----~~gs~ilvTTR~~~v~~~~~~-  283 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWAQ-----ELRLRCLVTTRDVEISNAASQ-  283 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHHH-----HTTCEEEEEESBGGGGGGCCS-
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-cccc-----cCCCEEEEEcCCHHHHHHcCC-
Confidence                                 0        00 0   99999998865 3321     279999999999999987752 


Q ss_pred             CCceEEeCCCCHHHHHHHHHhccccCCCCCchHHHHHHHH----------HHHHhhhhcCCCHHHHHHHHHH-hcCCCCC
Q 041795          295 DTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRV----------LKVLGSFFHRKSKLDWEKALEN-ISRISDP  363 (471)
Q Consensus       295 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~l~~~i----------l~~lg~~L~~~~~~~w~~~l~~-l~~~~~~  363 (471)
                      ...+|+|++|+.++|++||.+++|.... .+.+.+++.+|          ++++|+.|+.++ .+|...+.. +......
T Consensus       284 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~-w~~~~~l~~~l~~~~~~  361 (549)
T 2a5y_B          284 TCEFIEVTSLEIDECYDFLEAYGMPMPV-GEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNNKLESRGLV  361 (549)
T ss_dssp             CEEEEECCCCCHHHHHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHHHHHHHCSS
T ss_pred             CCeEEECCCCCHHHHHHHHHHHhcCCCC-chhHHHHHHHHHHHhCCChHHHHHHHHHhccch-HHHHHHhHHHhhcccHH
Confidence            1467999999999999999999986543 35666666666          888888888774 334333332 3322456


Q ss_pred             chHhHHHhhccCCChhHHHHHc-----------ccccccCCCCHHHHHHhhccc----C-----------ccchHHHHhh
Q 041795          364 DIYDVLKISYNDLSLEEKSIFL-----------DIACFFAGEEKDYVTRMLDPN----F-----------PHNGLNILIA  417 (471)
Q Consensus       364 ~i~~~l~~Sy~~L~~~~k~~fl-----------~ls~Fp~~~~~~~l~~lw~~~----~-----------~~~~l~~L~~  417 (471)
                      .+..+|.+||+.||++.|.||+           |||+||+++...  +.+|++.    .           ...++++|++
T Consensus       362 ~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~L~~  439 (549)
T 2a5y_B          362 GVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVADRLKRLSK  439 (549)
T ss_dssp             TTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHHHHHHTTT
T ss_pred             HHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHHHHHHHHH
Confidence            7999999999999999999999           999999998766  6778762    1           1238999999


Q ss_pred             CCCeeecCC---CeEEecHHHHHHHHHHHHhhcc
Q 041795          418 KSLVTVSND---NKIQMHDLLQEMGREVVRQECI  448 (471)
Q Consensus       418 ~sLi~~~~~---~~~~mHdlv~~~a~~i~~~e~~  448 (471)
                      +|||+....   .+|+||||||++|++++.+++.
T Consensus       440 rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~~  473 (549)
T 2a5y_B          440 RGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQTI  473 (549)
T ss_dssp             BSSCSEEECSSSCEEECCHHHHHHHHTTSCTHHH
T ss_pred             cCCeeEecCCCceEEEeChHHHHHHHHHHHHHHH
Confidence            999997543   4699999999999998877664

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=100.00  E-value=6.4e-34  Score=327.82  Aligned_cols=255  Identities=21%  Similarity=0.256  Sum_probs=205.4

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh---hhcccc-ceEeeehhhhhh---------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL---IYKEFE-GNCFLGNVREES---------  248 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~---~~~~f~-~~~~~~~~~~~~---------  248 (471)
                      ....||||++++++|.++|....+++++|+|+||||+||||||+++|++   ...+|. .++|+.......         
T Consensus       122 ~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  201 (1249)
T 3sfz_A          122 RPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQN  201 (1249)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHH
T ss_pred             CCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHH
Confidence            5677999999999999999866677999999999999999999999987   355565 455765222000         


Q ss_pred             ---------------------------------h-c--CcccccCCHhhHHHHhcCCCCCCCCcEEEEEeCChhhhhh-h
Q 041795          249 ---------------------------------E-K--GVLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDK-F  291 (471)
Q Consensus       249 ---------------------------------~-~--~VLDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~-~  291 (471)
                                                       . +  -||||||+..+|+.+       ++||+||||||++.++.. .
T Consensus       202 ~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~~  274 (1249)
T 3sfz_A          202 LCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSVM  274 (1249)
T ss_dssp             HHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTCC
T ss_pred             HHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhhc
Confidence                                             0 0  099999998877654       579999999999998854 3


Q ss_pred             CcCCCceEEeCC-CCHHHHHHHHHhccccCC-CCCchHHHHHHHH------HHHHhhhhcCCCHHHHHHHHHHhcCCCC-
Q 041795          292 GVHDTNVYEVNG-LRYHEALELFCNCAFKEN-HCPSGFLASSKRV------LKVLGSFFHRKSKLDWEKALENISRISD-  362 (471)
Q Consensus       292 ~~~~~~~~~l~~-L~~~ea~~Lf~~~a~~~~-~~~~~~~~l~~~i------l~~lg~~L~~~~~~~w~~~l~~l~~~~~-  362 (471)
                      +.  ...+++++ |+.+||++||...++... ...+...+|++++      ++.+|++|+.+. ..|..+++.+..... 
T Consensus       275 ~~--~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~~~  351 (1249)
T 3sfz_A          275 GP--KHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFK  351 (1249)
T ss_dssp             SC--BCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCCCC
T ss_pred             CC--ceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhhhh
Confidence            33  67899996 999999999999885433 2234455666666      899999998765 468888888754321 


Q ss_pred             ----------CchHhHHHhhccCCChhHHHHHcccccccCCC--CHHHHHHhhcc--cCccchHHHHhhCCCeeecCCCe
Q 041795          363 ----------PDIYDVLKISYNDLSLEEKSIFLDIACFFAGE--EKDYVTRMLDP--NFPHNGLNILIAKSLVTVSNDNK  428 (471)
Q Consensus       363 ----------~~i~~~l~~Sy~~L~~~~k~~fl~ls~Fp~~~--~~~~l~~lw~~--~~~~~~l~~L~~~sLi~~~~~~~  428 (471)
                                ..+..+|.+||+.|++++|.||++||+||+++  +.+.++.+|.+  ..+..+++.|+++|||+...++.
T Consensus       352 ~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~~~~~~~l~~L~~~sl~~~~~~~~  431 (1249)
T 3sfz_A          352 RIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGK  431 (1249)
T ss_dssp             CSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSCEEEESSS
T ss_pred             hcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCCHHHHHHHHHHHHhccceEEecCCC
Confidence                      24899999999999999999999999999985  77899999987  66788999999999999876654


Q ss_pred             ---EEecHHHHHHHHHHHHhh
Q 041795          429 ---IQMHDLLQEMGREVVRQE  446 (471)
Q Consensus       429 ---~~mHdlv~~~a~~i~~~e  446 (471)
                         |+||||||++|++.+.+|
T Consensus       432 ~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          432 SFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             SEEEECCHHHHHHHHHHTGGG
T ss_pred             ceEEEecHHHHHHHHhhhhHH
Confidence               999999999999997766

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.98  E-value=5.1e-33  Score=301.62  Aligned_cols=258  Identities=16%  Similarity=0.091  Sum_probs=195.4

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh--hhccccc-eEeeehhh------------h--
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL--IYKEFEG-NCFLGNVR------------E--  246 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~--~~~~f~~-~~~~~~~~------------~--  246 (471)
                      +..|||+.++++|.++|... ++.++|+|+||||+||||||+++|++  +..+|+. ++|+....            .  
T Consensus       128 k~~VGRe~eLeeL~elL~~~-d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL  206 (1221)
T 1vt4_I          128 KYNVSRLQPYLKLRQALLEL-RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL  206 (1221)
T ss_dssp             CSCCCCHHHHHHHHHHHHHC-CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHhcc-CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34599999999999999743 34899999999999999999999974  7888997 77865210            0  


Q ss_pred             --h-------------------------hh-----cC-----cccccCCHhhHHHHhcCCCCCCCCcEEEEEeCChhhhh
Q 041795          247 --E-------------------------SE-----KG-----VLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILD  289 (471)
Q Consensus       247 --~-------------------------~~-----~~-----VLDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~  289 (471)
                        .                         ..     .+     ||||||+.++|+.+.       +||+||||||++.++.
T Consensus       207 ~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~  279 (1221)
T 1vt4_I          207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTD  279 (1221)
T ss_dssp             HHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHH
T ss_pred             hhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHH
Confidence              0                         00     01     999999999998762       6899999999999886


Q ss_pred             hhCcCCCceEEeC------CCCHHHHHHHHHhccccCCCCCchHHHHHHHH---HHHHhhhhcCC--CHHHHHHHHHHhc
Q 041795          290 KFGVHDTNVYEVN------GLRYHEALELFCNCAFKENHCPSGFLASSKRV---LKVLGSFFHRK--SKLDWEKALENIS  358 (471)
Q Consensus       290 ~~~~~~~~~~~l~------~L~~~ea~~Lf~~~a~~~~~~~~~~~~l~~~i---l~~lg~~L~~~--~~~~w~~~l~~l~  358 (471)
                      .+..  ...|+|+      +|+.+||++||++. ++.. ......+++..+   ++++|+.|+++  +..+|...     
T Consensus       280 ~l~g--~~vy~LeL~d~dL~LS~eEA~eLF~~~-~g~~-~eeL~~eICgGLPLALkLaGs~Lr~k~~s~eeW~~~-----  350 (1221)
T 1vt4_I          280 FLSA--ATTTHISLDHHSMTLTPDEVKSLLLKY-LDCR-PQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV-----  350 (1221)
T ss_dssp             HHHH--HSSCEEEECSSSSCCCHHHHHHHHHHH-HCCC-TTTHHHHHCCCCHHHHHHHHHHHHHSCSSHHHHHHC-----
T ss_pred             hcCC--CeEEEecCccccCCcCHHHHHHHHHHH-cCCC-HHHHHHHHhCCCHHHHHHHHHHHhCCCCCHHHHhcC-----
Confidence            5443  3467777      99999999999988 3332 111222222222   89999999887  68888653     


Q ss_pred             CCCCCchHhHHHhhccCCChhH-HHHHcccccccCCC--CHHHHHHhhccc---CccchHHHHhhCCCeeecC-CCeEEe
Q 041795          359 RISDPDIYDVLKISYNDLSLEE-KSIFLDIACFFAGE--EKDYVTRMLDPN---FPHNGLNILIAKSLVTVSN-DNKIQM  431 (471)
Q Consensus       359 ~~~~~~i~~~l~~Sy~~L~~~~-k~~fl~ls~Fp~~~--~~~~l~~lw~~~---~~~~~l~~L~~~sLi~~~~-~~~~~m  431 (471)
                        ....+..+|++||+.||+++ |+||++||+||+++  +.+.++.+|++.   .+..++++|+++|||+... .+.|+|
T Consensus       351 --~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq~d~~~~rYrM  428 (1221)
T 1vt4_I          351 --NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI  428 (1221)
T ss_dssp             --SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSSBCSSSSEEBC
T ss_pred             --ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEEEeCCCCEEEe
Confidence              34679999999999999999 99999999999876  567899999873   4678999999999999863 467999


Q ss_pred             cHHHHHHHHHHHHhhccCCCCCcccccccchHHH
Q 041795          432 HDLLQEMGREVVRQECIKEPGKRSRLWYHEDVYH  465 (471)
Q Consensus       432 Hdlv~~~a~~i~~~e~~~~~~~~~rl~~~~d~~~  465 (471)
                      |||+++++..     ..+.+..++|+.++-+...
T Consensus       429 HDLllELr~~-----~~e~~alHrRLvd~Y~~~~  457 (1221)
T 1vt4_I          429 PSIYLELKVK-----LENEYALHRSIVDHYNIPK  457 (1221)
T ss_dssp             CCHHHHHHHH-----HSCCTTHHHHHHHHHHHHH
T ss_pred             hHHHHHHhcC-----CCcHHHHHHHHHHHHHhhC
Confidence            9999885521     1234455556555544433

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.97  E-value=2e-31  Score=284.80  Aligned_cols=278  Identities=20%  Similarity=0.240  Sum_probs=211.9

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh---hcccc-ceEeeehhhh--------h--
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI---YKEFE-GNCFLGNVRE--------E--  247 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~---~~~f~-~~~~~~~~~~--------~--  247 (471)
                      .+..||||+.++++|.++|....++.++|+|+||||+||||||.+++++.   ..+|. .++|+.....        .  
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~~~~l~~  201 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQN  201 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHHHHHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHHHHHHHH
Confidence            56779999999999999998655568999999999999999999999864   67895 6888652110        0  


Q ss_pred             ----hh----------------------------c---CcccccCCHhhHHHHhcCCCCCCCCcEEEEEeCChhhhhhhC
Q 041795          248 ----SE----------------------------K---GVLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFG  292 (471)
Q Consensus       248 ----~~----------------------------~---~VLDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~~~  292 (471)
                          ..                            +   -||||||+..+++.+       ++|++||||||++.++..+.
T Consensus       202 l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~~~  274 (591)
T 1z6t_A          202 LCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVM  274 (591)
T ss_dssp             HHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTTCC
T ss_pred             HHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHhcC
Confidence                00                            0   089999997766543       57899999999999876543


Q ss_pred             cCCCceEEe---CCCCHHHHHHHHHhccccCC-CCCchHHHHHHHH------HHHHhhhhcCCCHHHHHHHHHHhcCCC-
Q 041795          293 VHDTNVYEV---NGLRYHEALELFCNCAFKEN-HCPSGFLASSKRV------LKVLGSFFHRKSKLDWEKALENISRIS-  361 (471)
Q Consensus       293 ~~~~~~~~l---~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~l~~~i------l~~lg~~L~~~~~~~w~~~l~~l~~~~-  361 (471)
                         ...+++   ++|+.+|+++||...++... ..++...++++.+      ++.+|..|+.+. ..|...++.+.... 
T Consensus       275 ---~~~~~v~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~~~  350 (591)
T 1z6t_A          275 ---GPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQF  350 (591)
T ss_dssp             ---SCEEEEECCSSCCHHHHHHHHHHHHTSCGGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSCCC
T ss_pred             ---CCceEeecCCCCCHHHHHHHHHHHhCCCcccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHhHH
Confidence               345666   48999999999999886422 2234556666666      888898887653 36888888875432 


Q ss_pred             ----------CCchHhHHHhhccCCChhHHHHHcccccccCCC--CHHHHHHhhcc--cCccchHHHHhhCCCeeecCCC
Q 041795          362 ----------DPDIYDVLKISYNDLSLEEKSIFLDIACFFAGE--EKDYVTRMLDP--NFPHNGLNILIAKSLVTVSNDN  427 (471)
Q Consensus       362 ----------~~~i~~~l~~Sy~~L~~~~k~~fl~ls~Fp~~~--~~~~l~~lw~~--~~~~~~l~~L~~~sLi~~~~~~  427 (471)
                                ...+..+|..||+.||++.|.||++||+||.+.  +.+.+..+|..  ..+..+++.|+++|||+...++
T Consensus       351 ~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~~~~~~~~l~~L~~~~Ll~~~~~~  430 (591)
T 1z6t_A          351 KRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLLFCDRNG  430 (591)
T ss_dssp             CCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSSEEEEET
T ss_pred             HHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccCHHHHHHHHHHHHhCcCeEEecCC
Confidence                      135889999999999999999999999999874  66889999987  4567899999999999975432


Q ss_pred             ---eEEecHHHHHHHHHHHHhh-------------------ccCCCCCcccccccchHHHHhhcC
Q 041795          428 ---KIQMHDLLQEMGREVVRQE-------------------CIKEPGKRSRLWYHEDVYHVLKKN  470 (471)
Q Consensus       428 ---~~~mHdlv~~~a~~i~~~e-------------------~~~~~~~~~rl~~~~d~~~~l~~~  470 (471)
                         .|.||+|+|+++++....+                   ....++....+|+...+.|++.-+
T Consensus       431 ~~~~~~~H~lv~~~~~~~~~~~~~~~h~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~~~a~  495 (591)
T 1z6t_A          431 KSFRYYLHDLQVDFLTEKNCSQLQDLHKKIITQFQRYHQPHTLSPDQEDCMYWYNFLAYHMASAK  495 (591)
T ss_dssp             TEEEEECCHHHHHHHHHHTGGGHHHHHHHHHHHHTTTCCGGGCCTTSTTHHHHHHHHHHHHHHTT
T ss_pred             CccEEEEcHHHHHHHHhhhhhHHHHHHHHHHHHHHhhcCCCCCCCCCCCEEeehhhHHHHHHhcC
Confidence               5999999999998872211                   122344566677777888876543

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222}

Probab=99.96  E-value=1.4e-31  Score=235.32  Aligned_cols=119  Identities=19%  Similarity=0.367  Sum_probs=111.1

Q ss_pred             CCCCceeEEEcccccccCcchHHHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccchhhHHH
Q 041795            7 SSSSKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHE   86 (471)
Q Consensus         7 ~~~~~~dvFiS~~~~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~E   86 (471)
                      ++.++|||||||+++| +..|+.+|+.+|+++|+++|+|++++.+|+.+.++|.++|++|+++|+|+|++|++|.||++|
T Consensus        16 ~~~~~~dvFISy~~~D-~~~~~~~L~~~L~~~gi~v~~D~~~l~~G~~~~~~i~~ai~~s~~~i~v~S~~y~~S~wc~~E   94 (154)
T 3h16_A           16 TSAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIVVLSTHFFKKEWPQKE   94 (154)
T ss_dssp             --CCSEEEEEEEEGGG-TTTTHHHHHHHHHHHTCCEECGGGEECTTCCHHHHHHHHHTSEEEEEEEEEHHHHTTCCCHHH
T ss_pred             CCCCCceEEEECcccC-hHHHHHHHHHHHHHCCCcEEEcHHhCCCccHHHHHHHHHHHhCcEEEEEeCcchhcChHHHHH
Confidence            3568999999999999 557999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhcCCCeEEeEEeecCCCcccccCCchHHHHHH
Q 041795           87 LVKILECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDAFVK  126 (471)
Q Consensus        87 l~~~~~~~~~~~~~viPif~~v~ps~vr~q~~~~~~~f~~  126 (471)
                      |..++++...++..|+||||+|+|++||+|.|.|+++|..
T Consensus        95 l~~~~~~~~~~~~~iiPV~~~v~p~~v~~~~~~~~~~~~~  134 (154)
T 3h16_A           95 LDGLFQLESSGRSRILPIWHKVSKDEVASFSPTMADKLAF  134 (154)
T ss_dssp             HHHHTCCCTTSCCCEEEEEESCCTGGGTTTCCCCCSSCCE
T ss_pred             HHHHHHHHhcCCCEEEEEEecCCHHHHhhCCccHHHHHhh
Confidence            9999998877778999999999999999999999987754

>3ub2_A TOLL/interleukin-1 receptor domain-containing ADA protein; TIR domain, TLRS adaptor, immune system; 2.40A {Homo sapiens} PDB: 3ub3_A 3ub4_A 2y92_A

Probab=99.93  E-value=4.1e-27  Score=204.03  Aligned_cols=138  Identities=17%  Similarity=0.230  Sum_probs=93.1

Q ss_pred             CCCCCCCCceeEEEcccccccCcchHHHHHHHHHh--CCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccc
Q 041795            3 STSFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCR--KKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASS   80 (471)
Q Consensus         3 ~~~~~~~~~~dvFiS~~~~D~~~~f~~~l~~~L~~--~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S   80 (471)
                      |+|....+.|||||||+++|  ..|+.+|+.+|++  .|+++|++++++.||+++.++|.++|++|+++|+|+|++|++|
T Consensus         2 ~~~~r~~k~YDvFISy~~~D--~~~v~~L~~~Le~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~I~VlS~~y~~S   79 (146)
T 3ub2_A            2 PGSSRWSKDYDVCVCHSEED--LVAAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALSSSHCRVLLITPGFLQD   79 (146)
T ss_dssp             --CCTTSSSEEEEEECCGGG--HHHHHHHHHHHHC------------------CCCEEECCTTCCEEEEEEEECHHHHHC
T ss_pred             CCCCCCCCcceEEEeCChhh--HHHHHHHHHHHhCcCCCeEEEEECccccccccHHHHHHHHHHhCCEEEEEECcccccC
Confidence            44566778999999999999  4579999999998  5999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhhhcCCCeEEeEEeecCCCcc----cccCCchHHHHHHHHhhhHHHHHHHHHHH
Q 041795           81 KWCLHELVKILECKSTNGQIVVPVFYHVDPSDV----RKQTGSFRDAFVKHKKQMAEKVQKWRDAL  142 (471)
Q Consensus        81 ~wc~~El~~~~~~~~~~~~~viPif~~v~ps~v----r~q~~~~~~~f~~~~~~~~~~v~~w~~al  142 (471)
                      .||..|+..|+.+......+||||||+|+++++    +.....-.......-.+..+.|.+|+++|
T Consensus        80 ~wc~~El~~al~~~~~~~~~vIpv~~~v~~~~lp~~Lr~~~~id~~~~d~~f~~l~~~v~~~~~~~  145 (146)
T 3ub2_A           80 PWCKYQMLQALTEAPGAEGCTIPLLSGLSRAAYPPELRFMYYVDGRGPDGGFRQVKEAVMRYLQTL  145 (146)
T ss_dssp             HHHHHHHHHHHHTSSSSSSEEEEEECSCCGGGSCGGGGGSCCEETTSGGGGHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhhcCCcEEEEEcCCChhhCCHHHhCeeeeeccChHhhHHHHHHHHHHHHHhc
Confidence            999999999999874344478899999986554    43332111111111223445588887764

>2js7_A Myeloid differentiation primary response protein MYD88; MYD88_human, TIR domain, TOLL like receptor adaptor domain, innate immune signaling; NMR {Homo sapiens} PDB: 2z5v_A

Probab=99.88  E-value=1.4e-23  Score=184.83  Aligned_cols=105  Identities=16%  Similarity=0.251  Sum_probs=93.9

Q ss_pred             CCCCCCceeEEEcccccccCcchHHHHHHHHHhC--CcceeecCCCCCCCCCCcHHHHHHhh-hcceEEEEEccCcccch
Q 041795            5 SFSSSSKYDVSLSFRGGDTRDNFTSHLYAALCRK--KIKTFINGDEIRRGDDISPALFTAIQ-GSKISVIVLSKHYASSK   81 (471)
Q Consensus         5 ~~~~~~~~dvFiS~~~~D~~~~f~~~l~~~L~~~--g~~~~~d~~~~~~g~~~~~~i~~~i~-~s~~~i~v~S~~y~~S~   81 (471)
                      .....+.|||||||+++|  ..|+.+|+.+|+++  |+++|+|++++.||+++.++|.++|+ +|+++|+|+|++|++|.
T Consensus        10 ~~~~~~~yDvFISys~~D--~~fv~~L~~~Le~~~~g~~~~~~~rd~~~G~~i~~~i~~~I~~~Sr~~IvVlS~~y~~S~   87 (160)
T 2js7_A           10 LGHMPERFDAFICYCPSD--IQFVQEMIRQLEQTNYRLKLCVSDRDVLPGTCVWSIASELIEKRCRRMVVVVSDDYLQSK   87 (160)
T ss_dssp             TSCCTTCEEEEEECCGGG--HHHHHHHHHHHHTSSSCCCCEESCCSSSSSCSCCCCCGGGHHHHEEEEEEECCHHHHHSH
T ss_pred             CCCCCcceEEEEEccccc--HHHHHHHHHHHhcCCCceEEEEeCCCCCCCCcHHHHHHHHHHHhCCEEEEEECcchhcCH
Confidence            344568899999999999  77999999999985  69999999999999999999999999 79999999999999999


Q ss_pred             hhHHHHHHHHHhh-hcCCCeEEeEEeecCCC
Q 041795           82 WCLHELVKILECK-STNGQIVVPVFYHVDPS  111 (471)
Q Consensus        82 wc~~El~~~~~~~-~~~~~~viPif~~v~ps  111 (471)
                      ||..|+..|+.+. .+.+.+||||||...+.
T Consensus        88 wc~~El~~a~~~~~~~~~~~vIpV~~~~~~~  118 (160)
T 2js7_A           88 ECDFQTKFALSLSPGAHQKRLIPIKYKAMKK  118 (160)
T ss_dssp             HHHHHHHHHHHHCTTHHHHTEEEEESSCCCC
T ss_pred             HHHHHHHHHHHHHHccCCCEEEEEEEcccch
Confidence            9999999999876 33456899999987643

>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity, immune response, leucine-rich repeat, glycoprotein, transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A

Probab=99.86  E-value=3.7e-23  Score=184.95  Aligned_cols=103  Identities=18%  Similarity=0.322  Sum_probs=88.6

Q ss_pred             CCCCCceeEEEcccccccCcchHHH-HHHHHHh--CCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccchh
Q 041795            6 FSSSSKYDVSLSFRGGDTRDNFTSH-LYAALCR--KKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKW   82 (471)
Q Consensus         6 ~~~~~~~dvFiS~~~~D~~~~f~~~-l~~~L~~--~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~w   82 (471)
                      ....+.|||||||+++|  .+|+.+ |+++|++  +|+++|+|++++.||+++.++|.++|++|+++|+|+||+|++|.|
T Consensus        30 ~~~~~~yDvFISys~~D--~~fv~~~L~~~LE~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~IvVlS~~yl~S~w  107 (178)
T 2j67_A           30 LKRNVRFHAFISYSEHD--SLWVKNELIPNLEKEDGSILICLYESYFDPGKSISENIVSFIEKSYKSIFVLSPNFVQNEW  107 (178)
T ss_dssp             CCCSCCEEEEEECCGGG--HHHHHHTHHHHHTTCC-CCCEEEHHHHCCTTSCHHHHHHHHHHTEEEEEEEECHHHHHHTG
T ss_pred             cCCCccceEEEECCCCC--HHHHHHHHHHHHhcccCCeEEEEecccCCCCccHHHHHHHHHHhCCEEEEEecccccccch
Confidence            34667899999999999  579986 9999998  899999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhh-hcCCCeEEeEEeecCC
Q 041795           83 CLHELVKILECK-STNGQIVVPVFYHVDP  110 (471)
Q Consensus        83 c~~El~~~~~~~-~~~~~~viPif~~v~p  110 (471)
                      |..|+..|+.+. .+.+.+||||||...|
T Consensus       108 c~~El~~a~~~~~~~~~~~vIpV~~~~i~  136 (178)
T 2j67_A          108 CHYEFYFAHHNLFHENSDHIILILLEPIP  136 (178)
T ss_dssp             GGTHHHHTTCC-------CEEEEESSCCC
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEEEecCCC
Confidence            999999998654 4456789999987544

>1fyx_A TOLL-like receptor 2; beta-alpha-beta fold, signaling protein; 2.80A {Homo sapiens} SCOP: c.23.2.1 PDB: 1fyw_A 1o77_A

Probab=99.86  E-value=1.9e-23  Score=182.04  Aligned_cols=100  Identities=19%  Similarity=0.249  Sum_probs=90.3

Q ss_pred             CCCceeEEEcccccccCcchHHH-HHHHHHhC--CcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccchhhH
Q 041795            8 SSSKYDVSLSFRGGDTRDNFTSH-LYAALCRK--KIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCL   84 (471)
Q Consensus         8 ~~~~~dvFiS~~~~D~~~~f~~~-l~~~L~~~--g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~   84 (471)
                      .++.|||||||+++|  ..|+.+ |+++|+++  |+++|+|++++.||+++.++|.++|++|+++|+|+||+|++|.||.
T Consensus         2 ~~~~yDvFiSy~~~D--~~~v~~~L~~~Le~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~S~wc~   79 (149)
T 1fyx_A            2 RNIXYDAFVSYSERD--AYWVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEWXK   79 (149)
T ss_dssp             CSCCEEEEEECCGGG--HHHHHTHHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHTHH
T ss_pred             CCccceEEEECCccc--HHHHHHHHHHHHhcCCCCeEEeeccccCCCchhHHHHHHHHHHHcCEEEEEeCcchhccchHH
Confidence            457899999999999  479997 99999987  9999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh-hcCCCeEEeEEeecC
Q 041795           85 HELVKILECK-STNGQIVVPVFYHVD  109 (471)
Q Consensus        85 ~El~~~~~~~-~~~~~~viPif~~v~  109 (471)
                      .|+..|+.+. .+++.+||||||...
T Consensus        80 ~El~~a~~~~~~~~~~~vIpv~~~~i  105 (149)
T 1fyx_A           80 YELDFSHFRLFDENNDAAILILLEPI  105 (149)
T ss_dssp             HHSCCSCCTTCGGGTTCCEEEESSCC
T ss_pred             HHHHHHHHHHHhcCCCEEEEEEecCC
Confidence            9999988543 455678999998643

>1t3g_A X-linked interleukin-1 receptor accessory protein-like 1; TIR, IL-1RAPL, IL-1R, TLR, membrane protein; 2.30A {Homo sapiens}

Probab=99.85  E-value=3.6e-22  Score=175.60  Aligned_cols=102  Identities=21%  Similarity=0.271  Sum_probs=89.9

Q ss_pred             CceeEEEccccccc---------CcchHHHHHH-HHH-hCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcc
Q 041795           10 SKYDVSLSFRGGDT---------RDNFTSHLYA-ALC-RKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYA   78 (471)
Q Consensus        10 ~~~dvFiS~~~~D~---------~~~f~~~l~~-~L~-~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~   78 (471)
                      +.|||||||+++|+         +..|+.+|.. .|+ +.|+++|+|++|+.||+++.++|.++|++|+++|+|+|++|+
T Consensus         1 k~yDaFISy~~~D~~wv~~~~~~~~~fv~~ll~~~LE~~~g~~l~~~~rD~~~G~~i~~~i~~~I~~Sr~~IvVlS~~y~   80 (159)
T 1t3g_A            1 KDYDAYLSYTKVDPDQWNQETGEEERFALEILPDMLEKHYGYKLFIPDRDLIPTGTYIEDVARCVDQSKRLIIVMTPNYV   80 (159)
T ss_dssp             CCBSEEEECCCCC-------CCSHHHHHHTHHHHHHHHTSCCCEECHHHHCCCCTTHHHHHHHHHHTBSEEEEEECHHHH
T ss_pred             CCceEEEeCccccchhhhccchhhHHHHHHHHHHHHcCCCCeEEEEEcccccCccchHHHHHHHHHHcCEEEEEEccchh
Confidence            36999999999996         3568888665 699 799999999999999999999999999999999999999997


Q ss_pred             -cchhhHHHHHHHHHhh-hcCCCeEEeEEeecCCC
Q 041795           79 -SSKWCLHELVKILECK-STNGQIVVPVFYHVDPS  111 (471)
Q Consensus        79 -~S~wc~~El~~~~~~~-~~~~~~viPif~~v~ps  111 (471)
                       .|.||..|+..|+.+. .+++..||||++...+.
T Consensus        81 ~~S~wc~~El~~a~~~~~~~~~~~vI~I~~~~~~~  115 (159)
T 1t3g_A           81 VRRGWSIFELETRLRNMLVTGEIKVILIECSELRG  115 (159)
T ss_dssp             HTTTTHHHHHSHHHHHHHHTTSSEEEEEECSCCCS
T ss_pred             hcChHHHHHHHHHHHHHHhcCCCEEEEEEeccccc
Confidence             9999999999999887 56678999999775543

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.60  E-value=4.9e-16  Score=172.43  Aligned_cols=102  Identities=20%  Similarity=0.280  Sum_probs=92.1

Q ss_pred             CCCceeEEEcccccccCcchH-HHHHHHHHh-----CCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccch
Q 041795            8 SSSKYDVSLSFRGGDTRDNFT-SHLYAALCR-----KKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSK   81 (471)
Q Consensus         8 ~~~~~dvFiS~~~~D~~~~f~-~~l~~~L~~-----~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~   81 (471)
                      ..+.|||||||+++|  ..|| .+|...|+.     .|+++|++++|+.||+.+.++|.++|++|+++|+|+|++|+.|.
T Consensus       667 ~~~~yd~fisy~~~d--~~~v~~~l~~~Le~~~~~~~~~~~~~~~rd~~~G~~~~~~i~~~i~~sr~~i~vls~~~~~s~  744 (844)
T 3j0a_A          667 DMYKYDAYLCFSSKD--FTWVQNALLKHLDTQYSDQNRFNLCFEERDFVPGENRIANIQDAIWNSRKIVCLVSRHFLRDG  744 (844)
T ss_dssp             SCCCCSEEEECCSTT--HHHHHHTHHHHHHSTTTTTTCSCEECSSSSCCSSSCHHHHHHHHHHHSSEEEEEECTTHHHHT
T ss_pred             cceeccEEEEeeCCc--HHHHHHHHHHHHhhccccCCceEEEEEccccCCCchHHHHHHHHHHHhCeEEEEeccccccCh
Confidence            467899999999999  4677 779999985     58999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhh-hcCCCeEEeEEeecCCC
Q 041795           82 WCLHELVKILECK-STNGQIVVPVFYHVDPS  111 (471)
Q Consensus        82 wc~~El~~~~~~~-~~~~~~viPif~~v~ps  111 (471)
                      ||..|+..|+.+. ++++.+||||||+..|.
T Consensus       745 wc~~e~~~a~~~~~~~~~~~~i~i~~~~~~~  775 (844)
T 3j0a_A          745 WCLEAFSYAQGRCLSDLNSALIMVVVGSLSQ  775 (844)
T ss_dssp             STTHHHHHHHSCCCCSSCTTEEEEESSCCCS
T ss_pred             HHHHHHHHHHHHHHHhcCCcEEEEEeccCCh
Confidence            9999999998776 56678899999886654

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.19  E-value=2.6e-10  Score=112.45  Aligned_cols=238  Identities=15%  Similarity=0.131  Sum_probs=135.8

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhh----------------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVR----------------  245 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~----------------  245 (471)
                      .+..|+||+.++++|.+++..+    +++.|+|++|+|||||++++++...     .+|+....                
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~   80 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNERP-----GILIDCRELYAERGHITREELIKE   80 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHSS-----EEEEEHHHHHHTTTCBCHHHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHcC-----cEEEEeecccccccCCCHHHHHHH
Confidence            4567999999999999988743    6899999999999999999987631     22221100                


Q ss_pred             -----------------------------------------hhhh---c--CcccccCCHh---------hHHHHhcCCC
Q 041795          246 -----------------------------------------EESE---K--GVLDDVNKIG---------QLQYLTCGLD  270 (471)
Q Consensus       246 -----------------------------------------~~~~---~--~VLDdv~~~~---------~~~~l~~~~~  270 (471)
                                                               ....   .  -||||++...         .+..|.....
T Consensus        81 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~  160 (350)
T 2qen_A           81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYD  160 (350)
T ss_dssp             HHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHH
Confidence                                                     0000   0  1789996532         2233322211


Q ss_pred             CCCCCcEEEEEeCChhhhhhh----C----c--CCCceEEeCCCCHHHHHHHHHhccccCC-CCC-chHHHHHHHH----
Q 041795          271 RFGPGSRIIITTRDKWILDKF----G----V--HDTNVYEVNGLRYHEALELFCNCAFKEN-HCP-SGFLASSKRV----  334 (471)
Q Consensus       271 ~~~~gs~IiiTTR~~~v~~~~----~----~--~~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~-~~~~~l~~~i----  334 (471)
                      . .++.++|+|++...+....    .    .  .....+++.+|+.+|+.+++....-... ... +....+....    
T Consensus       161 ~-~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~tgG~P  239 (350)
T 2qen_A          161 S-LPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVPENEIEEAVELLDGIP  239 (350)
T ss_dssp             H-CTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHTTCH
T ss_pred             h-cCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCH
Confidence            1 2478899999876542211    1    0  0124799999999999999876431111 122 2222222222    


Q ss_pred             --HHHHhhhhcC-CCHHHHHHHHHHhcCCCCCchHhHHHhhccCC---ChhHHHHHcccccccCCCCHHHHHHhhc----
Q 041795          335 --LKVLGSFFHR-KSKLDWEKALENISRISDPDIYDVLKISYNDL---SLEEKSIFLDIACFFAGEEKDYVTRMLD----  404 (471)
Q Consensus       335 --l~~lg~~L~~-~~~~~w~~~l~~l~~~~~~~i~~~l~~Sy~~L---~~~~k~~fl~ls~Fp~~~~~~~l~~lw~----  404 (471)
                        +..++..+.. .+...+   ...+.    ..+...+.-.+..|   ++..+.++..+|+  ...+...+.....    
T Consensus       240 ~~l~~~~~~~~~~~~~~~~---~~~~~----~~~~~~~~~~l~~l~~~~~~~~~~l~~la~--g~~~~~~l~~~~~~~~~  310 (350)
T 2qen_A          240 GWLVVFGVEYLRNGDFGRA---MKRTL----EVAKGLIMGELEELRRRSPRYVDILRAIAL--GYNRWSLIRDYLAVKGT  310 (350)
T ss_dssp             HHHHHHHHHHHHHCCHHHH---HHHHH----HHHHHHHHHHHHHHHHHCHHHHHHHHHHHT--TCCSHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccccHhHH---HHHHH----HHHHHHHHHHHHHHHhCChhHHHHHHHHHh--CCCCHHHHHHHHHHHhC
Confidence              3333322111 121111   11110    01111222222333   7888999999998  2345566665541    


Q ss_pred             -c--cCccchHHHHhhCCCeeecCCCeEEe-cHHHHHHH
Q 041795          405 -P--NFPHNGLNILIAKSLVTVSNDNKIQM-HDLLQEMG  439 (471)
Q Consensus       405 -~--~~~~~~l~~L~~~sLi~~~~~~~~~m-Hdlv~~~a  439 (471)
                       .  .....+++.|.+.+||... ++.|.+ |++++++.
T Consensus       311 ~~~~~~~~~~l~~L~~~gli~~~-~~~y~~~~p~~~~~~  348 (350)
T 2qen_A          311 KIPEPRLYALLENLKKMNWIVEE-DNTYKIADPVVATVL  348 (350)
T ss_dssp             CCCHHHHHHHHHHHHHTTSEEEE-TTEEEESSHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhCCCEEec-CCEEEEecHHHHHHH
Confidence             1  2235689999999999876 456665 67888765

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.17  E-value=3.4e-10  Score=111.93  Aligned_cols=240  Identities=17%  Similarity=0.136  Sum_probs=137.4

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhh----------------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVR----------------  245 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~----------------  245 (471)
                      .+..|+||+.+++.|.+ +..     +++.|+|++|+|||+|++++++.....   .+|+....                
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINELNLP---YIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHHHTCC---EEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHhcCCC---EEEEEchhhccccCCCHHHHHHHH
Confidence            45679999999999999 753     699999999999999999998875322   12222110                


Q ss_pred             --------------------------------------------hh----hh----c--CcccccCCHh-----hH-HHH
Q 041795          246 --------------------------------------------EE----SE----K--GVLDDVNKIG-----QL-QYL  265 (471)
Q Consensus       246 --------------------------------------------~~----~~----~--~VLDdv~~~~-----~~-~~l  265 (471)
                                                                  ..    ..    .  -||||++...     .+ ..|
T Consensus        82 ~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~l  161 (357)
T 2fna_A           82 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPAL  161 (357)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHHH
Confidence                                                        00    00    0  1789985422     22 222


Q ss_pred             hcCCCCCCCCcEEEEEeCChhhhhhh----C----c--CCCceEEeCCCCHHHHHHHHHhccccCCCCCchHHHHHHHH-
Q 041795          266 TCGLDRFGPGSRIIITTRDKWILDKF----G----V--HDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRV-  334 (471)
Q Consensus       266 ~~~~~~~~~gs~IiiTTR~~~v~~~~----~----~--~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~l~~~i-  334 (471)
                      ...... .++.++|+|++........    .    .  .....+++++|+.+|+.+++....-......+....+.... 
T Consensus       162 ~~~~~~-~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~i~~~t~  240 (357)
T 2fna_A          162 AYAYDN-LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKDYEVVYEKIG  240 (357)
T ss_dssp             HHHHHH-CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCCHHHHHHHHC
T ss_pred             HHHHHc-CCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCcHHHHHHHhC
Confidence            111111 2467899999986543211    0    0  01257999999999999999874321111122234444333 


Q ss_pred             -----HHHHhhhhcC-CCHHHHHHH-HHHhcCCCCCchHhHHH-hhc--cCCChhHHHHHcccccccCCCCHHHHHHh--
Q 041795          335 -----LKVLGSFFHR-KSKLDWEKA-LENISRISDPDIYDVLK-ISY--NDLSLEEKSIFLDIACFFAGEEKDYVTRM--  402 (471)
Q Consensus       335 -----l~~lg~~L~~-~~~~~w~~~-l~~l~~~~~~~i~~~l~-~Sy--~~L~~~~k~~fl~ls~Fp~~~~~~~l~~l--  402 (471)
                           +..++..+.. .+...|... .+...    ..+...+. +.+  ..|++..+.++..+|+-  . +...+...  
T Consensus       241 G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~l~~~~~~~l~~la~g--~-~~~~l~~~~~  313 (357)
T 2fna_A          241 GIPGWLTYFGFIYLDNKNLDFAINQTLEYAK----KLILKEFENFLHGREIARKRYLNIMRTLSKC--G-KWSDVKRALE  313 (357)
T ss_dssp             SCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH----HHHHHHHHHHHTTCGGGHHHHHHHHHHHTTC--B-CHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHccccchHHHHHHHHHHHH----HHHHHHHHHHhhccccccHHHHHHHHHHHcC--C-CHHHHHHHHH
Confidence                 4444443321 223233211 11100    00111121 111  16788999999999983  2 56666533  


Q ss_pred             --hc---c-cCccchHHHHhhCCCeeecCCCeEE-ecHHHHHHH
Q 041795          403 --LD---P-NFPHNGLNILIAKSLVTVSNDNKIQ-MHDLLQEMG  439 (471)
Q Consensus       403 --w~---~-~~~~~~l~~L~~~sLi~~~~~~~~~-mHdlv~~~a  439 (471)
                        ..   . .....+++.|.+.+||.... +.|. -|++++++.
T Consensus       314 ~~~g~~~~~~~~~~~L~~L~~~gli~~~~-~~y~f~~~~~~~~l  356 (357)
T 2fna_A          314 LEEGIEISDSEIYNYLTQLTKHSWIIKEG-EKYCPSEPLISLAF  356 (357)
T ss_dssp             HHHCSCCCHHHHHHHHHHHHHTTSEEESS-SCEEESSHHHHHHT
T ss_pred             HhcCCCCCHHHHHHHHHHHHhCCCEEecC-CEEEecCHHHHHhh
Confidence              22   1 22356899999999998864 5566 578988763

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.14  E-value=1.2e-10  Score=117.74  Aligned_cols=233  Identities=15%  Similarity=0.051  Sum_probs=128.3

Q ss_pred             CCCCccccchhHHHHHHhh-hc--CC--CCceEEEE--eccCcchhhhHHHHHHHhhhccc-----c-ceEeeehhh---
Q 041795          182 NFDGLVGLNSRIEKIKSLL-CI--GR--PDFRIVGI--WGMGGTGKTTLAGAIFNLIYKEF-----E-GNCFLGNVR---  245 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L-~~--~~--~~~~vv~I--~G~gGiGKTtLA~~v~~~~~~~f-----~-~~~~~~~~~---  245 (471)
                      .+..|+||+.++++|.+.| ..  .+  ...+.+.|  +|++|+||||||+.+++.....+     . ..+|+....   
T Consensus        20 ~p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (412)
T 1w5s_A           20 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   99 (412)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCC
Confidence            3467999999999999988 42  12  23456666  99999999999999998865421     2 234443110   


Q ss_pred             ------h-------------------------hhh--c----CcccccCCH--------hhHHHHhcCCCCC---C--CC
Q 041795          246 ------E-------------------------ESE--K----GVLDDVNKI--------GQLQYLTCGLDRF---G--PG  275 (471)
Q Consensus       246 ------~-------------------------~~~--~----~VLDdv~~~--------~~~~~l~~~~~~~---~--~g  275 (471)
                            .                         ...  .    -||||++..        +.+..+...+...   +  ..
T Consensus       100 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~  179 (412)
T 1w5s_A          100 LYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNR  179 (412)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCce
Confidence                  0                         000  0    189999653        3343333322111   2  44


Q ss_pred             cEEEEEeCChhhhhhhC--------cCCCceEEeCCCCHHHHHHHHHhcc---ccCCCCCchHHHHHHHHHHHHh-----
Q 041795          276 SRIIITTRDKWILDKFG--------VHDTNVYEVNGLRYHEALELFCNCA---FKENHCPSGFLASSKRVLKVLG-----  339 (471)
Q Consensus       276 s~IiiTTR~~~v~~~~~--------~~~~~~~~l~~L~~~ea~~Lf~~~a---~~~~~~~~~~~~l~~~il~~lg-----  339 (471)
                      ..+|+||++..+...+.        .. ...+++++|+.++++++|...+   +......   .+....+....+     
T Consensus       180 v~lI~~~~~~~~~~~l~~~~~~~~~~~-~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~---~~~~~~i~~~~~~~~~~  255 (412)
T 1w5s_A          180 IGFLLVASDVRALSYMREKIPQVESQI-GFKLHLPAYKSRELYTILEQRAELGLRDTVWE---PRHLELISDVYGEDKGG  255 (412)
T ss_dssp             EEEEEEEEETHHHHHHHHHCHHHHTTC-SEEEECCCCCHHHHHHHHHHHHHHHBCTTSCC---HHHHHHHHHHHCGGGTS
T ss_pred             EEEEEEeccccHHHHHhhhcchhhhhc-CCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCC---hHHHHHHHHHHHHhccC
Confidence            55888887665332111        10 2239999999999999997543   3222222   233333434444     


Q ss_pred             -hhhcC-C------------------CHHHHHHHHHHhcCCCCCchHhHHHhhccCCChhHHHHHcccccccC----CCC
Q 041795          340 -SFFHR-K------------------SKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFA----GEE  395 (471)
Q Consensus       340 -~~L~~-~------------------~~~~w~~~l~~l~~~~~~~i~~~l~~Sy~~L~~~~k~~fl~ls~Fp~----~~~  395 (471)
                       +..+. .                  +...+...+.....      ...+..++..||+..+.++..++.+..    .++
T Consensus       256 ~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~------~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~~~  329 (412)
T 1w5s_A          256 DGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA------ASIQTHELEALSIHELIILRLIAEATLGGMEWIN  329 (412)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------------CCSSSSSCHHHHHHHHHHHHHHHTTCSSBC
T ss_pred             CCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc------cchHHHHHHcCCHHHHHHHHHHHHHHhcCCCCcc
Confidence             22110 0                  11111111111000      234455678899999999999997642    234


Q ss_pred             HHHHHHhh--------cc-----cCccchHHHHhhCCCeeec
Q 041795          396 KDYVTRML--------DP-----NFPHNGLNILIAKSLVTVS  424 (471)
Q Consensus       396 ~~~l~~lw--------~~-----~~~~~~l~~L~~~sLi~~~  424 (471)
                      ...+...+        ..     .....+++.|.+.+||...
T Consensus       330 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~  371 (412)
T 1w5s_A          330 AGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLVDAK  371 (412)
T ss_dssp             HHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCEEee
Confidence            43332222        11     1124679999999999864

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.02  E-value=1.9e-09  Score=107.72  Aligned_cols=233  Identities=18%  Similarity=0.138  Sum_probs=130.7

Q ss_pred             CCCCccccchhHHHHHHhhhcC--CCCceEEEEeccCcchhhhHHHHHHHhhhcccc---ceEeeehhh-----------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIG--RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE---GNCFLGNVR-----------  245 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~---~~~~~~~~~-----------  245 (471)
                      .++.|+||+.+++.|.+++...  ......+.|+|++|+||||||+.+++.....+.   ..+|+....           
T Consensus        18 ~p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i   97 (386)
T 2qby_A           18 IPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADL   97 (386)
T ss_dssp             CCSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHH
Confidence            4477999999999999988742  344678999999999999999999998765432   233443110           


Q ss_pred             ----------------hhh-------h-cC-----cccccCCH------hhHHHHhcCCCC-CCCCcEEEEEeCChhhhh
Q 041795          246 ----------------EES-------E-KG-----VLDDVNKI------GQLQYLTCGLDR-FGPGSRIIITTRDKWILD  289 (471)
Q Consensus       246 ----------------~~~-------~-~~-----VLDdv~~~------~~~~~l~~~~~~-~~~gs~IiiTTR~~~v~~  289 (471)
                                      +..       . .+     |||+++..      ..+..+...+.. ...+..+|+||++.....
T Consensus        98 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~  177 (386)
T 2qby_A           98 LESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVD  177 (386)
T ss_dssp             TTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGG
T ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHh
Confidence                            000       0 01     78988542      233344322211 134566788888764332


Q ss_pred             hhCc-----CCCceEEeCCCCHHHHHHHHHhccc---cCCCCCchHHHHHHHHHHHHh---hhhc---------------
Q 041795          290 KFGV-----HDTNVYEVNGLRYHEALELFCNCAF---KENHCPSGFLASSKRVLKVLG---SFFH---------------  343 (471)
Q Consensus       290 ~~~~-----~~~~~~~l~~L~~~ea~~Lf~~~a~---~~~~~~~~~~~l~~~il~~lg---~~L~---------------  343 (471)
                      .+..     .....+++++++.++..+++...+-   ......++   ....+....+   +.++               
T Consensus       178 ~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~  254 (386)
T 2qby_A          178 LLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDN---VIKLCAALAAREHGDARRALDLLRVSGEIAER  254 (386)
T ss_dssp             GCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHH---HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             hhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh
Confidence            2211     0124799999999999999987542   22222222   2222222221   1110               


Q ss_pred             -C---CCHHHHHHHHHHhcCCCCCchHhHHHhhccCCChhHHHHHcccccccC-C---CCHHHH-------HHhhcc---
Q 041795          344 -R---KSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFA-G---EEKDYV-------TRMLDP---  405 (471)
Q Consensus       344 -~---~~~~~w~~~l~~l~~~~~~~i~~~l~~Sy~~L~~~~k~~fl~ls~Fp~-~---~~~~~l-------~~lw~~---  405 (471)
                       +   -+......++...       ....+..++..|+..++..+..++.+.+ +   +....+       ......   
T Consensus       255 ~~~~~i~~~~v~~a~~~~-------~~~~~~~~~~~l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g~~~~  327 (386)
T 2qby_A          255 MKDTKVKEEYVYMAKEEI-------ERDRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLGVEAV  327 (386)
T ss_dssp             TTCSSCCHHHHHHHHHHH-------HHHHHHHHHHTSCHHHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHTCCCC
T ss_pred             cCCCccCHHHHHHHHHHH-------hhchHHHHHHcCCHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcCCCCC
Confidence             0   0223333333222       1235666778899988888888875432 2   223222       221111   


Q ss_pred             --cCccchHHHHhhCCCeeec
Q 041795          406 --NFPHNGLNILIAKSLVTVS  424 (471)
Q Consensus       406 --~~~~~~l~~L~~~sLi~~~  424 (471)
                        .....+++.|.+.++|...
T Consensus       328 ~~~~~~~~l~~L~~~gli~~~  348 (386)
T 2qby_A          328 TQRRVSDIINELDMVGILTAK  348 (386)
T ss_dssp             CHHHHHHHHHHHHHHTSEEEE
T ss_pred             CHHHHHHHHHHHHhCCCEEEE
Confidence              1134578999999999864

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.94  E-value=2.3e-08  Score=100.05  Aligned_cols=230  Identities=13%  Similarity=-0.001  Sum_probs=133.2

Q ss_pred             CCccccchhHHHHHHhhhc--CCCCceEEEEeccCcchhhhHHHHHHHhhhcc--------ccceEeeehhhhh------
Q 041795          184 DGLVGLNSRIEKIKSLLCI--GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE--------FEGNCFLGNVREE------  247 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------f~~~~~~~~~~~~------  247 (471)
                      +.++||+.+++++.++|..  .....+.+.|+|++|+|||+||+.+++.....        ....+++......      
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            6799999999999988763  33446789999999999999999999886443        1223444311100      


Q ss_pred             --------------------hh-----------cC---cccccCCHh------h-HHHHhcCCCCCCCCcEEEEEeCChh
Q 041795          248 --------------------SE-----------KG---VLDDVNKIG------Q-LQYLTCGLDRFGPGSRIIITTRDKW  286 (471)
Q Consensus       248 --------------------~~-----------~~---VLDdv~~~~------~-~~~l~~~~~~~~~gs~IiiTTR~~~  286 (471)
                                          ..           .+   ||||++...      . +..|....    .+..+|+||+...
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~~t~~~~  175 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIMISNDIN  175 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEEECSSTT
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEEEECCCc
Confidence                                00           01   789986532      2 33343332    6788999998753


Q ss_pred             hhhhhC----cCCCceEEeCCCCHHHHHHHHHhcc---ccCCCCCc-hHHHHHHHH-------------HHHHhhhhcC-
Q 041795          287 ILDKFG----VHDTNVYEVNGLRYHEALELFCNCA---FKENHCPS-GFLASSKRV-------------LKVLGSFFHR-  344 (471)
Q Consensus       287 v~~~~~----~~~~~~~~l~~L~~~ea~~Lf~~~a---~~~~~~~~-~~~~l~~~i-------------l~~lg~~L~~-  344 (471)
                      ....+.    ..-...+++++++.++..++|...+   +.....++ .+..++...             +...+..-.+ 
T Consensus       176 ~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~  255 (384)
T 2qby_B          176 VRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGG  255 (384)
T ss_dssp             TTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSS
T ss_pred             hHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCC
Confidence            211110    0002389999999999999999874   32222222 222222211             1111111111 


Q ss_pred             --CCHHHHHHHHHHhcCCCCCchHhHHHhhccCCChhHHHHHcccccccC-C-C--CHHHHHHhhcc-----cCccchHH
Q 041795          345 --KSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFA-G-E--EKDYVTRMLDP-----NFPHNGLN  413 (471)
Q Consensus       345 --~~~~~w~~~l~~l~~~~~~~i~~~l~~Sy~~L~~~~k~~fl~ls~Fp~-~-~--~~~~l~~lw~~-----~~~~~~l~  413 (471)
                        -+.+.+..++....       ...+..++..|++.++..+..++.... + .  ....+..-...     .....+++
T Consensus       256 ~~i~~~~v~~~~~~~~-------~~~~~~~~~~l~~~~~~~l~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~l~  328 (384)
T 2qby_B          256 GIIRKEHVDKAIVDYE-------QERLIEAVKALPFHYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPLSYRRFSDIIS  328 (384)
T ss_dssp             SCCCHHHHHHHHHHHH-------HHHHHHHHHSSCHHHHHHHHHHHTCCBHHHHHHHHHHHHHHTTCCCCCHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHHh-------cchHHHHHHcCCHHHHHHHHHHHHhcccChHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence              13455555554431       245667778999988888887776111 1 0  01112221111     12346789


Q ss_pred             HHhhCCCeeec
Q 041795          414 ILIAKSLVTVS  424 (471)
Q Consensus       414 ~L~~~sLi~~~  424 (471)
                      .|.++|||+..
T Consensus       329 ~L~~~gli~~~  339 (384)
T 2qby_B          329 ELDMFGIVKIR  339 (384)
T ss_dssp             HHHHTTSEEEE
T ss_pred             HHHhCCCEEEE
Confidence            99999999864

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.94  E-value=4.8e-09  Score=104.81  Aligned_cols=236  Identities=15%  Similarity=0.102  Sum_probs=130.9

Q ss_pred             CCCCccccchhHHHHHHhhhcC--CCCceEEEEeccCcchhhhHHHHHHHhhhccc-----c-ceEeeehh---------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIG--RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF-----E-GNCFLGNV---------  244 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-----~-~~~~~~~~---------  244 (471)
                      .++.++||+.+++++..+|...  ....+.+.|+|++|+||||||+.+++.....+     . ..+++...         
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   96 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVA   96 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHH
Confidence            3467999999999999988532  34567899999999999999999998864321     1 12333311         


Q ss_pred             ------------------hhhhh--------cC-----cccccCCHh----h---HHHHhcCCCCC--CCCcEEEEEeCC
Q 041795          245 ------------------REESE--------KG-----VLDDVNKIG----Q---LQYLTCGLDRF--GPGSRIIITTRD  284 (471)
Q Consensus       245 ------------------~~~~~--------~~-----VLDdv~~~~----~---~~~l~~~~~~~--~~gs~IiiTTR~  284 (471)
                                        .+...        .+     +||+++...    .   +..+.......  ..+..+|.||+.
T Consensus        97 ~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~  176 (387)
T 2v1u_A           97 SAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNS  176 (387)
T ss_dssp             HHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSC
T ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECC
Confidence                              00000        01     789997532    1   22233222111  345678888876


Q ss_pred             hhhhhhh-----CcCCCceEEeCCCCHHHHHHHHHhcc---ccCCCCC-chHHHHHHHH-------------HHHHhhhh
Q 041795          285 KWILDKF-----GVHDTNVYEVNGLRYHEALELFCNCA---FKENHCP-SGFLASSKRV-------------LKVLGSFF  342 (471)
Q Consensus       285 ~~v~~~~-----~~~~~~~~~l~~L~~~ea~~Lf~~~a---~~~~~~~-~~~~~l~~~i-------------l~~lg~~L  342 (471)
                      ......+     .......+.+++++.++...++...+   +...... +....++...             +..++...
T Consensus       177 ~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a  256 (387)
T 2v1u_A          177 LGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEIA  256 (387)
T ss_dssp             STTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHHHH
T ss_pred             CchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHH
Confidence            5321111     11012478999999999999998764   2222222 2222222211             11111110


Q ss_pred             --cC---CCHHHHHHHHHHhcCCCCCchHhHHHhhccCCChhHHHHHcccccccCC---CCHHHHHHhhcc---------
Q 041795          343 --HR---KSKLDWEKALENISRISDPDIYDVLKISYNDLSLEEKSIFLDIACFFAG---EEKDYVTRMLDP---------  405 (471)
Q Consensus       343 --~~---~~~~~w~~~l~~l~~~~~~~i~~~l~~Sy~~L~~~~k~~fl~ls~Fp~~---~~~~~l~~lw~~---------  405 (471)
                        .+   -+.+.+..++....       ...+..++..|+..++..++.++....+   .....+.+....         
T Consensus       257 ~~~~~~~i~~~~v~~a~~~~~-------~~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (387)
T 2v1u_A          257 ERRREERVRREHVYSARAEIE-------RDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELTSTLGLEH  329 (387)
T ss_dssp             HHTTCSCBCHHHHHHHHHHHH-------HHHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHHHHTTCCC
T ss_pred             HHcCCCCcCHHHHHHHHHHHh-------hchHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhcCCCC
Confidence              01   13444444444331       2345667789999998888877744333   223333332211         


Q ss_pred             ---cCccchHHHHhhCCCeeec
Q 041795          406 ---NFPHNGLNILIAKSLVTVS  424 (471)
Q Consensus       406 ---~~~~~~l~~L~~~sLi~~~  424 (471)
                         .....+++.|...|+++..
T Consensus       330 ~~~~~~~~~l~~L~~~gli~~~  351 (387)
T 2v1u_A          330 VTLRRVSGIISELDMLGIVKSR  351 (387)
T ss_dssp             CCHHHHHHHHHHHHHTTSEEEE
T ss_pred             CCHHHHHHHHHHHHhCCCeEEE
Confidence               1234578889999999874

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=98.82  E-value=2e-08  Score=92.97  Aligned_cols=134  Identities=16%  Similarity=0.175  Sum_probs=89.6

Q ss_pred             CCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcccc---------------------ceEee
Q 041795          183 FDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE---------------------GNCFL  241 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~---------------------~~~~~  241 (471)
                      ...++||+..++.|..++..+. ....+.|+|.+|+||||||+.+++.....+.                     ....+
T Consensus        22 ~~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (250)
T 1njg_A           22 FADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEI  100 (250)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSEEEE
T ss_pred             HHHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcceEEe
Confidence            3569999999999999987433 2358899999999999999999987643221                     11111


Q ss_pred             ehh--------hhhhhc------------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChhhhh-h-hCcCCCc
Q 041795          242 GNV--------REESEK------------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKWILD-K-FGVHDTN  297 (471)
Q Consensus       242 ~~~--------~~~~~~------------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~-~-~~~~~~~  297 (471)
                      ...        ......            -|+||++.  ...++.|...+.....+..+|+||+...... . ...  ..
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r--~~  178 (250)
T 1njg_A          101 DAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR--CL  178 (250)
T ss_dssp             ETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTT--SE
T ss_pred             cCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHH--hh
Confidence            110        011000            18899964  4556666655554456788999987654221 1 111  45


Q ss_pred             eEEeCCCCHHHHHHHHHhcccc
Q 041795          298 VYEVNGLRYHEALELFCNCAFK  319 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a~~  319 (471)
                      .+++++++.++..+++...+..
T Consensus       179 ~i~l~~l~~~e~~~~l~~~~~~  200 (250)
T 1njg_A          179 QFHLKALDVEQIRHQLEHILNE  200 (250)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHH
T ss_pred             hccCCCCCHHHHHHHHHHHHHh
Confidence            7999999999999999877643

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.80  E-value=2.4e-08  Score=99.95  Aligned_cols=261  Identities=16%  Similarity=0.114  Sum_probs=143.9

Q ss_pred             CCCccccchhHHHHHHhhhc----CCCCceEEEEeccCcchhhhHHHHHHHhhhccc-cceEeeehhhhh----------
Q 041795          183 FDGLVGLNSRIEKIKSLLCI----GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF-EGNCFLGNVREE----------  247 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~~~~~~~~~~~----------  247 (471)
                      ++.++||+.+++++.+++..    .....+.+.|+|.+|+|||||++.+++...... -..+++......          
T Consensus        16 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~   95 (389)
T 1fnn_A           16 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIA   95 (389)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHHHH
Confidence            36799999999999998864    222234899999999999999999998865432 223333311000          


Q ss_pred             -----------------h--------h-c----CcccccCC--HhhHHHHhcCCCCCC----CCcEEEEEeCChhhhhhh
Q 041795          248 -----------------S--------E-K----GVLDDVNK--IGQLQYLTCGLDRFG----PGSRIIITTRDKWILDKF  291 (471)
Q Consensus       248 -----------------~--------~-~----~VLDdv~~--~~~~~~l~~~~~~~~----~gs~IiiTTR~~~v~~~~  291 (471)
                                       .        . .    -+||+++.  ...+..|...+....    .+..||+||++.......
T Consensus        96 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l  175 (389)
T 1fnn_A           96 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNL  175 (389)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTS
T ss_pred             HHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHh
Confidence                             0        0 0    17899864  444555554443222    367788888876433222


Q ss_pred             Cc-----CCCceEEeCCCCHHHHHHHHHhcccc---CCCCCchHHHHHHHHHHHHhhhhc----CCCHHHHHHHHHHhc-
Q 041795          292 GV-----HDTNVYEVNGLRYHEALELFCNCAFK---ENHCPSGFLASSKRVLKVLGSFFH----RKSKLDWEKALENIS-  358 (471)
Q Consensus       292 ~~-----~~~~~~~l~~L~~~ea~~Lf~~~a~~---~~~~~~~~~~l~~~il~~lg~~L~----~~~~~~w~~~l~~l~-  358 (471)
                      ..     .....+++++++.++..+++...+..   .....   .+....+....++.-.    .-+......++.... 
T Consensus       176 ~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~  252 (389)
T 1fnn_A          176 DPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYS---EDILQMIADITGAQTPLDTNRGDARLAIDILYRSAY  252 (389)
T ss_dssp             CHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSC---HHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHH
T ss_pred             CHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCC---HHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHH
Confidence            10     01236999999999999999876532   22222   2222333333310000    001111111111100 


Q ss_pred             -----C---CCCCchHhH--------HHhhccCCChhHHHHHccccccc---C--CCCHHHHHHhhcc------------
Q 041795          359 -----R---ISDPDIYDV--------LKISYNDLSLEEKSIFLDIACFF---A--GEEKDYVTRMLDP------------  405 (471)
Q Consensus       359 -----~---~~~~~i~~~--------l~~Sy~~L~~~~k~~fl~ls~Fp---~--~~~~~~l~~lw~~------------  405 (471)
                           .   .....+..+        +.-.+..|+.+++.++..++.+.   .  ......+.+.+..            
T Consensus       253 ~a~~~~~~~i~~~~v~~~~~~~~~~~~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~  332 (389)
T 1fnn_A          253 AAQQNGRKHIAPEDVRKSSKEVLFGISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEEYGERPRVH  332 (389)
T ss_dssp             HHHHTTCSSCCHHHHHHHHHHHSCCCCHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHHHHTTCCCCCH
T ss_pred             HHHHhCCCCcCHHHHHHHHHHHhhhhHHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHHHHcCCCCCCH
Confidence                 0   000112221        23335678888888888787654   2  2344444443322            


Q ss_pred             cCccchHHHHhhCCCeeecCC-------Ce---E----EecHHHHHHHHHHHHhh
Q 041795          406 NFPHNGLNILIAKSLVTVSND-------NK---I----QMHDLLQEMGREVVRQE  446 (471)
Q Consensus       406 ~~~~~~l~~L~~~sLi~~~~~-------~~---~----~mHdlv~~~a~~i~~~e  446 (471)
                      .....+++.|.++++|.....       ++   +    ..|+++..+...+..+|
T Consensus       333 ~~~~~~l~~L~~~gli~~~~~~~~~g~~g~~~~~~l~~~~~~v~~~~~~~~~~~~  387 (389)
T 1fnn_A          333 SQLWSYLNDLREKGIVETRQNKRGEGVRGRTTLISIGTEPLDTLEAVITKLIKEE  387 (389)
T ss_dssp             HHHHHHHHHHHHTTSSEEEEC---------CEEEECCSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCeEEeeeccCCCCCCceeEEEeCCCHHHHHHHHHHHHHHHh
Confidence            112357999999999997432       22   2    24577777777766655

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=98.72  E-value=1.9e-08  Score=91.99  Aligned_cols=133  Identities=17%  Similarity=0.204  Sum_probs=86.6

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc-ccce-Eeeehh------------hhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGN-CFLGNV------------REE  247 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~-~~~~~~------------~~~  247 (471)
                      ....++|++..++.+.+++....  .+.+.|+|.+|+|||+||+.+++.+... +... ..+...            ...
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (226)
T 2chg_A           15 TLDEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEF   92 (226)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHHHH
T ss_pred             CHHHHcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHHHH
Confidence            34568999999999999987443  3348999999999999999999875333 2211 111110            011


Q ss_pred             hh------c----CcccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCChhhh-hh-hCcCCCceEEeCCCCHHHHHHHH
Q 041795          248 SE------K----GVLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRDKWIL-DK-FGVHDTNVYEVNGLRYHEALELF  313 (471)
Q Consensus       248 ~~------~----~VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~v~-~~-~~~~~~~~~~l~~L~~~ea~~Lf  313 (471)
                      ..      .    -++||++..  ...+.|...+.....++++|+||+..... .. ...  ...+++++++.++...++
T Consensus        93 ~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r--~~~i~~~~~~~~~~~~~l  170 (226)
T 2chg_A           93 ARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSR--CAVFRFKPVPKEAMKKRL  170 (226)
T ss_dssp             HTSCCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT--SEEEECCCCCHHHHHHHH
T ss_pred             hcccCCCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHh--CceeecCCCCHHHHHHHH
Confidence            00      1    188999743  34455554444445678899998765321 11 111  347999999999999998


Q ss_pred             Hhccc
Q 041795          314 CNCAF  318 (471)
Q Consensus       314 ~~~a~  318 (471)
                      ...+.
T Consensus       171 ~~~~~  175 (226)
T 2chg_A          171 LEICE  175 (226)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87653

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.35  E-value=4.1e-07  Score=88.57  Aligned_cols=134  Identities=19%  Similarity=0.236  Sum_probs=87.1

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc-c-ceEeeeh--------h----hhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF-E-GNCFLGN--------V----REE  247 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~-~~~~~~~--------~----~~~  247 (471)
                      ...+++|++..++.+..++..+.  .+.+.|+|++|+||||+|+.+++.+.... . ....+..        +    .+.
T Consensus        23 ~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (327)
T 1iqp_A           23 RLDDIVGQEHIVKRLKHYVKTGS--MPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEF  100 (327)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHTC--CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHHHH
T ss_pred             CHHHhhCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHHHHHHHHH
Confidence            44679999999999999887543  33489999999999999999998854321 1 1111211        0    111


Q ss_pred             hh------c----CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChhhh-hhhCcCCCceEEeCCCCHHHHHHHHH
Q 041795          248 SE------K----GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKWIL-DKFGVHDTNVYEVNGLRYHEALELFC  314 (471)
Q Consensus       248 ~~------~----~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~-~~~~~~~~~~~~l~~L~~~ea~~Lf~  314 (471)
                      ..      .    -++|+++.  ....+.|...+.....++++|+||....-. ..+.. ....+++++++.++...++.
T Consensus       101 ~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~s-r~~~~~~~~l~~~~~~~~l~  179 (327)
T 1iqp_A          101 ARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQS-RCAIFRFRPLRDEDIAKRLR  179 (327)
T ss_dssp             HHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHH-TEEEEECCCCCHHHHHHHHH
T ss_pred             HhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHh-hCcEEEecCCCHHHHHHHHH
Confidence            00      1    18899974  345555655544445678899888765321 11100 03478999999999999888


Q ss_pred             hccc
Q 041795          315 NCAF  318 (471)
Q Consensus       315 ~~a~  318 (471)
                      ..+.
T Consensus       180 ~~~~  183 (327)
T 1iqp_A          180 YIAE  183 (327)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7653

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.31  E-value=6.2e-07  Score=87.13  Aligned_cols=133  Identities=18%  Similarity=0.262  Sum_probs=86.2

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc-cc-ceEeee--------hhh----hh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FE-GNCFLG--------NVR----EE  247 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~-~~~~~~--------~~~----~~  247 (471)
                      ....++|++..++.+.+++..+.  .+.+.|+|++|+|||++|+.+++.+... +. ..+.+.        .++    ..
T Consensus        19 ~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~   96 (323)
T 1sxj_B           19 VLSDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHF   96 (323)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHH
T ss_pred             CHHHHHCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHHHHHHHHH
Confidence            33569999999999999987543  2338999999999999999999885322 11 112221        111    11


Q ss_pred             h-------h--c--CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChhh-hhhh-CcCCCceEEeCCCCHHHHHHH
Q 041795          248 S-------E--K--GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKWI-LDKF-GVHDTNVYEVNGLRYHEALEL  312 (471)
Q Consensus       248 ~-------~--~--~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~v-~~~~-~~~~~~~~~l~~L~~~ea~~L  312 (471)
                      .       .  .  -|+||++.  ....+.|...+.....++++|+||....- ...+ ..  ...+++++++.++..++
T Consensus        97 ~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr--~~~i~~~~~~~~~~~~~  174 (323)
T 1sxj_B           97 AQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQ--CAILRYSKLSDEDVLKR  174 (323)
T ss_dssp             HHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTT--SEEEECCCCCHHHHHHH
T ss_pred             HhccccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhh--ceEEeecCCCHHHHHHH
Confidence            1       1  1  18999974  34445454444434467888888876432 1111 11  35799999999999999


Q ss_pred             HHhccc
Q 041795          313 FCNCAF  318 (471)
Q Consensus       313 f~~~a~  318 (471)
                      +...+.
T Consensus       175 l~~~~~  180 (323)
T 1sxj_B          175 LLQIIK  180 (323)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            987653

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.29  E-value=1.4e-06  Score=83.42  Aligned_cols=135  Identities=24%  Similarity=0.283  Sum_probs=82.3

Q ss_pred             CCCCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceE-------eeeh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC-------FLGN  243 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~-------~~~~  243 (471)
                      ..++++|.+..+++|.+.+..           +....+.+.|+|.+|+|||+||+.+++.....|-...       |+..
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~   94 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGE   94 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCCCSTTH
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHHhccch
Confidence            446789999999999887742           1234567999999999999999999987654432111       0100


Q ss_pred             hhh----hhh----c----CcccccCCH----------------hhHHHHhcCCC--CCCCCcEEEEEeCChhhhh----
Q 041795          244 VRE----ESE----K----GVLDDVNKI----------------GQLQYLTCGLD--RFGPGSRIIITTRDKWILD----  289 (471)
Q Consensus       244 ~~~----~~~----~----~VLDdv~~~----------------~~~~~l~~~~~--~~~~gs~IiiTTR~~~v~~----  289 (471)
                      ...    ...    .    -+||+++..                ..+..++..+.  ....+..||.||.......    
T Consensus        95 ~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~~l~  174 (285)
T 3h4m_A           95 GASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAIL  174 (285)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCHHHH
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCHHHc
Confidence            000    000    0    178988542                11222222221  1224677788887553322    


Q ss_pred             -hhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          290 -KFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       290 -~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                       ....  ...+.++.++.++-.+++...+.
T Consensus       175 ~~~Rf--~~~i~~~~p~~~~r~~il~~~~~  202 (285)
T 3h4m_A          175 RPGRF--DRIIEVPAPDEKGRLEILKIHTR  202 (285)
T ss_dssp             STTSE--EEEEECCCCCHHHHHHHHHHHHT
T ss_pred             CCCcC--CeEEEECCCCHHHHHHHHHHHHh
Confidence             1112  34789999999999999987653

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.28  E-value=1.2e-06  Score=77.84  Aligned_cols=49  Identities=20%  Similarity=0.275  Sum_probs=41.3

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ....++||+++++++.+.+..  ...+.+.|+|.+|+|||+||+.+++.+.
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~~~~~~~   68 (195)
T 1jbk_A           20 KLDPVIGRDEEIRRTIQVLQR--RTKNNPVLIGEPGVGKTAIVEGLAQRII   68 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS--SSSCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             cccccccchHHHHHHHHHHhc--CCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            446799999999999998864  2345688999999999999999998764

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.27  E-value=4.4e-06  Score=81.31  Aligned_cols=236  Identities=13%  Similarity=0.109  Sum_probs=124.7

Q ss_pred             CCCCccccchhHHHHHHhhhc---CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee--------hhhhhh--
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI---GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG--------NVREES--  248 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~--------~~~~~~--  248 (471)
                      ..++++|++..++.+..++..   .......+.|+|.+|+|||+||+.+++.....|-   ++.        ......  
T Consensus        10 ~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~---~~~~~~~~~~~~l~~~l~~   86 (324)
T 1hqc_A           10 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLR---VTSGPAIEKPGDLAAILAN   86 (324)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEE---EECTTTCCSHHHHHHHHTT
T ss_pred             cHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEE---EEeccccCChHHHHHHHHH
Confidence            446799999999999888752   1223467889999999999999999987644331   111        011110  


Q ss_pred             ---hcC--cccccCCH--hhHHHHhcCCCCC------------------CCCcEEEEEeCChhhh-hhhCcCCCceEEeC
Q 041795          249 ---EKG--VLDDVNKI--GQLQYLTCGLDRF------------------GPGSRIIITTRDKWIL-DKFGVHDTNVYEVN  302 (471)
Q Consensus       249 ---~~~--VLDdv~~~--~~~~~l~~~~~~~------------------~~gs~IiiTTR~~~v~-~~~~~~~~~~~~l~  302 (471)
                         ..+  +||+++..  ...+.|...+...                  .++.++|.||...... ..+...-...++++
T Consensus        87 ~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~i~l~  166 (324)
T 1hqc_A           87 SLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLE  166 (324)
T ss_dssp             TCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCEEECC
T ss_pred             hccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEEEecC
Confidence               112  88999753  2333333221110                  0235566666543211 11110003579999


Q ss_pred             CCCHHHHHHHHHhccccCC-CCCchHHHHHHHHHHHHhhhhcCCCHHHHHHHHHHhcCCC----C-----Cch---HhHH
Q 041795          303 GLRYHEALELFCNCAFKEN-HCPSGFLASSKRVLKVLGSFFHRKSKLDWEKALENISRIS----D-----PDI---YDVL  369 (471)
Q Consensus       303 ~L~~~ea~~Lf~~~a~~~~-~~~~~~~~l~~~il~~lg~~L~~~~~~~w~~~l~~l~~~~----~-----~~i---~~~l  369 (471)
                      +++.++...++...+.... ..++   +....++...+     -+......+++......    .     ..+   ...+
T Consensus       167 ~~~~~e~~~~l~~~~~~~~~~~~~---~~~~~l~~~~~-----G~~r~l~~~l~~~~~~a~~~~~~~i~~~~~~~~~~~~  238 (324)
T 1hqc_A          167 YYTPEELAQGVMRDARLLGVRITE---EAALEIGRRSR-----GTMRVAKRLFRRVRDFAQVAGEEVITRERALEALAAL  238 (324)
T ss_dssp             CCCHHHHHHHHHHHHHTTTCCCCH---HHHHHHHHHSC-----SCHHHHHHHHHHHTTTSTTTSCSCCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCH---HHHHHHHHHcc-----CCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHh
Confidence            9999999998887653322 1221   22222211111     12233333333321110    0     011   2223


Q ss_pred             HhhccCCChhHHHHHccccccc--CCCCHHHHHHhhcc--cCccchHHH-HhhCCCeeecCCCe
Q 041795          370 KISYNDLSLEEKSIFLDIACFF--AGEEKDYVTRMLDP--NFPHNGLNI-LIAKSLVTVSNDNK  428 (471)
Q Consensus       370 ~~Sy~~L~~~~k~~fl~ls~Fp--~~~~~~~l~~lw~~--~~~~~~l~~-L~~~sLi~~~~~~~  428 (471)
                      ..++..|+..++..+..+....  .......+.+.+..  ......++. +++.++|+....|+
T Consensus       239 ~~~~~~l~~~e~~~i~~~~~~~~g~~~~~~~~a~~lgi~~~tl~~~l~~~~i~~~li~~~~~g~  302 (324)
T 1hqc_A          239 GLDELGLEKRDREILEVLILRFGGGPVGLATLATALSEDPGTLEEVHEPYLIRQGLLKRTPRGR  302 (324)
T ss_dssp             TCCTTCCCHHHHHHHHHHHHHSCSSCCCHHHHHHHTTSCHHHHHHHTHHHHHHTTSEEEETTEE
T ss_pred             cccccCCCHHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHHhHHHHHhcchhcCCccc
Confidence            3445677887777777665432  23456776666543  111222333 88899998765443

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.16  E-value=5.5e-06  Score=80.19  Aligned_cols=133  Identities=16%  Similarity=0.199  Sum_probs=86.9

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc-cccc-eEeee--------h----hhhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK-EFEG-NCFLG--------N----VREE  247 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~-~~~~~--------~----~~~~  247 (471)
                      ...+++|++..++.+.+++..+  ..+.+.++|.+|+|||++|+.+++.+.. .+.. ...+.        .    +...
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (319)
T 2chq_A           15 TLDEVVGQDEVIQRLKGYVERK--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEF   92 (319)
T ss_dssp             SGGGSCSCHHHHHHHHTTTTTT--CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTSSHHHHHH
T ss_pred             CHHHHhCCHHHHHHHHHHHhCC--CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHHHHHHHHH
Confidence            3356899999999999988743  2334899999999999999999987522 1110 11111        0    1111


Q ss_pred             h----h--c----CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhh-CcCCCceEEeCCCCHHHHHHHH
Q 041795          248 S----E--K----GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKF-GVHDTNVYEVNGLRYHEALELF  313 (471)
Q Consensus       248 ~----~--~----~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~-~~~~~~~~~l~~L~~~ea~~Lf  313 (471)
                      .    .  .    -++|+++.  ....+.|...+.....++++|+||.... +...+ ..  ...+++++++.++...++
T Consensus        93 ~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr--~~~i~~~~~~~~~~~~~l  170 (319)
T 2chq_A           93 ARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSR--CAVFRFKPVPKEAMKKRL  170 (319)
T ss_dssp             HHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTT--CEEEECCCCCHHHHHHHH
T ss_pred             HhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhh--CeEEEecCCCHHHHHHHH
Confidence            1    0  1    18899864  3455667766666566788888886653 11111 11  357999999999999988


Q ss_pred             Hhccc
Q 041795          314 CNCAF  318 (471)
Q Consensus       314 ~~~a~  318 (471)
                      ...+-
T Consensus       171 ~~~~~  175 (319)
T 2chq_A          171 LEICE  175 (319)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87653

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.15  E-value=6.4e-06  Score=81.73  Aligned_cols=133  Identities=16%  Similarity=0.165  Sum_probs=85.5

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcccc---------------------ceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE---------------------GNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~---------------------~~~~  240 (471)
                      ...+++|++..++.+...+..+. ....+.|+|.+|+||||+|+.+++.+.....                     ....
T Consensus        14 ~~~~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (373)
T 1jr3_A           14 TFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIE   92 (373)
T ss_dssp             STTTSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCSSCEE
T ss_pred             chhhccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCCceEE
Confidence            34569999999999999887433 2357889999999999999999887543211                     0111


Q ss_pred             ee--------hhhhhhhc------------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChhh-hhhh-CcCCC
Q 041795          241 LG--------NVREESEK------------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKWI-LDKF-GVHDT  296 (471)
Q Consensus       241 ~~--------~~~~~~~~------------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~v-~~~~-~~~~~  296 (471)
                      +.        .+++....            -|+||++.  ....+.|...+.....+..+|++|.+..- ...+ ..  .
T Consensus        93 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr--~  170 (373)
T 1jr3_A           93 IDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR--C  170 (373)
T ss_dssp             EETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTT--S
T ss_pred             ecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhh--e
Confidence            11        11111100            18899863  44555565554444556777877765432 1111 12  4


Q ss_pred             ceEEeCCCCHHHHHHHHHhcc
Q 041795          297 NVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..+++++++.++...++...+
T Consensus       171 ~~i~~~~l~~~~~~~~l~~~~  191 (373)
T 1jr3_A          171 LQFHLKALDVEQIRHQLEHIL  191 (373)
T ss_dssp             EEEECCCCCHHHHHHHHHHHH
T ss_pred             eEeeCCCCCHHHHHHHHHHHH
Confidence            579999999999999887654

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.14  E-value=2.9e-06  Score=78.44  Aligned_cols=133  Identities=14%  Similarity=0.153  Sum_probs=75.8

Q ss_pred             CCCCccccc---hhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhhhh----------h
Q 041795          182 NFDGLVGLN---SRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREE----------S  248 (471)
Q Consensus       182 ~~~~~vGr~---~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~~~----------~  248 (471)
                      ..++|+|.+   ..++.+..++...  ..+.+.|+|.+|+||||||+.+++..........++....-.          .
T Consensus        26 ~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (242)
T 3bos_A           26 TFTSYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIHASISTALLEGLE  103 (242)
T ss_dssp             STTTSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGGGSCGGGGTTGG
T ss_pred             ChhhccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHHhcc
Confidence            345677743   4455555555432  457889999999999999999998865543334444321110          0


Q ss_pred             hcC--cccccCCHh--h--HHHHhcCCCCC-CCCc-EEEEEeCChh---------hhhhhCcCCCceEEeCCCCHHHHHH
Q 041795          249 EKG--VLDDVNKIG--Q--LQYLTCGLDRF-GPGS-RIIITTRDKW---------ILDKFGVHDTNVYEVNGLRYHEALE  311 (471)
Q Consensus       249 ~~~--VLDdv~~~~--~--~~~l~~~~~~~-~~gs-~IiiTTR~~~---------v~~~~~~~~~~~~~l~~L~~~ea~~  311 (471)
                      ...  ++||++...  .  .+.+...+... ..+. ++|+||+...         +...+..  ...+++++++.++..+
T Consensus       104 ~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~--~~~i~l~~~~~~~~~~  181 (242)
T 3bos_A          104 QFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHW--GLTYQLQPMMDDEKLA  181 (242)
T ss_dssp             GSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHH--SEEEECCCCCGGGHHH
T ss_pred             CCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhc--CceEEeCCCCHHHHHH
Confidence            011  889986421  1  22232221110 1222 4777776322         1222211  2679999999999999


Q ss_pred             HHHhccc
Q 041795          312 LFCNCAF  318 (471)
Q Consensus       312 Lf~~~a~  318 (471)
                      ++...+-
T Consensus       182 ~l~~~~~  188 (242)
T 3bos_A          182 ALQRRAA  188 (242)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8887653

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.11  E-value=6e-06  Score=79.84  Aligned_cols=130  Identities=16%  Similarity=0.133  Sum_probs=81.8

Q ss_pred             CccccchhHHHHHHhhhc-------------CCCCceEEEEeccCcchhhhHHHHHHHhhhcccc----ceEeeehh---
Q 041795          185 GLVGLNSRIEKIKSLLCI-------------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE----GNCFLGNV---  244 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~-------------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~----~~~~~~~~---  244 (471)
                      .++|.+..++.|.+++..             .......+.|+|.+|+|||+||+.+++.+.....    ..+.+...   
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            478999888888876541             1234557899999999999999999887543211    11111100   


Q ss_pred             -----------hhhh---hcC--cccccC-----------CHhhHHHHhcCCCCCCCCcEEEEEeCChh----------h
Q 041795          245 -----------REES---EKG--VLDDVN-----------KIGQLQYLTCGLDRFGPGSRIIITTRDKW----------I  287 (471)
Q Consensus       245 -----------~~~~---~~~--VLDdv~-----------~~~~~~~l~~~~~~~~~gs~IiiTTR~~~----------v  287 (471)
                                 ....   ..+  +||+++           .......|...+.....+..+|.||....          +
T Consensus       112 ~~~~g~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l  191 (309)
T 3syl_A          112 GQYIGHTAPKTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGF  191 (309)
T ss_dssp             CSSTTCHHHHHHHHHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTH
T ss_pred             hhcccccHHHHHHHHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHH
Confidence                       0000   011  789987           33444555555444445677888886432          2


Q ss_pred             hhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          288 LDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       288 ~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      ...+    ...+++++++.++-..++...+-
T Consensus       192 ~~R~----~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          192 RSRI----AHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             HHHE----EEEEEECCCCHHHHHHHHHHHHH
T ss_pred             HHhC----CeEEEcCCcCHHHHHHHHHHHHH
Confidence            2222    36799999999999998877653

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.09  E-value=1.4e-05  Score=78.34  Aligned_cols=249  Identities=14%  Similarity=0.162  Sum_probs=127.7

Q ss_pred             CCCCccccchhHHHHHHhhhcC---CCCceEEEEeccCcchhhhHHHHHHHhhhccccceEe--eehhhhh---hh---c
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIG---RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF--LGNVREE---SE---K  250 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~--~~~~~~~---~~---~  250 (471)
                      ....++|++..++.+..++...   ......+.|+|.+|+|||+||+.+++.....|-..--  +......   ..   .
T Consensus        27 ~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  106 (338)
T 3pfi_A           27 NFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEKSGDLAAILTNLSE  106 (338)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCSHHHHHHHHHTCCT
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccchhHHHHHHHhccC
Confidence            3457999999999999888632   3345678999999999999999998876544321110  0011111   10   1


Q ss_pred             -C--cccccCCH--hhHHHHhcCCCCC------------------CCCcEEEEEeCChhhh-hhhCcCCCceEEeCCCCH
Q 041795          251 -G--VLDDVNKI--GQLQYLTCGLDRF------------------GPGSRIIITTRDKWIL-DKFGVHDTNVYEVNGLRY  306 (471)
Q Consensus       251 -~--VLDdv~~~--~~~~~l~~~~~~~------------------~~gs~IiiTTR~~~v~-~~~~~~~~~~~~l~~L~~  306 (471)
                       +  +||+++..  .....|...+...                  .++..+|.+|...... ..+...-...+++++++.
T Consensus       107 ~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~~~~i~l~~~~~  186 (338)
T 3pfi_A          107 GDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFGMQFRLEFYKD  186 (338)
T ss_dssp             TCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTCSEEEECCCCCH
T ss_pred             CCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhcCEEeeCCCcCH
Confidence             1  78998742  3333333222111                  1124566666543221 111000035799999999


Q ss_pred             HHHHHHHHhccccCC-CCCchHHHHHHHHHHHHhhhhcCCCHHHHHHHHHHh------cCCC---CCch---HhHHHhhc
Q 041795          307 HEALELFCNCAFKEN-HCPSGFLASSKRVLKVLGSFFHRKSKLDWEKALENI------SRIS---DPDI---YDVLKISY  373 (471)
Q Consensus       307 ~ea~~Lf~~~a~~~~-~~~~~~~~l~~~il~~lg~~L~~~~~~~w~~~l~~l------~~~~---~~~i---~~~l~~Sy  373 (471)
                      ++...++...+-... ...   .+....++...     ..+..+-..+++..      ....   ...+   ...+..+.
T Consensus       187 ~e~~~il~~~~~~~~~~~~---~~~~~~l~~~~-----~G~~r~l~~~l~~~~~~a~~~~~~~i~~~~~~~~~~~~~~~~  258 (338)
T 3pfi_A          187 SELALILQKAALKLNKTCE---EKAALEIAKRS-----RSTPRIALRLLKRVRDFADVNDEEIITEKRANEALNSLGVNE  258 (338)
T ss_dssp             HHHHHHHHHHHHHTTCEEC---HHHHHHHHHTT-----TTCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHTCCT
T ss_pred             HHHHHHHHHHHHhcCCCCC---HHHHHHHHHHH-----CcCHHHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHhCCcc
Confidence            999998887653221 111   11111111111     11122222222221      0000   0111   22233445


Q ss_pred             cCCChhHHHHHccccccc-CCCCHHHHHHhhcc--cCccchHH-HHhhCCCeeecCCCeEEecHHHHHH
Q 041795          374 NDLSLEEKSIFLDIACFF-AGEEKDYVTRMLDP--NFPHNGLN-ILIAKSLVTVSNDNKIQMHDLLQEM  438 (471)
Q Consensus       374 ~~L~~~~k~~fl~ls~Fp-~~~~~~~l~~lw~~--~~~~~~l~-~L~~~sLi~~~~~~~~~mHdlv~~~  438 (471)
                      ..++..++..+..++-.. .......+.+.+..  ......++ .|++.++|.....|+....--+.-+
T Consensus       259 ~~l~~~e~~~l~~l~~~~~~~~~~~~~a~~lg~~~~tl~~~l~~~l~~~gli~~~~~g~~~t~~~~~~~  327 (338)
T 3pfi_A          259 LGFDAMDLRYLELLTAAKQKPIGLASIAAALSEDENTIEDVIEPYLLANGYIERTAKGRIASAKSYSAL  327 (338)
T ss_dssp             TCCCHHHHHHHHHHHHSCSCCBCHHHHHHHTTCCHHHHHHTTHHHHHHTTSEEEETTEEEECHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHHhHHHHHcCceecCCCcccccHHHHHHh
Confidence            556665566665555442 12356666665543  22233455 8999999998766665554444333

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.02  E-value=4.5e-05  Score=75.50  Aligned_cols=71  Identities=21%  Similarity=0.352  Sum_probs=50.4

Q ss_pred             hhHHHHHHHHhhhhcccccccccCCCCccccchhHHHHHHhhhc----------CCCCceEEEEeccCcchhhhHHHHHH
Q 041795          159 EAELVDVIVKDILKKLENITVSTNFDGLVGLNSRIEKIKSLLCI----------GRPDFRIVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       159 e~~~i~~i~~~v~~~l~~~~~~~~~~~~vGr~~~~~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~  228 (471)
                      +...++.+...+....+..    ..++++|.+..++.|.+.+..          .....+.+.|+|.+|+|||+||+.++
T Consensus        63 ~~~~~~~i~~~i~~~~~~~----~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia  138 (357)
T 3d8b_A           63 EPKMIELIMNEIMDHGPPV----NWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIA  138 (357)
T ss_dssp             CHHHHHHHHHHTBCCSCCC----CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHH
T ss_pred             ChHHHHHHHhhcccCCCCC----CHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHH
Confidence            4455555555554443222    345799999999999987742          12345689999999999999999999


Q ss_pred             Hhhhc
Q 041795          229 NLIYK  233 (471)
Q Consensus       229 ~~~~~  233 (471)
                      +....
T Consensus       139 ~~~~~  143 (357)
T 3d8b_A          139 SQSGA  143 (357)
T ss_dssp             HHTTC
T ss_pred             HHcCC
Confidence            87643

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.01  E-value=4.4e-06  Score=71.56  Aligned_cols=98  Identities=19%  Similarity=0.081  Sum_probs=57.6

Q ss_pred             CccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc-cccceEeeehh--hh---------hhhcC-
Q 041795          185 GLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK-EFEGNCFLGNV--RE---------ESEKG-  251 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~~~~~--~~---------~~~~~-  251 (471)
                      +++|++..++++.+.+..-.....-|.|+|.+|+|||++|+.+++.... .....  +...  ..         ....+ 
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v--~~~~~~~~~~~~~~~~~~a~~g~   79 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV--YRELTPDNAPQLNDFIALAQGGT   79 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE--EEECCTTTSSCHHHHHHHHTTSC
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE--EECCCCCcchhhhcHHHHcCCcE
Confidence            5789999999999887532223345789999999999999999886422 11111  2111  00         01112 


Q ss_pred             -cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCC
Q 041795          252 -VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRD  284 (471)
Q Consensus       252 -VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~  284 (471)
                       +||+++.  ......|...+.......++|.||..
T Consensus        80 l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~  115 (145)
T 3n70_A           80 LVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDT  115 (145)
T ss_dssp             EEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESS
T ss_pred             EEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCc
Confidence             8899974  23333444333323345678777764

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=97.89  E-value=8.1e-05  Score=70.55  Aligned_cols=132  Identities=22%  Similarity=0.233  Sum_probs=73.0

Q ss_pred             CCccccchhHHHHHH-------hhhc-CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceE----ee--------eh
Q 041795          184 DGLVGLNSRIEKIKS-------LLCI-GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC----FL--------GN  243 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~-------~L~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~----~~--------~~  243 (471)
                      ..++|....++.+..       .+.. .......+.|+|.+|+|||+||+.+++.....|-...    ++        ..
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~~~~  112 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQA  112 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHHHHH
Confidence            457777777666655       2221 2345678999999999999999999987543321110    00        00


Q ss_pred             hhhhhh------cC--cccccCCH------------hhHHHHhcCCC---CCCCCcEEEEEeCChhhhhhhCc-CC-Cce
Q 041795          244 VREESE------KG--VLDDVNKI------------GQLQYLTCGLD---RFGPGSRIIITTRDKWILDKFGV-HD-TNV  298 (471)
Q Consensus       244 ~~~~~~------~~--VLDdv~~~------------~~~~~l~~~~~---~~~~gs~IiiTTR~~~v~~~~~~-~~-~~~  298 (471)
                      +.....      .+  +||+++..            ..++.|...+.   ..+....||.||.....+..... .. ...
T Consensus       113 ~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~rf~~~  192 (272)
T 1d2n_A          113 MKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTT  192 (272)
T ss_dssp             HHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEE
T ss_pred             HHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhcccceE
Confidence            011000      01  78998542            12233333222   22334557778887755443111 00 356


Q ss_pred             EEeCCCCH-HHHHHHHHh
Q 041795          299 YEVNGLRY-HEALELFCN  315 (471)
Q Consensus       299 ~~l~~L~~-~ea~~Lf~~  315 (471)
                      +++++++. ++-..++..
T Consensus       193 i~~p~l~~r~~i~~i~~~  210 (272)
T 1d2n_A          193 IHVPNIATGEQLLEALEL  210 (272)
T ss_dssp             EECCCEEEHHHHHHHHHH
T ss_pred             EcCCCccHHHHHHHHHHh
Confidence            88999988 555555544

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=97.88  E-value=7e-05  Score=72.97  Aligned_cols=133  Identities=17%  Similarity=0.199  Sum_probs=79.7

Q ss_pred             CCCCccccchhHHHHHHhhh----------cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceE-------eeehh
Q 041795          182 NFDGLVGLNSRIEKIKSLLC----------IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC-------FLGNV  244 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~----------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~-------~~~~~  244 (471)
                      .-.+++|.+..++.|.+.+.          ......+-+.|+|.+|+|||+||+.+++.....|-..-       |+...
T Consensus        16 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~~   95 (322)
T 3eie_A           16 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGES   95 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHTTTGGGH
T ss_pred             CHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhhcccchH
Confidence            44678999999999998772          11223467999999999999999999987654432111       00000


Q ss_pred             ----hhhhh----c----CcccccCCHh-------------hHHHHhcCCC---CCCCCcEEEEEeCChhh-----hhhh
Q 041795          245 ----REESE----K----GVLDDVNKIG-------------QLQYLTCGLD---RFGPGSRIIITTRDKWI-----LDKF  291 (471)
Q Consensus       245 ----~~~~~----~----~VLDdv~~~~-------------~~~~l~~~~~---~~~~gs~IiiTTR~~~v-----~~~~  291 (471)
                          +....    .    -+||+++...             ....++..+.   ....+..||.||.....     ...+
T Consensus        96 ~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~ld~al~~Rf  175 (322)
T 3eie_A           96 EKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRRF  175 (322)
T ss_dssp             HHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGSCHHHHHHC
T ss_pred             HHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceEEEEecCChhhCCHHHHccc
Confidence                00000    0    1788886321             1222322221   22345666667765432     2222


Q ss_pred             CcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          292 GVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       292 ~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                          ...+.++..+.++-.+++..++.
T Consensus       176 ----~~~i~~~~p~~~~r~~il~~~~~  198 (322)
T 3eie_A          176 ----ERRIYIPLPDLAARTTMFEINVG  198 (322)
T ss_dssp             ----CEEEECCCCCHHHHHHHHHHHHT
T ss_pred             ----CeEEEeCCCCHHHHHHHHHHHhc
Confidence                45678899999999998887663

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=97.87  E-value=2.4e-05  Score=73.48  Aligned_cols=134  Identities=19%  Similarity=0.200  Sum_probs=75.6

Q ss_pred             CCCCccccchhHHHHHHhhhc----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceE-------eeeh-
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC-------FLGN-  243 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~-------~~~~-  243 (471)
                      ..++++|.+..++.|.+++..          +....+.+.|+|.+|+|||+||+.+++.....|-..-       |... 
T Consensus         4 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~   83 (262)
T 2qz4_A            4 SFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLG   83 (262)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSSTTHH
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhccChh
Confidence            345689999888888776531          1123467889999999999999999987644321100       0000 


Q ss_pred             ---hhhhh----h--c--CcccccCCH-----------------hhHHHHhcCCCC--CCCCcEEEEEeCChhhhhh-h-
Q 041795          244 ---VREES----E--K--GVLDDVNKI-----------------GQLQYLTCGLDR--FGPGSRIIITTRDKWILDK-F-  291 (471)
Q Consensus       244 ---~~~~~----~--~--~VLDdv~~~-----------------~~~~~l~~~~~~--~~~gs~IiiTTR~~~v~~~-~-  291 (471)
                         .....    .  .  -+||+++..                 ..+..++..+..  ...+..||.||........ . 
T Consensus        84 ~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~~l~  163 (262)
T 2qz4_A           84 AARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALM  163 (262)
T ss_dssp             HHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGSGGG
T ss_pred             HHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCHHHh
Confidence               00000    0  0  178998643                 112233322221  1235567777765442211 1 


Q ss_pred             ---CcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          292 ---GVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       292 ---~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                         ..  ...+.++.++.++-.+++...+
T Consensus       164 ~~~R~--~~~i~i~~p~~~~r~~il~~~~  190 (262)
T 2qz4_A          164 RPGRL--DRHVFIDLPTLQERREIFEQHL  190 (262)
T ss_dssp             STTSC--CEEEECCSCCHHHHHHHHHHHH
T ss_pred             cCCcC--CeEEEeCCcCHHHHHHHHHHHH
Confidence               11  3578899999999888887765

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.83  E-value=1.7e-05  Score=78.04  Aligned_cols=134  Identities=16%  Similarity=0.216  Sum_probs=81.8

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc--ccce-Eeee--------h----hhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE--FEGN-CFLG--------N----VRE  246 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--f~~~-~~~~--------~----~~~  246 (471)
                      ....++|++..++.+...+..+.  ...+.|+|.+|+||||+|+.+++.+...  +... ..+.        .    ...
T Consensus        35 ~~~~i~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (353)
T 1sxj_D           35 NLDEVTAQDHAVTVLKKTLKSAN--LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKN  112 (353)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCTT--CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHH
T ss_pred             CHHHhhCCHHHHHHHHHHHhcCC--CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHHHHHHH
Confidence            44679999999999999987443  2238999999999999999998875421  1111 1111        0    111


Q ss_pred             hhh-----------------c---CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCCceEEeCC
Q 041795          247 ESE-----------------K---GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDTNVYEVNG  303 (471)
Q Consensus       247 ~~~-----------------~---~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~~~~~l~~  303 (471)
                      ...                 .   -++|+++.  ....+.|...+.......++|++|.... +...+.. ....+++++
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~s-R~~~i~~~~  191 (353)
T 1sxj_D          113 FARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLAS-QCSKFRFKA  191 (353)
T ss_dssp             HHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHH-HSEEEECCC
T ss_pred             HhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhc-cCceEEeCC
Confidence            110                 0   17898863  3334444444333344667777775442 2111110 034689999


Q ss_pred             CCHHHHHHHHHhccc
Q 041795          304 LRYHEALELFCNCAF  318 (471)
Q Consensus       304 L~~~ea~~Lf~~~a~  318 (471)
                      ++.++....+...+-
T Consensus       192 ~~~~~~~~~l~~~~~  206 (353)
T 1sxj_D          192 LDASNAIDRLRFISE  206 (353)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999998887653

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=97.78  E-value=9.3e-05  Score=73.19  Aligned_cols=132  Identities=17%  Similarity=0.211  Sum_probs=77.1

Q ss_pred             CCCCccccchhHHHHHHhhhc----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceE-------eeehh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC-------FLGNV  244 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~-------~~~~~  244 (471)
                      .-.+++|.+..++.|.+.+..          .....+-|.|+|.+|+|||+||+.+++.....|-..-       |+...
T Consensus        49 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~~~g~~  128 (355)
T 2qp9_X           49 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGES  128 (355)
T ss_dssp             CGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSCC---C
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhhhcchH
Confidence            345689999999999887631          1122456889999999999999999997654332110       11100


Q ss_pred             h----hhhh------c--CcccccCCHh-------------hHHHHhcCCC---CCCCCcEEEEEeCChh-----hhhhh
Q 041795          245 R----EESE------K--GVLDDVNKIG-------------QLQYLTCGLD---RFGPGSRIIITTRDKW-----ILDKF  291 (471)
Q Consensus       245 ~----~~~~------~--~VLDdv~~~~-------------~~~~l~~~~~---~~~~gs~IiiTTR~~~-----v~~~~  291 (471)
                      .    ....      .  -+||+++...             ....|+..+.   ....+..||.||....     +..  
T Consensus       129 ~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~ld~al~r--  206 (355)
T 2qp9_X          129 EKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--  206 (355)
T ss_dssp             HHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEEEEEEESCGGGSCHHHHH--
T ss_pred             HHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeEEEeecCCcccCCHHHHc--
Confidence            0    0000      0  1789886421             1223322221   1234566666776542     222  


Q ss_pred             CcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          292 GVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       292 ~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..  ...+.++..+.++-..++..+.
T Consensus       207 Rf--~~~i~i~~P~~~~r~~il~~~l  230 (355)
T 2qp9_X          207 RF--ERRIYIPLPDLAARTTMFEINV  230 (355)
T ss_dssp             TC--CEEEECCCCCHHHHHHHHHHHH
T ss_pred             cc--CEEEEeCCcCHHHHHHHHHHHH
Confidence            22  4578899999998888887765

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=97.75  E-value=5.2e-05  Score=77.24  Aligned_cols=132  Identities=17%  Similarity=0.215  Sum_probs=76.5

Q ss_pred             CCcc-ccchhH--HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccc--eEeeehhh-------------
Q 041795          184 DGLV-GLNSRI--EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEG--NCFLGNVR-------------  245 (471)
Q Consensus       184 ~~~v-Gr~~~~--~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~--~~~~~~~~-------------  245 (471)
                      ++|+ |.....  ..+......... ...+.|+|.+|+||||||+.+++.+...+..  ..++....             
T Consensus       105 d~fv~g~~n~~a~~~~~~~a~~~~~-~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~~~~~~~~~~~  183 (440)
T 2z4s_A          105 ENFVVGPGNSFAYHAALEVAKHPGR-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGK  183 (440)
T ss_dssp             GGCCCCTTTHHHHHHHHHHHHSTTS-SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHHHHHHHHHTTC
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCCC-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHccc
Confidence            4455 654433  233333332222 6789999999999999999999987655422  23333110             


Q ss_pred             -----hhhh-c---CcccccCCH----hhHHHHhcCCCC-CCCCcEEEEEeCCh---------hhhhhhCcCCCceEEeC
Q 041795          246 -----EESE-K---GVLDDVNKI----GQLQYLTCGLDR-FGPGSRIIITTRDK---------WILDKFGVHDTNVYEVN  302 (471)
Q Consensus       246 -----~~~~-~---~VLDdv~~~----~~~~~l~~~~~~-~~~gs~IiiTTR~~---------~v~~~~~~~~~~~~~l~  302 (471)
                           .... .   -+|||++..    ...+.+...+.. ...|..||+||.+.         .+...+..  ..++.++
T Consensus       184 ~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~--g~~i~l~  261 (440)
T 2z4s_A          184 LNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQM--GLVAKLE  261 (440)
T ss_dssp             HHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHS--SBCCBCC
T ss_pred             HHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccC--CeEEEeC
Confidence                 0001 1   188998532    222233222211 13577899998763         22232322  3568999


Q ss_pred             CCCHHHHHHHHHhccc
Q 041795          303 GLRYHEALELFCNCAF  318 (471)
Q Consensus       303 ~L~~~ea~~Lf~~~a~  318 (471)
                      +++.++-..++.+.+-
T Consensus       262 ~p~~e~r~~iL~~~~~  277 (440)
T 2z4s_A          262 PPDEETRKSIARKMLE  277 (440)
T ss_dssp             CCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999998887663

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.72  E-value=5.3e-05  Score=73.77  Aligned_cols=132  Identities=18%  Similarity=0.152  Sum_probs=73.5

Q ss_pred             CCcc-ccch--hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhh------hh-------
Q 041795          184 DGLV-GLNS--RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVR------EE-------  247 (471)
Q Consensus       184 ~~~v-Gr~~--~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~------~~-------  247 (471)
                      ++|+ |...  ....+..++.........+.|+|.+|+||||||+.+++.....-...+++....      ..       
T Consensus        11 ~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~   90 (324)
T 1l8q_A           11 ENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGTIN   90 (324)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTCHH
T ss_pred             ccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHcCcHH
Confidence            4565 5433  233444444433224567899999999999999999988643311223332110      00       


Q ss_pred             --h---h-cC--cccccCCHh----hHHHHhcCCCC-CCCCcEEEEEeCCh---------hhhhhhCcCCCceEEeCCCC
Q 041795          248 --S---E-KG--VLDDVNKIG----QLQYLTCGLDR-FGPGSRIIITTRDK---------WILDKFGVHDTNVYEVNGLR  305 (471)
Q Consensus       248 --~---~-~~--VLDdv~~~~----~~~~l~~~~~~-~~~gs~IiiTTR~~---------~v~~~~~~~~~~~~~l~~L~  305 (471)
                        .   . ..  +|||+....    ..+.+...+.. ...|..||+||.+.         .+...+..  ..++++++ +
T Consensus        91 ~~~~~~~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~--~~~i~l~~-~  167 (324)
T 1l8q_A           91 EFRNMYKSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEG--GILVEIEL-D  167 (324)
T ss_dssp             HHHHHHHTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHT--SEEEECCC-C
T ss_pred             HHHHHhcCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccC--ceEEEeCC-C
Confidence              0   0 11  889986432    12222222111 12466788887643         12222222  35689999 9


Q ss_pred             HHHHHHHHHhccc
Q 041795          306 YHEALELFCNCAF  318 (471)
Q Consensus       306 ~~ea~~Lf~~~a~  318 (471)
                      .++-..++...+.
T Consensus       168 ~~e~~~il~~~~~  180 (324)
T 1l8q_A          168 NKTRFKIIKEKLK  180 (324)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998887764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=97.71  E-value=3.7e-05  Score=78.46  Aligned_cols=130  Identities=22%  Similarity=0.327  Sum_probs=77.8

Q ss_pred             CCCCccccchhH---HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEee----ehhhhhhh-----
Q 041795          182 NFDGLVGLNSRI---EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL----GNVREESE-----  249 (471)
Q Consensus       182 ~~~~~vGr~~~~---~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~----~~~~~~~~-----  249 (471)
                      ....++|.+..+   ..|...+..+  ....+.|+|.+|+||||||+.+++.....|-..--.    ..++....     
T Consensus        24 ~l~~ivGq~~~~~~~~~L~~~i~~~--~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~~~~~~ir~~~~~a~~~  101 (447)
T 3pvs_A           24 NLAQYIGQQHLLAAGKPLPRAIEAG--HLHSMILWGPPGTGKTTLAEVIARYANADVERISAVTSGVKEIREAIERARQN  101 (447)
T ss_dssp             STTTCCSCHHHHSTTSHHHHHHHHT--CCCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTTCCHHHHHHHHHHHHHH
T ss_pred             CHHHhCCcHHHHhchHHHHHHHHcC--CCcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEeccCCHHHHHHHHHHHHHh
Confidence            446789998888   6777777644  347899999999999999999999875554321111    11111100     


Q ss_pred             ----c---CcccccCCH--hhHHHHhcCCCCCCCCcEEE-EEeCChhh--h-hhhCcCCCceEEeCCCCHHHHHHHHHhc
Q 041795          250 ----K---GVLDDVNKI--GQLQYLTCGLDRFGPGSRII-ITTRDKWI--L-DKFGVHDTNVYEVNGLRYHEALELFCNC  316 (471)
Q Consensus       250 ----~---~VLDdv~~~--~~~~~l~~~~~~~~~gs~Ii-iTTR~~~v--~-~~~~~~~~~~~~l~~L~~~ea~~Lf~~~  316 (471)
                          .   -+||+++..  .+.+.|+..+.. + ...+| .||.+...  . .....  ..++.+++++.++...++.+.
T Consensus       102 ~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~-~-~v~lI~att~n~~~~l~~aL~sR--~~v~~l~~l~~edi~~il~~~  177 (447)
T 3pvs_A          102 RNAGRRTILFVDEVHRFNKSQQDAFLPHIED-G-TITFIGATTENPSFELNSALLSR--ARVYLLKSLSTEDIEQVLTQA  177 (447)
T ss_dssp             HHTTCCEEEEEETTTCC------CCHHHHHT-T-SCEEEEEESSCGGGSSCHHHHTT--EEEEECCCCCHHHHHHHHHHH
T ss_pred             hhcCCCcEEEEeChhhhCHHHHHHHHHHHhc-C-ceEEEecCCCCcccccCHHHhCc--eeEEeeCCcCHHHHHHHHHHH
Confidence                0   188999642  334444444332 2 22333 35555421  1 11111  457899999999999988776


Q ss_pred             c
Q 041795          317 A  317 (471)
Q Consensus       317 a  317 (471)
                      .
T Consensus       178 l  178 (447)
T 3pvs_A          178 M  178 (447)
T ss_dssp             H
T ss_pred             H
Confidence            5

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.71  E-value=0.00028  Score=68.00  Aligned_cols=130  Identities=20%  Similarity=0.214  Sum_probs=78.3

Q ss_pred             CCCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehh-------
Q 041795          183 FDGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNV-------  244 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~-------  244 (471)
                      -++++|.+..+++|.+.+..           +-...+.+.|+|.+|+|||+||+.+++.....|-   .+...       
T Consensus        14 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i---~v~~~~l~~~~~   90 (301)
T 3cf0_A           14 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFI---SIKGPELLTMWF   90 (301)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEE---EECHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEE---EEEhHHHHhhhc
Confidence            35689999988888877642           2234568999999999999999999987643321   11100       


Q ss_pred             -------hhhhh---c-----CcccccCCHh----------------hHHHHhcCCCC--CCCCcEEEEEeCChhhhhh-
Q 041795          245 -------REESE---K-----GVLDDVNKIG----------------QLQYLTCGLDR--FGPGSRIIITTRDKWILDK-  290 (471)
Q Consensus       245 -------~~~~~---~-----~VLDdv~~~~----------------~~~~l~~~~~~--~~~gs~IiiTTR~~~v~~~-  290 (471)
                             .....   .     -+||+++...                ....|+..+..  ...+..||.||.....+.. 
T Consensus        91 g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~~~~ld~a  170 (301)
T 3cf0_A           91 GESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPA  170 (301)
T ss_dssp             TTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESCGGGSCGG
T ss_pred             CchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCCccccChH
Confidence                   00000   0     1788886321                12233322211  1235677778866533221 


Q ss_pred             -h---CcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          291 -F---GVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       291 -~---~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                       .   ..  ...+.++..+.++-.+++....
T Consensus       171 l~r~gRf--~~~i~i~~p~~~~r~~il~~~l  199 (301)
T 3cf0_A          171 ILRPGRL--DQLIYIPLPDEKSRVAILKANL  199 (301)
T ss_dssp             GGSTTSS--CEEEECCCCCHHHHHHHHHHHH
T ss_pred             HhcCCcc--ceEEecCCcCHHHHHHHHHHHH
Confidence             1   12  4578999999998888876654

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=97.69  E-value=0.00021  Score=72.82  Aligned_cols=134  Identities=19%  Similarity=0.286  Sum_probs=79.7

Q ss_pred             CCCCccccchhHHHHHHhhhc----------CCCCceEEEEeccCcchhhhHHHHHHHhh-hcccc---ce----Eeeeh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLI-YKEFE---GN----CFLGN  243 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~-~~~f~---~~----~~~~~  243 (471)
                      .-++++|.+..++.|.+.+..          .....+.+.|+|++|+|||+||+.+++.. ...|-   +.    .|+..
T Consensus       132 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~~~~g~  211 (444)
T 2zan_A          132 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGE  211 (444)
T ss_dssp             CGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC---------
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHhhhcch
Confidence            446789999999999886631          11235789999999999999999999876 32221   00    01110


Q ss_pred             ----hhhhhh----c----CcccccCCH-------------hhHHHHhcCCCCC---CCCcEEEEEeCChhhhhh--h-C
Q 041795          244 ----VREESE----K----GVLDDVNKI-------------GQLQYLTCGLDRF---GPGSRIIITTRDKWILDK--F-G  292 (471)
Q Consensus       244 ----~~~~~~----~----~VLDdv~~~-------------~~~~~l~~~~~~~---~~gs~IiiTTR~~~v~~~--~-~  292 (471)
                          ++....    .    -+||+++..             .....|+..+...   ..+..||.||.....+..  . .
T Consensus       212 ~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn~~~~ld~al~rR  291 (444)
T 2zan_A          212 SEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRR  291 (444)
T ss_dssp             CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEESCGGGSCHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEEEEecCCCccccCHHHHhh
Confidence                011000    0    178988643             1234455544432   345667777765432211  0 1


Q ss_pred             cCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          293 VHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       293 ~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .  ...+.++..+.++-..+|..+.
T Consensus       292 f--~~~i~i~~P~~~~r~~il~~~l  314 (444)
T 2zan_A          292 F--EKRIYIPLPEAHARAAMFRLHL  314 (444)
T ss_dssp             C--CEEEECCCCCHHHHHHHHHHHH
T ss_pred             c--ceEEEeCCcCHHHHHHHHHHHH
Confidence            2  3578888888888888887765

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=97.68  E-value=4.2e-05  Score=72.23  Aligned_cols=52  Identities=27%  Similarity=0.264  Sum_probs=39.3

Q ss_pred             CCCCccccchhHHHHHHhhhc----------CCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..++++|.+..++.+.+.+..          +....+-+.|+|.+|+|||+||+.+++....
T Consensus         9 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~   70 (268)
T 2r62_A            9 RFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV   70 (268)
T ss_dssp             CSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTC
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCC
Confidence            446799999999888876641          1122344789999999999999999987543

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.64  E-value=0.00027  Score=69.87  Aligned_cols=51  Identities=27%  Similarity=0.259  Sum_probs=39.1

Q ss_pred             CCCccccchhHHHHHH---hhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          183 FDGLVGLNSRIEKIKS---LLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~---~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .+.++|++..++.+..   .+..+....+.+.|+|.+|+|||+||+.+++.+..
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~   96 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGP   96 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCS
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            4679999988776544   44433333468999999999999999999988653

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.64  E-value=0.00027  Score=68.84  Aligned_cols=132  Identities=19%  Similarity=0.253  Sum_probs=76.2

Q ss_pred             CCCCccccchhHHHHHHhhhc---------C-CCCceEEEEeccCcchhhhHHHHHHHhh-hccccce-------Eeeeh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI---------G-RPDFRIVGIWGMGGTGKTTLAGAIFNLI-YKEFEGN-------CFLGN  243 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~---------~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~-~~~f~~~-------~~~~~  243 (471)
                      .-++++|.+..++.|.+.+..         + ....+-+.|+|++|+|||+||+.+++.. ...|-..       -|+..
T Consensus        10 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~~~~g~   89 (322)
T 1xwi_A           10 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGE   89 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCCSSCCS
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHhhhhhH
Confidence            345688999888888876531         1 1234789999999999999999999876 3222110       01111


Q ss_pred             h----hhhhh----c----CcccccCCH-------------hhHHHHhcCCC---CCCCCcEEEEEeCChh-----hhhh
Q 041795          244 V----REESE----K----GVLDDVNKI-------------GQLQYLTCGLD---RFGPGSRIIITTRDKW-----ILDK  290 (471)
Q Consensus       244 ~----~~~~~----~----~VLDdv~~~-------------~~~~~l~~~~~---~~~~gs~IiiTTR~~~-----v~~~  290 (471)
                      .    +....    .    -+||+++..             .....++..+.   ....+..||.||....     +.. 
T Consensus        90 ~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al~r-  168 (322)
T 1xwi_A           90 SEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR-  168 (322)
T ss_dssp             CHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHHHH-
T ss_pred             HHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHHHh-
Confidence            0    00000    0    178888643             11122222221   1234555666675442     222 


Q ss_pred             hCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          291 FGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       291 ~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                       ..  ...+.++..+.++-..++..+.
T Consensus       169 -Rf--~~~i~i~~P~~~~r~~il~~~l  192 (322)
T 1xwi_A          169 -RF--EKRIYIPLPEPHARAAMFKLHL  192 (322)
T ss_dssp             -TC--CEEEECCCCCHHHHHHHHHHHH
T ss_pred             -hc--CeEEEeCCcCHHHHHHHHHHHH
Confidence             22  4578899889888888887765

>1eiw_A Hypothetical protein MTH538; CHEY-like fold, flavodoxin-like fold, (A/B)5 doubly wound fold, parallel beta sheet; NMR {Methanothermobacterthermautotrophicus} SCOP: c.23.3.1

Probab=97.62  E-value=9.5e-05  Score=59.76  Aligned_cols=71  Identities=4%  Similarity=0.008  Sum_probs=53.0

Q ss_pred             CceeEEEcccccccCcchHHHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccchhhHHHHHH
Q 041795           10 SKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVK   89 (471)
Q Consensus        10 ~~~dvFiS~~~~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~   89 (471)
                      ..|.+||||+..|    -.+.|...|.+.|+. |.|               ..|+.|.++|++.++...+|+||..|+..
T Consensus         3 ~~~~lFISh~~~d----~~~~L~~~l~~~~f~-~~~---------------~~I~~~~~vIvL~G~~t~~s~wv~~EI~~   62 (111)
T 1eiw_A            3 AEIRLYITEGEVE----DYRVFLERLEQSGLE-WRP---------------ATPEDADAVIVLAGLWGTRRDEILGAVDL   62 (111)
T ss_dssp             CCEEEEECCCCSH----HHHHHHHHHHHHCSC-EEE---------------CCSSSCSEEEEEGGGTTTSHHHHHHHHHH
T ss_pred             ceEEEEEecccHh----HHHHHHHHHhCCCCe-eec---------------CccccCCEEEEEeCCCcCCChHHHHHHHH
Confidence            4689999999998    255566666555654 233               66899999999999999999999999987


Q ss_pred             HHHhhhcCCCeEEeE
Q 041795           90 ILECKSTNGQIVVPV  104 (471)
Q Consensus        90 ~~~~~~~~~~~viPi  104 (471)
                      +.+    .+..++-|
T Consensus        63 A~~----~gkpIigV   73 (111)
T 1eiw_A           63 ARK----SSKPIITV   73 (111)
T ss_dssp             HTT----TTCCEEEE
T ss_pred             HHH----cCCCEEEE
Confidence            754    34445543

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=97.61  E-value=5.8e-05  Score=73.46  Aligned_cols=123  Identities=21%  Similarity=0.220  Sum_probs=77.5

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee-------hhhh----hhhc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG-------NVRE----ESEK  250 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~-------~~~~----~~~~  250 (471)
                      ..++++|.+..++.+.+++..+. ...++.+.|.+|+|||++|+.+++.+...|   ..+.       .+++    ....
T Consensus        24 ~~~~ivg~~~~~~~l~~~l~~~~-~~~~~L~~G~~G~GKT~la~~la~~l~~~~---~~i~~~~~~~~~i~~~~~~~~~~   99 (324)
T 3u61_B           24 TIDECILPAFDKETFKSITSKGK-IPHIILHSPSPGTGKTTVAKALCHDVNADM---MFVNGSDCKIDFVRGPLTNFASA   99 (324)
T ss_dssp             STTTSCCCHHHHHHHHHHHHTTC-CCSEEEECSSTTSSHHHHHHHHHHHTTEEE---EEEETTTCCHHHHHTHHHHHHHB
T ss_pred             CHHHHhCcHHHHHHHHHHHHcCC-CCeEEEeeCcCCCCHHHHHHHHHHHhCCCE---EEEcccccCHHHHHHHHHHHHhh
Confidence            44679999999999999987432 346788889999999999999998864332   1111       1111    1110


Q ss_pred             ---------CcccccCCHh---hHHHHhcCCCCCCCCcEEEEEeCChhhh-hhh-CcCCCceEEeCCCCHHHHH
Q 041795          251 ---------GVLDDVNKIG---QLQYLTCGLDRFGPGSRIIITTRDKWIL-DKF-GVHDTNVYEVNGLRYHEAL  310 (471)
Q Consensus       251 ---------~VLDdv~~~~---~~~~l~~~~~~~~~gs~IiiTTR~~~v~-~~~-~~~~~~~~~l~~L~~~ea~  310 (471)
                               -++|+++...   ..+.|...+.....+.++|+||....-. ..+ ..  ...+++++++.++-.
T Consensus       100 ~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR--~~~i~~~~~~~~e~~  171 (324)
T 3u61_B          100 ASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSR--CRVITFGQPTDEDKI  171 (324)
T ss_dssp             CCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHH--SEEEECCCCCHHHHH
T ss_pred             cccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhh--CcEEEeCCCCHHHHH
Confidence                     1899998543   4455544433333567888888764311 100 01  346899999988743

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.59  E-value=9e-05  Score=72.91  Aligned_cols=133  Identities=14%  Similarity=0.153  Sum_probs=81.0

Q ss_pred             CCCCccccchhHHHHHHhh-hcCCCCceEEEEeccCcchhhhHHHHHHHhhhcccc------------------------
Q 041795          182 NFDGLVGLNSRIEKIKSLL-CIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE------------------------  236 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~------------------------  236 (471)
                      ...+++|.+..++.+.+++ ..+. ... +.|+|..|+||||||+.++..+...-.                        
T Consensus        12 ~~~~~vg~~~~~~~l~~~~~~~~~-~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~   89 (354)
T 1sxj_E           12 SLNALSHNEELTNFLKSLSDQPRD-LPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVS   89 (354)
T ss_dssp             SGGGCCSCHHHHHHHHTTTTCTTC-CCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEE
T ss_pred             CHHHhcCCHHHHHHHHHHHhhCCC-CCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeec
Confidence            3356899999999999888 4332 233 899999999999999999885321100                        


Q ss_pred             --ceEeeeh----------hhhh----h--------------h-c---CcccccCC--HhhHHHHhcCCCCCCCCcEEEE
Q 041795          237 --GNCFLGN----------VREE----S--------------E-K---GVLDDVNK--IGQLQYLTCGLDRFGPGSRIII  280 (471)
Q Consensus       237 --~~~~~~~----------~~~~----~--------------~-~---~VLDdv~~--~~~~~~l~~~~~~~~~gs~Iii  280 (471)
                        ....+..          +++.    .              . .   -+||++..  ....+.|...+.....++.+|+
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~~~Il  169 (354)
T 1sxj_E           90 SPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIM  169 (354)
T ss_dssp             CSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEE
T ss_pred             ccceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCCCEEEE
Confidence              0111110          1110    0              0 1   17888864  3333444443333345678888


Q ss_pred             EeCChh-hhhhh-CcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          281 TTRDKW-ILDKF-GVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       281 TTR~~~-v~~~~-~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      +|.+.. +...+ ..  ...+++++++.++....+...+-
T Consensus       170 ~t~~~~~l~~~l~sR--~~~~~~~~~~~~~~~~~l~~~~~  207 (354)
T 1sxj_E          170 VCDSMSPIIAPIKSQ--CLLIRCPAPSDSEISTILSDVVT  207 (354)
T ss_dssp             EESCSCSSCHHHHTT--SEEEECCCCCHHHHHHHHHHHHH
T ss_pred             EeCCHHHHHHHHHhh--ceEEecCCcCHHHHHHHHHHHHH
Confidence            887642 22211 12  35799999999999998887653

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.57  E-value=0.00019  Score=71.86  Aligned_cols=53  Identities=25%  Similarity=0.345  Sum_probs=41.3

Q ss_pred             CCCCccccchhHHHHHHhhhc----------CCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+++|.+..++.|.+++..          .....+.+.|+|.+|+|||+||+.+++.....
T Consensus       113 ~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~~  175 (389)
T 3vfd_A          113 KFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNAT  175 (389)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTCE
T ss_pred             ChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcCc
Confidence            446799999999999987731          01224689999999999999999998875443

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.54  E-value=0.0003  Score=73.17  Aligned_cols=130  Identities=18%  Similarity=0.162  Sum_probs=77.7

Q ss_pred             CCCCccccchhHHHHHHhhhcC---------------CCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeeh---
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIG---------------RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGN---  243 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~---------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~---  243 (471)
                      ....++|++..+++|.++|...               .+..+.+.|+|++|+||||||+.+++.....|  . .+..   
T Consensus        37 ~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~--i-~in~s~~  113 (516)
T 1sxj_A           37 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDI--L-EQNASDV  113 (516)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEE--E-EECTTSC
T ss_pred             CHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCE--E-EEeCCCc
Confidence            3457999999999999998631               01347899999999999999999998763211  1 1110   


Q ss_pred             ---------hh---------hh---h-------hc---CcccccCCH-----hhHHHHhcCCCCCCCCcEEEEEeCChh-
Q 041795          244 ---------VR---------EE---S-------EK---GVLDDVNKI-----GQLQYLTCGLDRFGPGSRIIITTRDKW-  286 (471)
Q Consensus       244 ---------~~---------~~---~-------~~---~VLDdv~~~-----~~~~~l~~~~~~~~~gs~IiiTTR~~~-  286 (471)
                               +.         ..   .       ..   -+||+++..     ..+..|...+..  .+..||+++.+.. 
T Consensus       114 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iIli~~~~~~  191 (516)
T 1sxj_A          114 RSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLILICNERNL  191 (516)
T ss_dssp             CCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEEEESCTTS
T ss_pred             chHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEEEEEcCCCC
Confidence                     00         00   0       01   178998632     112333322221  2334666554422 


Q ss_pred             --hhhhhCcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          287 --ILDKFGVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       287 --v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                        +......  ...+++++++.++....+...+.
T Consensus       192 ~~l~~l~~r--~~~i~f~~~~~~~~~~~L~~i~~  223 (516)
T 1sxj_A          192 PKMRPFDRV--CLDIQFRRPDANSIKSRLMTIAI  223 (516)
T ss_dssp             STTGGGTTT--SEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ccchhhHhc--eEEEEeCCCCHHHHHHHHHHHHH
Confidence              2221122  45789999999999988877654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.54  E-value=6.9e-05  Score=65.96  Aligned_cols=50  Identities=20%  Similarity=0.278  Sum_probs=41.4

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ....++||+.+++.+.+.+..  ...+.+.|+|.+|+|||+||+.+++....
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~--~~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           20 KLDPVIGRDTEIRRAIQILSR--RTKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS--SSSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             ccchhhcchHHHHHHHHHHhC--CCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            345699999999999998864  23456789999999999999999987643

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.48  E-value=1.7e-05  Score=67.60  Aligned_cols=49  Identities=14%  Similarity=0.009  Sum_probs=35.0

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      -.++|++..++++.+.+..-.....-|.|+|.+|+|||++|+.+++...
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~   52 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT   52 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC
Confidence            3589999999998887753222234578999999999999999987543

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.48  E-value=0.00022  Score=67.16  Aligned_cols=49  Identities=27%  Similarity=0.253  Sum_probs=35.3

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +.++|.+..+.++.+.+..-......|.|+|.+|+|||+||+.+++...
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            4589999999888876653222235678999999999999999998643

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.45  E-value=0.00048  Score=70.94  Aligned_cols=132  Identities=18%  Similarity=0.139  Sum_probs=77.8

Q ss_pred             CCccccchhHHHHHHhhhcC-----------CCCceEEEEeccCcchhhhHHHHHHHhhhccccceE-------eeehh-
Q 041795          184 DGLVGLNSRIEKIKSLLCIG-----------RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC-------FLGNV-  244 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~-------~~~~~-  244 (471)
                      ..++|.+..+++|.+++..-           ....+-|.|+|.+|+|||+||+.+++.....|-..-       |.... 
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~g~~~  283 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE  283 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCTTHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhcchhH
Confidence            46899999999998877521           234567899999999999999999887543321100       00000 


Q ss_pred             ---hhhh----hc----CcccccCCH-------------hhHHHHhcCCCC--CCCCcEEEEEeCChhhh-----hhhCc
Q 041795          245 ---REES----EK----GVLDDVNKI-------------GQLQYLTCGLDR--FGPGSRIIITTRDKWIL-----DKFGV  293 (471)
Q Consensus       245 ---~~~~----~~----~VLDdv~~~-------------~~~~~l~~~~~~--~~~gs~IiiTTR~~~v~-----~~~~~  293 (471)
                         ....    ..    -+||+++..             .....|+..+..  ...+.+||.||.....+     .....
T Consensus       284 ~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~al~r~gRf  363 (489)
T 3hu3_A          284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRF  363 (489)
T ss_dssp             HHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGGGGSTTSS
T ss_pred             HHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHHHhCCCcC
Confidence               0000    00    178888311             112233322221  12345666677655321     11122


Q ss_pred             CCCceEEeCCCCHHHHHHHHHhcc
Q 041795          294 HDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       294 ~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                        ...+.++..+.++-.++|..++
T Consensus       364 --~~~i~i~~P~~~eR~~IL~~~~  385 (489)
T 3hu3_A          364 --DREVDIGIPDATGRLEILQIHT  385 (489)
T ss_dssp             --CEEEECCCCCHHHHHHHHHHHT
T ss_pred             --ceEEEeCCCCHHHHHHHHHHHH
Confidence              3468999999999999998775

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.44  E-value=0.00051  Score=70.45  Aligned_cols=130  Identities=15%  Similarity=0.156  Sum_probs=72.3

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc------cceEe-eeh-----------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF------EGNCF-LGN-----------  243 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f------~~~~~-~~~-----------  243 (471)
                      ..+.++||+.+++.+...|....  ..-+.|+|.+|+|||+||+.+++.+....      +..++ ++.           
T Consensus       178 ~ld~iiGr~~~i~~l~~~l~r~~--~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~~~g~~e~~  255 (468)
T 3pxg_A          178 SLDPVIGRSKEIQRVIEVLSRRT--KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEFEDR  255 (468)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCSS--SCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------CTT
T ss_pred             CCCCccCcHHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCccccchHHHH
Confidence            34569999999999999987432  34567999999999999999999864321      11111 110           


Q ss_pred             hhhhhh------cC--cccccCCHhhHHHHhcCCCCCCCCcEEEEEeCChhhhhhhCc-----CCCceEEeCCCCHHHHH
Q 041795          244 VREESE------KG--VLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGV-----HDTNVYEVNGLRYHEAL  310 (471)
Q Consensus       244 ~~~~~~------~~--VLDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~~~~-----~~~~~~~l~~L~~~ea~  310 (471)
                      ......      .+  ++|  -..+..+.|...+.  ....++|.+|...........     ....++.++.++.++..
T Consensus       256 ~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~~~al~~Rf~~i~v~~p~~e~~~  331 (468)
T 3pxg_A          256 LKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESI  331 (468)
T ss_dssp             HHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCCHHHHH
T ss_pred             HHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhcCHHHHHhCccceeCCCCHHHHH
Confidence            000000      01  456  22223334444443  123455555544331110000     00246899999999999


Q ss_pred             HHHHhcc
Q 041795          311 ELFCNCA  317 (471)
Q Consensus       311 ~Lf~~~a  317 (471)
                      .++...+
T Consensus       332 ~iL~~~~  338 (468)
T 3pxg_A          332 QILQGLR  338 (468)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHHH
Confidence            9998654

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.42  E-value=0.00052  Score=68.36  Aligned_cols=149  Identities=25%  Similarity=0.265  Sum_probs=86.1

Q ss_pred             CCCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccce-------Eeeeh-
Q 041795          183 FDGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN-------CFLGN-  243 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~-------~~~~~-  243 (471)
                      -+++.|.++.+++|.+.+..           +-...+-|.++|++|+|||.||+++++.....|-..       -|+.. 
T Consensus       147 ~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~sk~vGes  226 (405)
T 4b4t_J          147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEG  226 (405)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSCSSTTHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhccccchH
Confidence            35688999999999876541           334467789999999999999999999765544211       11111 


Q ss_pred             ---hhhhhhc--------CcccccCCH----------------hhHHHHhcCCCCC--CCCcEEEEEeCChhh-----hh
Q 041795          244 ---VREESEK--------GVLDDVNKI----------------GQLQYLTCGLDRF--GPGSRIIITTRDKWI-----LD  289 (471)
Q Consensus       244 ---~~~~~~~--------~VLDdv~~~----------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~v-----~~  289 (471)
                         +++....        -++|+++..                ..+..|+..++.+  ..+..||.||.....     ..
T Consensus       227 e~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~LDpAllR  306 (405)
T 4b4t_J          227 SRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLR  306 (405)
T ss_dssp             HHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSSCHHHHS
T ss_pred             HHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhCCHhHcC
Confidence               1110000        056777521                1123343333322  234556667765543     22


Q ss_pred             hhCcCCCceEEeCCCCHHHHHHHHHhccccCC-CCCchHHHHHHH
Q 041795          290 KFGVHDTNVYEVNGLRYHEALELFCNCAFKEN-HCPSGFLASSKR  333 (471)
Q Consensus       290 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~l~~~  333 (471)
                      .-..  +..++++..+.++-.++|..+.-+-. ...-++..+++.
T Consensus       307 pGRf--D~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvdl~~lA~~  349 (405)
T 4b4t_J          307 PGRI--DRKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAEK  349 (405)
T ss_dssp             TTSS--CCEEECCCCCHHHHHHHHHHHHTTSBCCSSCCHHHHHHH
T ss_pred             CCcC--ceEEEcCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHH
Confidence            2233  67889999898888888876542211 222346666554

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.41  E-value=6.5e-05  Score=66.44  Aligned_cols=42  Identities=26%  Similarity=0.267  Sum_probs=29.6

Q ss_pred             hhHHHHHHhhhcC-CCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          191 SRIEKIKSLLCIG-RPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       191 ~~~~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++.+.+++..- ......+.|+|.+|+||||||+.+++.+.
T Consensus        21 ~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           21 RALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             HHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3444444444321 12346899999999999999999999865

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.39  E-value=0.00029  Score=67.87  Aligned_cols=49  Identities=20%  Similarity=0.291  Sum_probs=38.2

Q ss_pred             CCccccchhHHHHHHhhhcC------C-CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIG------R-PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~------~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|.+..++.+...+...      . .....+.++|.+|+|||++|+.+++...
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~   72 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF   72 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHc
Confidence            35789998888888777532      1 1245899999999999999999998753

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.36  E-value=0.00044  Score=67.35  Aligned_cols=47  Identities=19%  Similarity=0.265  Sum_probs=38.8

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +.++|++..++.+...+..+    .-+.++|.+|+|||+||+.+++.....
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~----~~vll~G~pGtGKT~la~~la~~~~~~   73 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG----GHILLEGVPGLAKTLSVNTLAKTMDLD   73 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT----CCEEEESCCCHHHHHHHHHHHHHTTCC
T ss_pred             cceeCcHHHHHHHHHHHHcC----CeEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            56899999998888877643    358899999999999999999876443

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.33  E-value=0.00032  Score=77.50  Aligned_cols=49  Identities=20%  Similarity=0.308  Sum_probs=40.6

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+.++||+.+++++.+.|....  .+.+.|+|.+|+|||+||+.+++.+.
T Consensus       168 ~ld~viGr~~~i~~l~~~l~~~~--~~~vlL~G~pG~GKT~la~~la~~l~  216 (854)
T 1qvr_A          168 KLDPVIGRDEEIRRVIQILLRRT--KNNPVLIGEPGVGKTAIVEGLAQRIV  216 (854)
T ss_dssp             CSCCCCSCHHHHHHHHHHHHCSS--CCCCEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCcccCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHHHHh
Confidence            44679999999999999887432  34568999999999999999998863

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.31  E-value=0.00086  Score=73.07  Aligned_cols=49  Identities=27%  Similarity=0.359  Sum_probs=40.7

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+.++||+.+++++.+.|...  ...-+.|+|.+|+|||+||+.+++.+.
T Consensus       184 ~~d~~iGr~~~i~~l~~~l~~~--~~~~vlL~G~~GtGKT~la~~la~~l~  232 (758)
T 1r6b_X          184 GIDPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIV  232 (758)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCCccCCHHHHHHHHHHHhcc--CCCCeEEEcCCCCCHHHHHHHHHHHHH
Confidence            3457999999999999988743  344578999999999999999998763

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.31  E-value=0.00038  Score=67.18  Aligned_cols=48  Identities=23%  Similarity=0.324  Sum_probs=38.1

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +.++|++..+.++.+.+..-......|.|+|.+|+|||++|+.+++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            358999999999988876433334567899999999999999998853

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.30  E-value=0.0012  Score=66.55  Aligned_cols=52  Identities=31%  Similarity=0.383  Sum_probs=41.2

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      +++.|.++.+++|.+.+..           +-...+-|.++|++|+|||+||+++++.....|
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~  234 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAF  234 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEE
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            5678999999998876531           334467799999999999999999998765443

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.29  E-value=0.00069  Score=68.42  Aligned_cols=133  Identities=29%  Similarity=0.334  Sum_probs=78.3

Q ss_pred             CCCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccce-------Eeeehh
Q 041795          183 FDGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN-------CFLGNV  244 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~-------~~~~~~  244 (471)
                      -+++.|.++.+++|.+.+..           +-...+=|.++|++|+|||.||+++++.....|-..       -|+...
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~sk~~Ges  259 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGES  259 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCCSSSSHH
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhccccchHH
Confidence            35678999999988876531           234467899999999999999999999765443211       111110


Q ss_pred             ----hhhhhc--------CcccccCCH----------------hhHHHHhcCCCCC--CCCcEEEEEeCChhhhhh----
Q 041795          245 ----REESEK--------GVLDDVNKI----------------GQLQYLTCGLDRF--GPGSRIIITTRDKWILDK----  290 (471)
Q Consensus       245 ----~~~~~~--------~VLDdv~~~----------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~v~~~----  290 (471)
                          +.....        -++|+++..                ..+..|+..++.+  ..+..||.||-....+..    
T Consensus       260 e~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~LDpAllR  339 (437)
T 4b4t_L          260 ARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLR  339 (437)
T ss_dssp             HHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSSCTTTTS
T ss_pred             HHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhhCHHHhC
Confidence                000000        056776421                1123343333222  235567778876543321    


Q ss_pred             -hCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          291 -FGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       291 -~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                       ...  +..++++..+.++-.++|..+.
T Consensus       340 pGRf--D~~I~i~lPd~~~R~~Il~~~~  365 (437)
T 4b4t_L          340 PGRL--DRKVEIPLPNEAGRLEIFKIHT  365 (437)
T ss_dssp             TTSE--EEEECCCCCCHHHHHHHHHHHH
T ss_pred             CCcc--ceeeecCCcCHHHHHHHHHHHh
Confidence             112  4568888888887778877654

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.29  E-value=0.0006  Score=66.77  Aligned_cols=130  Identities=19%  Similarity=0.267  Sum_probs=77.7

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc-ccceE-ee--------ehhh----hhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNC-FL--------GNVR----EESE  249 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~-~~--------~~~~----~~~~  249 (471)
                      ..++|.+..++.|...+..+.  ...+.++|.+|+||||+|+.++..+... +...+ -+        ..++    ....
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~--~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~~~ir~~i~~~~~  102 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFAS  102 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccHHHHHHHHHHHHh
Confidence            457898888888888887442  3338999999999999999999875321 11000 01        1111    1110


Q ss_pred             ------c----CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhh-CcCCCceEEeCCCCHHHHHHHHHh
Q 041795          250 ------K----GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKF-GVHDTNVYEVNGLRYHEALELFCN  315 (471)
Q Consensus       250 ------~----~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~-~~~~~~~~~l~~L~~~ea~~Lf~~  315 (471)
                            .    -|+|+++.  ....+.|...+......+++|++|.... +...+ ..  ...+++.+++.++....+..
T Consensus       103 ~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR--~~~~~~~~l~~~~~~~~l~~  180 (340)
T 1sxj_C          103 TRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQ--CTRFRFQPLPQEAIERRIAN  180 (340)
T ss_dssp             BCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT--SEEEECCCCCHHHHHHHHHH
T ss_pred             hcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhh--ceeEeccCCCHHHHHHHHHH
Confidence                  0    17888853  3344444443333345667777775432 11111 11  34689999999998887776


Q ss_pred             cc
Q 041795          316 CA  317 (471)
Q Consensus       316 ~a  317 (471)
                      .+
T Consensus       181 ~~  182 (340)
T 1sxj_C          181 VL  182 (340)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.29  E-value=0.00017  Score=69.12  Aligned_cols=53  Identities=19%  Similarity=0.310  Sum_probs=41.5

Q ss_pred             CCCCccccchhHHHHHHhhhcC----------CCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIG----------RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~----------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+++|.+..++.|.+.+...          ....+.+.|+|.+|+|||+||+.+++.....
T Consensus        19 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~   81 (297)
T 3b9p_A           19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSAT   81 (297)
T ss_dssp             CGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCE
T ss_pred             CHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC
Confidence            4467999999999998877420          1235688999999999999999999876443

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.28  E-value=0.00057  Score=74.49  Aligned_cols=49  Identities=22%  Similarity=0.318  Sum_probs=38.4

Q ss_pred             CCccccchhHHHHHHhhhcCC-------CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGR-------PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~-------~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|.+..++.+...+....       .....+.++|.+|+|||+||+.+++...
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~  546 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIF  546 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHH
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            468999999988887775211       1234799999999999999999998763

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=97.28  E-value=0.00052  Score=66.26  Aligned_cols=124  Identities=12%  Similarity=0.054  Sum_probs=79.4

Q ss_pred             cchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh---ccccceEeeeh---------hhhhhhc------
Q 041795          189 LNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY---KEFEGNCFLGN---------VREESEK------  250 (471)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~---~~f~~~~~~~~---------~~~~~~~------  250 (471)
                      -++.++.|.+.+..+.  .....++|++|+||||+|+.+.+...   ........+..         +++....      
T Consensus         2 ~~~~~~~L~~~i~~~~--~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~   79 (305)
T 2gno_A            2 AKDQLETLKRIIEKSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPE   79 (305)
T ss_dssp             --CHHHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCS
T ss_pred             hHHHHHHHHHHHHCCC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhccc
Confidence            3456677777776443  67899999999999999999987521   11222233321         1221110      


Q ss_pred             -C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          251 -G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       251 -~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                       +     |+|+++.  ....+.|+..+....+.+.+|++|.+. .+...+..  . .+++++++.++..+.+.+..
T Consensus        80 ~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~S--R-~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A           80 LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKS--R-VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHT--T-SEEEECCCCHHHHHHHHHHH
T ss_pred             cCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHc--e-eEeCCCCCHHHHHHHHHHHh
Confidence             1     7899863  455666666555555677888777554 34444433  3 89999999999999887764

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.25  E-value=0.00098  Score=67.35  Aligned_cols=53  Identities=28%  Similarity=0.412  Sum_probs=42.2

Q ss_pred             CCCccccchhHHHHHHhhh-----------cCCCCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          183 FDGLVGLNSRIEKIKSLLC-----------IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~-----------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      -+++.|.++.+++|.+.+.           .+-...+-|.++|++|+|||.||+++++.....|
T Consensus       208 ~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~f  271 (467)
T 4b4t_H          208 YSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATF  271 (467)
T ss_dssp             CSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEE
T ss_pred             HHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCe
Confidence            3578999999999987653           1334578899999999999999999999765543

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.25  E-value=0.00064  Score=68.61  Aligned_cols=149  Identities=19%  Similarity=0.206  Sum_probs=84.2

Q ss_pred             CCCccccchhHHHHHHhhh-----------cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccce-------Eeeehh
Q 041795          183 FDGLVGLNSRIEKIKSLLC-----------IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN-------CFLGNV  244 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~-----------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~-------~~~~~~  244 (471)
                      -.++.|.++.+++|.+.+.           .+-...+-|.++|++|+|||.||+++++.....|-..       -|+...
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~~~~vGes  259 (434)
T 4b4t_M          180 YSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEG  259 (434)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCSSCSSHH
T ss_pred             hHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhhhcccchH
Confidence            3578999999999887543           1234467899999999999999999999765443211       111111


Q ss_pred             ----hhhhhc--------CcccccCCH----------------hhHHHHhcCCCCCC--CCcEEEEEeCChhhhhh----
Q 041795          245 ----REESEK--------GVLDDVNKI----------------GQLQYLTCGLDRFG--PGSRIIITTRDKWILDK----  290 (471)
Q Consensus       245 ----~~~~~~--------~VLDdv~~~----------------~~~~~l~~~~~~~~--~gs~IiiTTR~~~v~~~----  290 (471)
                          +.....        -++|+++..                .....|+..+..+.  .+..||.||.....+..    
T Consensus       260 e~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD~AllR  339 (434)
T 4b4t_M          260 AKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLR  339 (434)
T ss_dssp             HHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCCTTTCS
T ss_pred             HHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcCHhHhc
Confidence                000000        056776411                01233444444332  24456667766543321    


Q ss_pred             -hCcCCCceEEeCCCCHHHHHHHHHhccccCC-CCCchHHHHHHH
Q 041795          291 -FGVHDTNVYEVNGLRYHEALELFCNCAFKEN-HCPSGFLASSKR  333 (471)
Q Consensus       291 -~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~l~~~  333 (471)
                       ...  +..++++..+.++-.++|..+.-+-. ...-++..+++.
T Consensus       340 pGRf--D~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~  382 (434)
T 4b4t_M          340 SGRL--DRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARS  382 (434)
T ss_dssp             TTSE--EEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCHHHHHHH
T ss_pred             CCce--eEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHh
Confidence             122  56788998888888888865542211 222345555543

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=97.22  E-value=0.0019  Score=63.10  Aligned_cols=125  Identities=18%  Similarity=0.144  Sum_probs=76.8

Q ss_pred             hhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc---------------------cceEeeeh------
Q 041795          191 SRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF---------------------EGNCFLGN------  243 (471)
Q Consensus       191 ~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f---------------------~~~~~~~~------  243 (471)
                      +..+.+...+..+ .-...+.++|..|+|||++|+.+++.+....                     ....++..      
T Consensus         9 ~~~~~l~~~i~~~-~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~   87 (334)
T 1a5t_A            9 PDFEKLVASYQAG-RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNT   87 (334)
T ss_dssp             HHHHHHHHHHHTT-CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSS
T ss_pred             HHHHHHHHHHHcC-CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCC
Confidence            3445555555432 2345789999999999999999998754321                     11222321      


Q ss_pred             -----hhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCCceEEeCC
Q 041795          244 -----VREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDTNVYEVNG  303 (471)
Q Consensus       244 -----~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~~~~~l~~  303 (471)
                           +++....       +     |+|+++.  ....+.|+..+.....++.+|++|.+.. +...+.. ....+++++
T Consensus        88 ~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~S-Rc~~~~~~~  166 (334)
T 1a5t_A           88 LGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRS-RCRLHYLAP  166 (334)
T ss_dssp             BCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHT-TSEEEECCC
T ss_pred             CCHHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhh-cceeeeCCC
Confidence                 1111100       1     8899874  3445666655555456777777776653 2222211 145799999


Q ss_pred             CCHHHHHHHHHhcc
Q 041795          304 LRYHEALELFCNCA  317 (471)
Q Consensus       304 L~~~ea~~Lf~~~a  317 (471)
                      ++.++..+.+....
T Consensus       167 ~~~~~~~~~L~~~~  180 (334)
T 1a5t_A          167 PPEQYAVTWLSREV  180 (334)
T ss_dssp             CCHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHhc
Confidence            99999999888765

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.07  E-value=0.0015  Score=66.83  Aligned_cols=133  Identities=23%  Similarity=0.265  Sum_probs=74.7

Q ss_pred             CCCccccchhHHHHHHhhhc----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccce-------Eeeeh--
Q 041795          183 FDGLVGLNSRIEKIKSLLCI----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN-------CFLGN--  243 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~-------~~~~~--  243 (471)
                      ..+++|.++.++++.+.+..          +..-.+-|.|+|++|+|||+||+.+++.....|-..       .|+..  
T Consensus        15 f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~~g~~~   94 (476)
T 2ce7_A           15 FKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVGA   94 (476)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCCTTHHH
T ss_pred             HHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHHhcccH
Confidence            35688999888887775431          111234588999999999999999998754332110       01100  


Q ss_pred             --hhhhhh----c----CcccccCCH----------------hhHHHHhcCCCCC--CCCcEEEEEeCChhhhhh--h--
Q 041795          244 --VREESE----K----GVLDDVNKI----------------GQLQYLTCGLDRF--GPGSRIIITTRDKWILDK--F--  291 (471)
Q Consensus       244 --~~~~~~----~----~VLDdv~~~----------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~v~~~--~--  291 (471)
                        .+....    .    -+||+++..                ..+..|+..+..+  ..+..||.||.....+..  .  
T Consensus        95 ~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld~allR~  174 (476)
T 2ce7_A           95 ARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRP  174 (476)
T ss_dssp             HHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSCGGGGST
T ss_pred             HHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhchhhccc
Confidence              000000    0    167888531                1233443322211  235667777876654321  1  


Q ss_pred             -CcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          292 -GVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       292 -~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                       ..  ...+.++..+.++-.+++..++
T Consensus       175 gRF--d~~i~i~~Pd~~~R~~Il~~~~  199 (476)
T 2ce7_A          175 GRF--DKKIVVDPPDMLGRKKILEIHT  199 (476)
T ss_dssp             TSS--CEEEECCCCCHHHHHHHHHHHH
T ss_pred             Ccc--eeEeecCCCCHHHHHHHHHHHH
Confidence             12  3478888888777777776544

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.04  E-value=0.0021  Score=69.97  Aligned_cols=130  Identities=15%  Similarity=0.136  Sum_probs=73.2

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc------ccceEeee------------h
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE------FEGNCFLG------------N  243 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~~~------------~  243 (471)
                      ..+.++||+.+++++...|....  ..-+.++|.+|+|||++|+.+++.+...      ....++-.            .
T Consensus       178 ~ld~iiG~~~~i~~l~~~l~~~~--~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~~~~G~~e~~  255 (758)
T 3pxi_A          178 SLDPVIGRSKEIQRVIEVLSRRT--KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEFEDR  255 (758)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCSS--SCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------CTT
T ss_pred             CCCCccCchHHHHHHHHHHhCCC--CCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccccccchHHHH
Confidence            34579999999999999987432  3347899999999999999999886321      11111110            1


Q ss_pred             hhhhhh----c--C--cccccCCHhhHHHHhcCCCCCCCCcEEEEEeCChhhhhhhCc-----CCCceEEeCCCCHHHHH
Q 041795          244 VREESE----K--G--VLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGV-----HDTNVYEVNGLRYHEAL  310 (471)
Q Consensus       244 ~~~~~~----~--~--VLDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~~~~-----~~~~~~~l~~L~~~ea~  310 (471)
                      +.....    .  +  ++|  ...+..+.|...+.  ....++|.||...........     ..-..+.++.++.++..
T Consensus       256 l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d~al~rRf~~i~v~~p~~~~~~  331 (758)
T 3pxi_A          256 LKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESI  331 (758)
T ss_dssp             HHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCCHHHHH
T ss_pred             HHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhccHHHHhhCcEEEeCCCCHHHHH
Confidence            111000    0  1  556  22223334444443  223556666654431111110     00246899999999999


Q ss_pred             HHHHhcc
Q 041795          311 ELFCNCA  317 (471)
Q Consensus       311 ~Lf~~~a  317 (471)
                      .++....
T Consensus       332 ~il~~~~  338 (758)
T 3pxi_A          332 QILQGLR  338 (758)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHHH
Confidence            9988543

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.98  E-value=0.0016  Score=65.24  Aligned_cols=148  Identities=22%  Similarity=0.224  Sum_probs=83.0

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccce-------Eeeehhh
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN-------CFLGNVR  245 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~-------~~~~~~~  245 (471)
                      +++.|.++.+++|.+.+..           +-...+=|.++|++|+|||.||+++++.....|-..       -|+....
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~sk~vGese  261 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGDGP  261 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGCCSSSSHHH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhhhccCchHH
Confidence            5678999999988876531           223467899999999999999999999765543211       1111111


Q ss_pred             ----hhhhc--------CcccccCCH----------------hhHHHHhcCCCCC--CCCcEEEEEeCChhhhhhh----
Q 041795          246 ----EESEK--------GVLDDVNKI----------------GQLQYLTCGLDRF--GPGSRIIITTRDKWILDKF----  291 (471)
Q Consensus       246 ----~~~~~--------~VLDdv~~~----------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~v~~~~----  291 (471)
                          .....        -++|+++..                ..+..|+..++.+  ..+..||.||-....+...    
T Consensus       262 k~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~LDpALlRp  341 (437)
T 4b4t_I          262 RLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRP  341 (437)
T ss_dssp             HHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTCCTTSSCT
T ss_pred             HHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhcCHHHhcC
Confidence                00000        056766411                1122333322222  2345566777665543211    


Q ss_pred             -CcCCCceEEeCCCCHHHHHHHHHhccccCC-CCCchHHHHHHH
Q 041795          292 -GVHDTNVYEVNGLRYHEALELFCNCAFKEN-HCPSGFLASSKR  333 (471)
Q Consensus       292 -~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~l~~~  333 (471)
                       ..  +..++++..+.++-.++|..+.-+-. ...-++..++..
T Consensus       342 GRf--D~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl~~LA~~  383 (437)
T 4b4t_I          342 GRI--DRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTT  383 (437)
T ss_dssp             TTE--EEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCHHHHHHH
T ss_pred             Cce--eEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHh
Confidence             12  45677888888887888876552211 122345555543

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=96.81  E-value=0.00059  Score=66.05  Aligned_cols=49  Identities=10%  Similarity=0.011  Sum_probs=41.2

Q ss_pred             CccccchhHHHHHHhhhc--CCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          185 GLVGLNSRIEKIKSLLCI--GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .+.||++++++|...|..  .......+.|+|.+|+|||++++.+++.+..
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~   71 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELIT   71 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence            378999999999988763  2345678899999999999999999998753

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=96.72  E-value=0.0048  Score=66.93  Aligned_cols=51  Identities=29%  Similarity=0.360  Sum_probs=40.4

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +++.|.++.+++|.+.+..           +....+-|.++|++|+|||+||+++++....+
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~  265 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF  265 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe
Confidence            4678999999998886531           12346789999999999999999999876544

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=96.71  E-value=0.0023  Score=66.87  Aligned_cols=50  Identities=28%  Similarity=0.302  Sum_probs=36.2

Q ss_pred             CccccchhHHHHHHhhhc----CCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          185 GLVGLNSRIEKIKSLLCI----GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +++|.+...+.+.+.+..    .......+.|+|.+|+||||||+.++......
T Consensus        82 di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~  135 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRK  135 (543)
T ss_dssp             HCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCE
T ss_pred             HhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCC
Confidence            367877777776554431    11245689999999999999999999876443

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.68  E-value=0.0019  Score=57.89  Aligned_cols=60  Identities=20%  Similarity=0.146  Sum_probs=38.9

Q ss_pred             CCCccccch----hHHHHHHhhhcCCCC--ceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          183 FDGLVGLNS----RIEKIKSLLCIGRPD--FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       183 ~~~~vGr~~----~~~~l~~~L~~~~~~--~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .++|++...    .++.+.+++......  .+.+.|+|.+|+|||+||+.+++.........+++.
T Consensus        24 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~   89 (202)
T 2w58_A           24 LSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVY   89 (202)
T ss_dssp             TTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             HhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            355666543    334445555433221  268899999999999999999998765444444443

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.62  E-value=0.0013  Score=61.42  Aligned_cols=51  Identities=29%  Similarity=0.248  Sum_probs=37.3

Q ss_pred             CCCCccccchhHHHHHHhhhc--C--------CCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI--G--------RPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~--~--------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++++|.+..++++.+++..  .        ....+-+.|+|.+|+||||||+.+++...
T Consensus        10 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~   70 (257)
T 1lv7_A           10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK   70 (257)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcC
Confidence            345689998888877665431  0        11234588999999999999999998754

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.51  E-value=0.0044  Score=67.47  Aligned_cols=49  Identities=16%  Similarity=0.153  Sum_probs=37.9

Q ss_pred             CCccccchhHHHHHHhhhcC-------CCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIG-------RPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|.+..++.+...+...       ......+.++|.+|+|||+||+.+++...
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~  513 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc
Confidence            45889998888887766421       11245799999999999999999998763

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=96.49  E-value=0.0012  Score=63.26  Aligned_cols=50  Identities=18%  Similarity=0.185  Sum_probs=38.5

Q ss_pred             CCccccchhHHHHHHhhhc------------CCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          184 DGLVGLNSRIEKIKSLLCI------------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~------------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +.++|.+..++.+...+..            .......+.|+|.+|+|||+||+.+++....
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~   76 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4588999988888877653            0122456889999999999999999987643

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.39  E-value=0.0016  Score=63.53  Aligned_cols=50  Identities=28%  Similarity=0.252  Sum_probs=38.4

Q ss_pred             CCccccchhHHHHHHhhhcC---CCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          184 DGLVGLNSRIEKIKSLLCIG---RPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..++|.+..++.+...+..+   +.....+.|+|.+|+||||||+.+++.+..
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~   77 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT   77 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTC
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCC
Confidence            45788887777777666532   233467899999999999999999998643

>3hyn_A Putative signal transduction protein; DUF1863 family protein, nucleotide-binding protein, structur genomics; HET: MSE; 1.20A {Eubacterium rectale atcc 33656}

Probab=96.32  E-value=0.02  Score=49.69  Aligned_cols=101  Identities=21%  Similarity=0.239  Sum_probs=67.3

Q ss_pred             cccccCcchHHHHHHHHHhCCcceeecCCCCC----C----CCCCcHHHHHHhhhcceEEEEEccCcccchhhHHHHHHH
Q 041795           19 RGGDTRDNFTSHLYAALCRKKIKTFINGDEIR----R----GDDISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKI   90 (471)
Q Consensus        19 ~~~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~----~----g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~   90 (471)
                      +..|  -.....|..--....+-.|.|.++..    -    -+.|-..|.+.|..|+.+|+++|++...|.|..+|+..+
T Consensus        27 a~~D--i~yy~lL~aWk~n~n~F~F~D~Hd~~y~vrDsS~~e~tIKrrLReRI~~Sk~vIllIs~~T~~s~~v~wEIe~A  104 (189)
T 3hyn_A           27 STHD--FVYYNMLRMWKGEDNSFPFNDAHDKTYNVRDGSDWEKTLKPRLHTRLDNSKNIILFLSSITANSRALREEMNYG  104 (189)
T ss_dssp             GSTT--HHHHHHHHHHHHHCTTSSCCBTTTTCCCTTSCCCTTTTHHHHHHHHHHTEEEEEEECCTTCCCCHHHHHHHHHH
T ss_pred             ccch--HHHHHHHHHHHcCCCceeecchhhccccccccccHHHHHHHHHHHHHHhcCcEEEEEecCccccchhHHHHHHH
Confidence            3445  33456666555665666678876552    2    235778888899999999999999999999999999888


Q ss_pred             HHhhhcCCCeEEeEEeecC-CCcccccCCchHHHH
Q 041795           91 LECKSTNGQIVVPVFYHVD-PSDVRKQTGSFRDAF  124 (471)
Q Consensus        91 ~~~~~~~~~~viPif~~v~-ps~vr~q~~~~~~~f  124 (471)
                      +.   +.+.+||-|..+-+ .+++..-.|+|....
T Consensus       105 i~---~~~~PII~Vy~~~~~~~~i~~~~g~~~~~~  136 (189)
T 3hyn_A          105 IG---TKGLPVIVIYPDYDKKSDIVDSNGNFKKQI  136 (189)
T ss_dssp             TT---TTCCCEEEEETTCCSGGGTBCTTSCBCHHH
T ss_pred             HH---hcCCcEEEEECCccccchhhhccccchhhH
Confidence            72   33456777653322 224444445544333

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.10  E-value=0.013  Score=64.63  Aligned_cols=47  Identities=21%  Similarity=0.268  Sum_probs=37.2

Q ss_pred             CccccchhHHHHHHhhhcC-----C--CCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          185 GLVGLNSRIEKIKSLLCIG-----R--PDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~-----~--~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .++|.+..++.+...+...     .  .....+.|+|.+|+|||+||+.+++..
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999888887776521     1  123589999999999999999999875

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.06  E-value=0.0028  Score=55.39  Aligned_cols=25  Identities=16%  Similarity=0.331  Sum_probs=22.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+|.|+|++|+||||+|+.+...+.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999988764

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.06  E-value=0.0042  Score=61.30  Aligned_cols=48  Identities=19%  Similarity=0.173  Sum_probs=36.0

Q ss_pred             ccccchhHHHHHHhhh-------------cCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          186 LVGLNSRIEKIKSLLC-------------IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       186 ~vGr~~~~~~l~~~L~-------------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ++|.+..++.+...+.             ........+.++|.+|+|||++|+.+++....
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~   77 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDV   77 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            6788888887777662             11113457899999999999999999987643

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.06  E-value=0.0049  Score=55.59  Aligned_cols=28  Identities=29%  Similarity=0.526  Sum_probs=24.4

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ....+|+|+|..|.|||||++.+...+.
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3467999999999999999999987765

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=95.96  E-value=0.0035  Score=54.24  Aligned_cols=25  Identities=16%  Similarity=0.089  Sum_probs=22.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+|.|.|++|+||||+|+.+...+.
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999987754

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.91  E-value=0.0062  Score=54.62  Aligned_cols=44  Identities=27%  Similarity=0.342  Sum_probs=31.7

Q ss_pred             cchhHHHHHHhhhcC-CCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          189 LNSRIEKIKSLLCIG-RPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       189 r~~~~~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      |++.++.+.+.+... .....+|+|.|..|+|||||++.+...+.
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            344555565555432 23467999999999999999999987653

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=95.90  E-value=0.0062  Score=62.09  Aligned_cols=49  Identities=35%  Similarity=0.282  Sum_probs=38.6

Q ss_pred             CCccccchhHHHHHHhhh---cCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLC---IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~---~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +.++|.+..++.+..++.   .+....+-+.++|++|+|||+||+.+++...
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            679999998887665443   3333346789999999999999999999865

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.78  E-value=0.0046  Score=55.34  Aligned_cols=25  Identities=32%  Similarity=0.332  Sum_probs=22.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...|.|+|++|+||||+|+.+...+
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998876

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=95.77  E-value=0.0044  Score=53.53  Aligned_cols=20  Identities=35%  Similarity=0.642  Sum_probs=18.7

Q ss_pred             eEEEEeccCcchhhhHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAI  227 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v  227 (471)
                      .+|+|+|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            37899999999999999999

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.76  E-value=0.0046  Score=54.37  Aligned_cols=25  Identities=24%  Similarity=0.444  Sum_probs=22.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+.|.|+|++|+||||+|+.+...+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999998765

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=95.74  E-value=0.036  Score=51.92  Aligned_cols=38  Identities=21%  Similarity=0.146  Sum_probs=29.6

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-+..+|....+.-..+.++|++|.|||.+|..+++.
T Consensus        90 ~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            34567777644244567999999999999999999985

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=95.72  E-value=0.0095  Score=56.84  Aligned_cols=30  Identities=20%  Similarity=0.195  Sum_probs=25.3

Q ss_pred             CCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .....+|+|+|..|+||||||+.+...+..
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            345779999999999999999998876543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.59  E-value=0.0062  Score=53.05  Aligned_cols=22  Identities=32%  Similarity=0.477  Sum_probs=20.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5799999999999999999987

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=95.53  E-value=0.0058  Score=56.87  Aligned_cols=50  Identities=26%  Similarity=0.271  Sum_probs=34.8

Q ss_pred             CCCccccchhHHHHHHhhhc--C--------CCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          183 FDGLVGLNSRIEKIKSLLCI--G--------RPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~--~--------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++++|.+..+.++.++...  .        -.-.+-+.|+|.+|+||||||+.++....
T Consensus        15 ~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~   74 (254)
T 1ixz_A           15 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   74 (254)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            35678888777766654321  0        01122389999999999999999998754

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.52  E-value=0.0098  Score=58.09  Aligned_cols=45  Identities=22%  Similarity=0.276  Sum_probs=31.3

Q ss_pred             hhHHHHHHhhhc--CCCCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          191 SRIEKIKSLLCI--GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       191 ~~~~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      .-.+.+.+.+..  ..+....|.|+|++|+||||+++.++..+...|
T Consensus         6 ~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~~f   52 (359)
T 2ga8_A            6 KLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINEKY   52 (359)
T ss_dssp             HHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            334444444431  233466799999999999999999998766554

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.51  E-value=0.0054  Score=53.24  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=22.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+|+|+|++|+|||||++.+...+.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999987653

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=95.44  E-value=0.0074  Score=53.30  Aligned_cols=24  Identities=42%  Similarity=0.510  Sum_probs=21.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..+++|+|++|+|||||++.+...
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999875

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.43  E-value=0.0084  Score=57.28  Aligned_cols=29  Identities=31%  Similarity=0.482  Sum_probs=24.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..+.+.++|++|+|||+||+.+++.....
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~~~   63 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMGIN   63 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            45688999999999999999999986443

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=95.41  E-value=0.011  Score=58.59  Aligned_cols=27  Identities=22%  Similarity=0.220  Sum_probs=23.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+.++|.+|+|||+||+.+++....
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l~~   98 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHLDI   98 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCC
Confidence            346889999999999999999987643

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.38  E-value=0.0082  Score=52.86  Aligned_cols=26  Identities=23%  Similarity=0.404  Sum_probs=23.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..|.|.|++|+||||+|+.+...+..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47899999999999999999987653

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=95.35  E-value=0.01  Score=52.27  Aligned_cols=25  Identities=32%  Similarity=0.321  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|.|.|++|+||||+|+.+...+
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998765

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.34  E-value=0.0084  Score=56.67  Aligned_cols=51  Identities=25%  Similarity=0.269  Sum_probs=36.2

Q ss_pred             CCCCccccchhHHHHHHhhhc--C--------CCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI--G--------RPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~--~--------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++++|.+..++++.++...  .        -.-.+-+.|+|.+|+||||||+.++....
T Consensus        38 ~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~   98 (278)
T 1iy2_A           38 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   98 (278)
T ss_dssp             CGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC
Confidence            445688888877777665431  0        01112389999999999999999998764

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=95.34  E-value=0.0099  Score=53.14  Aligned_cols=27  Identities=33%  Similarity=0.583  Sum_probs=24.2

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+|+|+|++|.||||||+.+...+.
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            457999999999999999999988765

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=95.33  E-value=0.0099  Score=50.68  Aligned_cols=28  Identities=25%  Similarity=0.443  Sum_probs=24.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .-..++|+|..|+|||||++.++.....
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~   62 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALE   62 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3468999999999999999999987654

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=95.33  E-value=0.0065  Score=53.22  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=22.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+.|.|+|++|+||||+|+.+...+
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999998765

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.32  E-value=0.0067  Score=54.29  Aligned_cols=25  Identities=24%  Similarity=0.388  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|+|+|+.|+||||+|+.+...+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998775

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.31  E-value=0.009  Score=51.66  Aligned_cols=26  Identities=23%  Similarity=0.328  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...|+|.|+.|+||||+|+.+...+.
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999988653

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=95.28  E-value=0.014  Score=55.22  Aligned_cols=50  Identities=26%  Similarity=0.130  Sum_probs=33.0

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .++.|.++.+++|.+.+..           +-.-.+-++|+|.+|+||||||+.++.....
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~   70 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGL   70 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCC
Confidence            4567777777776654320           1011223999999999999999999987543

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.26  E-value=0.012  Score=54.55  Aligned_cols=26  Identities=19%  Similarity=0.009  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ....|+|.|++|+||||+|+.+.+.+
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999998754

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.21  E-value=0.0097  Score=55.55  Aligned_cols=25  Identities=28%  Similarity=0.171  Sum_probs=22.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+|.|+|++|+||||||+.++....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCC
Confidence            4789999999999999999987653

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=95.21  E-value=0.0097  Score=52.35  Aligned_cols=25  Identities=24%  Similarity=0.377  Sum_probs=22.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..|.|.|++|+||||+|+.+...+.
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4799999999999999999988765

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.21  E-value=0.009  Score=53.16  Aligned_cols=24  Identities=29%  Similarity=0.499  Sum_probs=21.7

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .|+|.|+.|+||||+|+.+...+.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            589999999999999999988754

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.18  E-value=0.01  Score=61.00  Aligned_cols=44  Identities=20%  Similarity=0.125  Sum_probs=37.0

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +.++|.+..++.+...+..+    .-|.|+|.+|+|||+||+.+++..
T Consensus        22 ~~ivGq~~~i~~l~~al~~~----~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT----CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhhHHHHHHHHHHHHHHhcC----CeeEeecCchHHHHHHHHHHHHHH
Confidence            45899999998888777643    368899999999999999998865

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=95.17  E-value=0.011  Score=57.68  Aligned_cols=49  Identities=24%  Similarity=0.236  Sum_probs=34.7

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++++|.+..++.+...+...  ...-+.|+|.+|+|||+||+.+++...
T Consensus        22 ~f~~i~G~~~~~~~l~~~~~~~--~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           22 PFSAIVGQEDMKLALLLTAVDP--GIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCG--GGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CchhccChHHHHHHHHHHhhCC--CCceEEEECCCCccHHHHHHHHHHhCc
Confidence            3456899988665544333211  123488999999999999999998754

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=95.15  E-value=0.014  Score=50.76  Aligned_cols=25  Identities=24%  Similarity=0.511  Sum_probs=22.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|+|+|+.|.||||+++.+....
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998764

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.14  E-value=0.0096  Score=51.88  Aligned_cols=24  Identities=33%  Similarity=0.389  Sum_probs=21.4

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .|.|.|++|+||||+|+.+...+.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999988653

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.14  E-value=0.0091  Score=52.23  Aligned_cols=26  Identities=31%  Similarity=0.243  Sum_probs=18.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+|.|.|++|+||||+|+.+...+.
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            35899999999999999999987654

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.13  E-value=0.011  Score=51.90  Aligned_cols=26  Identities=12%  Similarity=0.254  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      -++++|+|+.|+|||||++.+.....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            35899999999999999999987543

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=95.11  E-value=0.0083  Score=52.69  Aligned_cols=24  Identities=21%  Similarity=0.394  Sum_probs=21.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+|.|+|++|+||||+|+.+...+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            358999999999999999998764

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.08  E-value=0.012  Score=51.80  Aligned_cols=25  Identities=28%  Similarity=0.250  Sum_probs=22.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|+|.|++|+||||+|+.+...+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999988764

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.03  E-value=0.012  Score=52.55  Aligned_cols=26  Identities=35%  Similarity=0.478  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|+|+|+.|+|||||++.+...+
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            35689999999999999999998765

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.02  E-value=0.011  Score=52.16  Aligned_cols=25  Identities=28%  Similarity=0.282  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|+|.|++|+||||+|+.+...+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.01  E-value=0.015  Score=51.99  Aligned_cols=26  Identities=19%  Similarity=0.268  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|+|.|+.|+||||+|+.+.+..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999998764

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.00  E-value=0.013  Score=51.60  Aligned_cols=24  Identities=38%  Similarity=0.257  Sum_probs=21.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|+|+|+.|+||||+|+.+...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999876

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=94.99  E-value=0.0096  Score=52.85  Aligned_cols=28  Identities=39%  Similarity=0.501  Sum_probs=23.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      |.|.|+|++|+|||||++.+.......|
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~~~   29 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCCCe
Confidence            5688999999999999999887654433

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=94.99  E-value=0.012  Score=51.82  Aligned_cols=22  Identities=27%  Similarity=0.353  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .+++|+|+.|.|||||++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4789999999999999999975

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.98  E-value=0.02  Score=50.36  Aligned_cols=28  Identities=36%  Similarity=0.476  Sum_probs=24.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+|.|+|++|+||||+++.++..+..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            3578999999999999999999987653

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=94.95  E-value=0.021  Score=54.33  Aligned_cols=26  Identities=35%  Similarity=0.396  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|.|.|++|+||||+|+.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998764

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=94.93  E-value=0.026  Score=54.24  Aligned_cols=41  Identities=17%  Similarity=0.170  Sum_probs=29.7

Q ss_pred             hHHHHHHhhhcCCC-CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          192 RIEKIKSLLCIGRP-DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       192 ~~~~l~~~L~~~~~-~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++.+.+++..-.+ ....+.|+|.+|+|||+||..+++...
T Consensus       136 ~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          136 AFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             HHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            34445555553222 246789999999999999999999865

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=94.93  E-value=0.011  Score=51.27  Aligned_cols=24  Identities=21%  Similarity=0.286  Sum_probs=21.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..|.|.|++|+||||+|+.+...+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999998865

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=94.92  E-value=0.014  Score=51.22  Aligned_cols=24  Identities=29%  Similarity=0.317  Sum_probs=21.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..|+|.|++|+||||+|+.+.+.+
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998764

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=94.88  E-value=0.011  Score=53.15  Aligned_cols=26  Identities=23%  Similarity=0.300  Sum_probs=22.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++|.|+|++|+|||||++.+.....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            46899999999999999999988753

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=94.88  E-value=0.014  Score=52.51  Aligned_cols=27  Identities=26%  Similarity=0.263  Sum_probs=23.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+++|+|+.|+|||||++.+.....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            356899999999999999999987654

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=94.88  E-value=0.014  Score=51.81  Aligned_cols=26  Identities=35%  Similarity=0.423  Sum_probs=22.9

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +...+|+|.|+.|+||||+|+.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            34679999999999999999999875

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=94.87  E-value=0.012  Score=52.37  Aligned_cols=25  Identities=28%  Similarity=0.367  Sum_probs=22.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|+.|+|||||++.+....
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3589999999999999999998764

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=94.86  E-value=0.018  Score=50.57  Aligned_cols=25  Identities=28%  Similarity=0.288  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|+|.|++|+||||+|+.+...+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998764

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.85  E-value=0.013  Score=51.98  Aligned_cols=26  Identities=27%  Similarity=0.277  Sum_probs=22.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+|+|.|++|+||||+|+.+...+.
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999988653

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=94.85  E-value=0.014  Score=53.06  Aligned_cols=24  Identities=33%  Similarity=0.480  Sum_probs=21.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+|+|+|+.|+||||+|+.+...+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998754

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.82  E-value=0.015  Score=51.97  Aligned_cols=26  Identities=23%  Similarity=0.385  Sum_probs=23.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..|.|.|++|+||||+|+.+...+..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            58999999999999999999887654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=94.82  E-value=0.015  Score=51.91  Aligned_cols=25  Identities=28%  Similarity=0.293  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+++|+|+.|+|||||++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3589999999999999999998765

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=94.81  E-value=0.013  Score=52.39  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .+|+|+|+.|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3699999999999999999987

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=94.79  E-value=0.016  Score=49.97  Aligned_cols=24  Identities=17%  Similarity=0.235  Sum_probs=21.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .|+|.|++|+||||+|+.+.+.+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999988653

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=94.78  E-value=0.024  Score=52.71  Aligned_cols=27  Identities=22%  Similarity=0.153  Sum_probs=23.6

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+|.|+|++|+||||+|+.+...+.
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            357899999999999999999987653

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=94.77  E-value=0.13  Score=51.91  Aligned_cols=28  Identities=29%  Similarity=0.370  Sum_probs=24.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+|.++|.+|+||||++..++..+..
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~  126 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQK  126 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHH
Confidence            3689999999999999999998876544

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=94.74  E-value=0.016  Score=50.43  Aligned_cols=28  Identities=25%  Similarity=0.304  Sum_probs=24.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .++++|.|..|+|||||+..+...+...
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~   31 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVRE   31 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhc
Confidence            5789999999999999999998876543

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=94.73  E-value=0.016  Score=53.62  Aligned_cols=25  Identities=28%  Similarity=0.275  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|+|+|+.|+|||||++.+++.+
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998654

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=94.73  E-value=0.016  Score=52.00  Aligned_cols=26  Identities=38%  Similarity=0.516  Sum_probs=22.6

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|+|+|.+|.||||||+.+...+
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999987653

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=94.71  E-value=0.017  Score=54.02  Aligned_cols=26  Identities=19%  Similarity=0.448  Sum_probs=22.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+|.|+|++|+||||+|+.+...+.
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999988643

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=94.70  E-value=0.018  Score=53.60  Aligned_cols=27  Identities=22%  Similarity=0.431  Sum_probs=23.7

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+|+|.|+.|+||||+|+.+...+.
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            467899999999999999999988644

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.70  E-value=0.027  Score=50.53  Aligned_cols=40  Identities=23%  Similarity=0.287  Sum_probs=30.2

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +..+..++.. -+.-+.+.|+|++|+||||+|..+++.+..
T Consensus        45 ~~~l~~~~~~-iPkkn~ili~GPPGtGKTt~a~ala~~l~g   84 (212)
T 1tue_A           45 LGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIHFIQG   84 (212)
T ss_dssp             HHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhc-CCcccEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5566666652 233457999999999999999999988654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.69  E-value=0.016  Score=50.99  Aligned_cols=24  Identities=29%  Similarity=0.612  Sum_probs=21.7

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +|+|.|+.|+||||+|+.+.+.+.
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999988763

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=94.69  E-value=0.029  Score=57.59  Aligned_cols=131  Identities=21%  Similarity=0.222  Sum_probs=74.9

Q ss_pred             CCCCccccchhHHHHHHhhhc--C--------CCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeeh--------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI--G--------RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGN--------  243 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~--~--------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~--------  243 (471)
                      ..++++|.+..+.++.++...  .        ..-.+-+.|+|.+|+||||||+.++......|   +.+..        
T Consensus        29 ~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~---i~i~g~~~~~~~~  105 (499)
T 2dhr_A           29 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPF---ITASGSDFVEMFV  105 (499)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCE---EEEEGGGGTSSCT
T ss_pred             CHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCE---EEEehhHHHHhhh
Confidence            456789999888877765431  1        01123489999999999999999998754221   11111        


Q ss_pred             ------hhhhhhc--------CcccccCCH----------------hhHHHHhcCCCCCC--CCcEEEEEeCChhhhhh-
Q 041795          244 ------VREESEK--------GVLDDVNKI----------------GQLQYLTCGLDRFG--PGSRIIITTRDKWILDK-  290 (471)
Q Consensus       244 ------~~~~~~~--------~VLDdv~~~----------------~~~~~l~~~~~~~~--~gs~IiiTTR~~~v~~~-  290 (471)
                            ++.....        -++|+++..                ..+..++..+..+.  .+..++.||.....+.. 
T Consensus       106 g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~a  185 (499)
T 2dhr_A          106 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPA  185 (499)
T ss_dssp             THHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCTT
T ss_pred             hhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCcc
Confidence                  0010000        167887421                12234443333222  23445556666654321 


Q ss_pred             ----hCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          291 ----FGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       291 ----~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                          ...  ...+.++..+.++-.+++..++
T Consensus       186 Llr~gRf--dr~i~i~~Pd~~~R~~IL~~~~  214 (499)
T 2dhr_A          186 LLRPGRF--DRQIAIDAPDVKGREQILRIHA  214 (499)
T ss_dssp             TSSTTSS--CCEEECCCCCHHHHHHHHHHTT
T ss_pred             ccccccc--ceEEecCCCCHHHHHHHHHHHH
Confidence                112  4578899999888888887664

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=94.68  E-value=0.017  Score=51.96  Aligned_cols=27  Identities=37%  Similarity=0.391  Sum_probs=23.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+|+|+|..|+|||||++.+...+.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            356899999999999999999987654

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=94.67  E-value=0.018  Score=51.75  Aligned_cols=27  Identities=15%  Similarity=0.244  Sum_probs=23.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...|+|.|+.|+||||+|+.+.+.+..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999987653

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=94.66  E-value=0.017  Score=51.50  Aligned_cols=25  Identities=28%  Similarity=0.230  Sum_probs=22.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...|.|.|++|+||||+|+.+...+
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998765

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=94.66  E-value=0.025  Score=51.25  Aligned_cols=39  Identities=23%  Similarity=0.209  Sum_probs=27.5

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..|.+++..+-..-.+++|+|.+|+|||||++.++....
T Consensus        10 ~~Ld~~~~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~   48 (235)
T 2w0m_A           10 LDFDKLIQGGIPQGFFIALTGEPGTGKTIFSLHFIAKGL   48 (235)
T ss_dssp             HHHHGGGTTSEETTCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             hHHHHHhcCCCcCCCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            344444431222346899999999999999999987654

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=94.65  E-value=0.013  Score=51.10  Aligned_cols=22  Identities=36%  Similarity=0.620  Sum_probs=19.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~  228 (471)
                      -.+++|+|..|+|||||++.++
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHc
Confidence            4689999999999999999743

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.64  E-value=0.025  Score=54.63  Aligned_cols=46  Identities=20%  Similarity=0.157  Sum_probs=32.4

Q ss_pred             cccchhHHHHHHhhhcC--CCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          187 VGLNSRIEKIKSLLCIG--RPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       187 vGr~~~~~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +|-...+..+...+...  .....+|+|.|..|+||||||+.+...+.
T Consensus        70 ~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           70 VTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            44445555555444432  34467999999999999999999876654

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=94.64  E-value=0.015  Score=52.03  Aligned_cols=22  Identities=45%  Similarity=0.582  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .+|+|.|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999975

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=94.57  E-value=0.035  Score=54.48  Aligned_cols=79  Identities=11%  Similarity=0.179  Sum_probs=48.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccccceEe-eehh-----------------hhh-------h----hc----Cccc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF-LGNV-----------------REE-------S----EK----GVLD  254 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~-~~~~-----------------~~~-------~----~~----~VLD  254 (471)
                      .+++|+|..|.|||||.+.+...+.......+. +.+.                 ...       .    ..    -++|
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~~PdvillD  203 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALREDPDIILVG  203 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTSCCSEEEES
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhhCcCEEecC
Confidence            499999999999999999987765432111111 1100                 000       0    00    0789


Q ss_pred             ccCCHhhHHHHhcCCCCCCCCcEEEEEeCChhhhh
Q 041795          255 DVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILD  289 (471)
Q Consensus       255 dv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~  289 (471)
                      .+.+.+.++.+....   ..|..||+||.+...+.
T Consensus       204 Ep~d~e~~~~~~~~~---~~G~~vl~t~H~~~~~~  235 (356)
T 3jvv_A          204 EMRDLETIRLALTAA---ETGHLVFGTLHTTSAAK  235 (356)
T ss_dssp             CCCSHHHHHHHHHHH---HTTCEEEEEESCSSHHH
T ss_pred             CCCCHHHHHHHHHHH---hcCCEEEEEEccChHHH
Confidence            988877766654432   23666899998776554

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=94.55  E-value=0.018  Score=52.20  Aligned_cols=26  Identities=23%  Similarity=0.121  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...|.|.|++|+||||+|+.+...+.
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            35789999999999999999987653

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=94.52  E-value=0.029  Score=51.28  Aligned_cols=37  Identities=24%  Similarity=0.247  Sum_probs=27.4

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..|.++|..+-..-.+++|+|.+|+|||||+..++..
T Consensus        11 ~~LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           11 KELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             HHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hHHHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            3445555422234569999999999999999999875

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=94.49  E-value=0.029  Score=56.60  Aligned_cols=51  Identities=18%  Similarity=0.178  Sum_probs=36.1

Q ss_pred             CCccccchhHHHHHHhhhc------------CCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          184 DGLVGLNSRIEKIKSLLCI------------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~------------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..++|-+..++.|...+..            .....+-|.++|++|+||||+|+.++......
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~   77 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAP   77 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            3477877777777655421            01124568999999999999999999876443

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.49  E-value=0.018  Score=51.55  Aligned_cols=27  Identities=15%  Similarity=0.265  Sum_probs=23.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..+|+|.|+.|+||||+|+.+...+..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~   36 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKN   36 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999887543

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=94.48  E-value=0.021  Score=50.92  Aligned_cols=25  Identities=32%  Similarity=0.488  Sum_probs=22.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...+|+|.|+.|+||||+|+.+...
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHh
Confidence            3679999999999999999998875

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=94.47  E-value=0.019  Score=52.00  Aligned_cols=37  Identities=30%  Similarity=0.407  Sum_probs=26.9

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|..+|..+-..-.+++|+|.+|+|||||++.++...
T Consensus        13 ~LD~~l~ggi~~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           13 SLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             HHHHHTTSSEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             hHHhHhcCCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3444443222345799999999999999999998643

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=94.46  E-value=0.023  Score=51.67  Aligned_cols=27  Identities=19%  Similarity=0.318  Sum_probs=23.9

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...++|.|.|++|+||||.|+.+.+.+
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999998764

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.45  E-value=0.022  Score=52.18  Aligned_cols=37  Identities=24%  Similarity=0.202  Sum_probs=27.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .-.++.|.|.+|+||||||..++......=..++|+.
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~   58 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVA   58 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3468999999999999999988776543323455554

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=94.42  E-value=0.025  Score=50.82  Aligned_cols=35  Identities=31%  Similarity=0.210  Sum_probs=26.0

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHH
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .|.++|..+-..-.++.|+|.+|+||||||..++.
T Consensus         8 ~LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A            8 SLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             HHHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34444432223456899999999999999999887

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=94.39  E-value=0.022  Score=50.12  Aligned_cols=24  Identities=38%  Similarity=0.357  Sum_probs=21.4

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++|+|..|+|||||++.++..+.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999988764

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=94.38  E-value=0.025  Score=49.38  Aligned_cols=26  Identities=31%  Similarity=0.332  Sum_probs=22.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...|+|.|+.|+||||+++.+...+.
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~   30 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLV   30 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            46899999999999999999988653

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=94.38  E-value=0.014  Score=52.36  Aligned_cols=24  Identities=29%  Similarity=0.487  Sum_probs=21.7

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +|+|.|..|+||||+|+.+...+.
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999988764

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=94.34  E-value=0.051  Score=52.68  Aligned_cols=28  Identities=25%  Similarity=0.366  Sum_probs=24.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+++|+|..|+|||||++.++..+..
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4689999999999999999999876554

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=94.32  E-value=0.022  Score=51.32  Aligned_cols=23  Identities=30%  Similarity=0.406  Sum_probs=20.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|+|.|++|+||||+|+.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999997754

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.27  E-value=0.03  Score=50.67  Aligned_cols=38  Identities=24%  Similarity=0.281  Sum_probs=27.9

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+.+...+..  .....|+|+|.+|+|||||+..+.....
T Consensus        26 a~~~r~~~~~--~~~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           26 ADKNRKLLNK--HGVVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             HHHHHHHHHH--TTCEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHh--CCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            3444444432  2468899999999999999999887643

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.23  E-value=0.018  Score=53.56  Aligned_cols=25  Identities=32%  Similarity=0.383  Sum_probs=22.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..|+|+|+.|+||||+++.+...+.
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4799999999999999999988653

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.22  E-value=0.062  Score=51.90  Aligned_cols=29  Identities=31%  Similarity=0.364  Sum_probs=24.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+++|+|.+|+||||++..++..+...
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~  132 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAEL  132 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            46799999999999999999998876543

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=94.20  E-value=0.023  Score=50.78  Aligned_cols=27  Identities=15%  Similarity=0.314  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++++|+|+.|+|||||++.+.....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            357899999999999999999886543

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.18  E-value=0.023  Score=52.83  Aligned_cols=25  Identities=28%  Similarity=0.411  Sum_probs=22.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|+|+|+.|+|||||++.+...+
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998654

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=94.18  E-value=0.024  Score=51.17  Aligned_cols=23  Identities=26%  Similarity=0.341  Sum_probs=20.2

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|+|.|++|+||||+|+.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999997654

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=94.18  E-value=0.061  Score=51.58  Aligned_cols=29  Identities=31%  Similarity=0.469  Sum_probs=24.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+++|+|.+|+||||++..++..+...
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~  131 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDE  131 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhc
Confidence            36799999999999999999998876543

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.17  E-value=0.065  Score=51.62  Aligned_cols=50  Identities=14%  Similarity=0.022  Sum_probs=33.7

Q ss_pred             hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      -+..|.+++ .+-..-.++.|.|.+|+||||||..++.....+-..++|+.
T Consensus        54 G~~~LD~~l-gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~s  103 (315)
T 3bh0_A           54 GFTELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  103 (315)
T ss_dssp             SCHHHHHHH-SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEE
T ss_pred             ChHHHHhhc-CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            344455555 33344568999999999999999998876543324555554

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=94.17  E-value=0.019  Score=51.33  Aligned_cols=25  Identities=36%  Similarity=0.430  Sum_probs=21.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +.++|+|+.|+|||||++.+.....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCc
Confidence            5789999999999999999887553

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.15  E-value=0.022  Score=51.93  Aligned_cols=25  Identities=28%  Similarity=0.333  Sum_probs=22.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...|.|.|++|+||||+|+.+...+
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999998764

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=94.12  E-value=0.039  Score=52.90  Aligned_cols=29  Identities=28%  Similarity=0.279  Sum_probs=24.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+++|+|.+|+|||||+..++..+...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~  129 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNL  129 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            45799999999999999999998776543

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.11  E-value=0.021  Score=51.85  Aligned_cols=26  Identities=27%  Similarity=0.048  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...|.|.|++|+||||+|+.+...+.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999987653

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=94.09  E-value=0.065  Score=52.52  Aligned_cols=39  Identities=26%  Similarity=0.246  Sum_probs=28.9

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++...+........+|+|+|.+|+|||||+..+.....
T Consensus        66 ~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~  104 (355)
T 3p32_A           66 QQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLI  104 (355)
T ss_dssp             HHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            344444443345678999999999999999999877653

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=94.07  E-value=0.024  Score=50.45  Aligned_cols=25  Identities=28%  Similarity=0.291  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...|+|.|+.|+||||+++.+.+.+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3579999999999999999998876

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=94.04  E-value=0.029  Score=54.07  Aligned_cols=28  Identities=32%  Similarity=0.380  Sum_probs=24.3

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ....+|+|+|..|+|||||++.+...+.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            4467999999999999999999987654

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.02  E-value=0.034  Score=50.14  Aligned_cols=42  Identities=29%  Similarity=0.215  Sum_probs=30.3

Q ss_pred             chhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          190 NSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       190 ~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .+..+.+...+..  ...++|+|+|.+|+|||||+..+......
T Consensus        15 ~~~~~~~~~~~~~--~~~~~i~i~G~~g~GKTTl~~~l~~~~~~   56 (221)
T 2wsm_A           15 KRLAEKNREALRE--SGTVAVNIMGAIGSGKTLLIERTIERIGN   56 (221)
T ss_dssp             HHHHHHHHHHHHH--HTCEEEEEEECTTSCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhcc--cCceEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            3444555554432  24689999999999999999998876543

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=94.01  E-value=0.03  Score=50.42  Aligned_cols=26  Identities=23%  Similarity=0.249  Sum_probs=23.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+|.|.|+.|+||||+|+.+...+.
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            46899999999999999999988764

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.01  E-value=0.031  Score=51.68  Aligned_cols=26  Identities=27%  Similarity=0.478  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|+|.|..|.|||||++.+...+
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999988754

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=93.92  E-value=0.027  Score=50.54  Aligned_cols=25  Identities=28%  Similarity=0.332  Sum_probs=22.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|+|||||++.+...+
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998765

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=93.92  E-value=0.044  Score=53.69  Aligned_cols=50  Identities=32%  Similarity=0.227  Sum_probs=35.0

Q ss_pred             HHHHHHhhh-cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          193 IEKIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       193 ~~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ...|...|. .+-..-.++.|+|.+|+||||||..++......=..++|++
T Consensus        46 ~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId   96 (356)
T 3hr8_A           46 SLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFID   96 (356)
T ss_dssp             CHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CHHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence            345666665 33344679999999999999999999887554323345654

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=93.79  E-value=0.033  Score=49.60  Aligned_cols=24  Identities=29%  Similarity=0.351  Sum_probs=21.6

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +|+|.|+.|+||||+|+.+...+.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            899999999999999999987653

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=93.78  E-value=0.036  Score=50.03  Aligned_cols=23  Identities=39%  Similarity=0.445  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999875

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=93.76  E-value=0.027  Score=51.00  Aligned_cols=24  Identities=25%  Similarity=0.189  Sum_probs=21.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..|.|.|++|+||||+|+.+...+
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998865

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=93.76  E-value=0.086  Score=50.33  Aligned_cols=27  Identities=37%  Similarity=0.460  Sum_probs=23.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..+++++|.+|+||||++..++..+..
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~  124 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKK  124 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            679999999999999999999877654

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=93.76  E-value=0.033  Score=52.78  Aligned_cols=24  Identities=29%  Similarity=0.659  Sum_probs=21.6

Q ss_pred             CceEEEEeccCcchhhhHHHHHHH
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ...+|+|.|+.|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999873

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=93.66  E-value=0.047  Score=53.45  Aligned_cols=50  Identities=24%  Similarity=0.206  Sum_probs=34.3

Q ss_pred             HHHHHHhhh-cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          193 IEKIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       193 ~~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ...|..+|. .+-..-+++.|+|.+|+||||||..++......=..++|++
T Consensus        46 ~~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~   96 (349)
T 2zr9_A           46 SISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFID   96 (349)
T ss_dssp             CHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            344555554 23344579999999999999999999876544323455655

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=93.65  E-value=0.027  Score=51.18  Aligned_cols=25  Identities=32%  Similarity=0.388  Sum_probs=22.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|+|||||++.+....
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4589999999999999999988754

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=93.63  E-value=0.036  Score=53.84  Aligned_cols=25  Identities=24%  Similarity=0.239  Sum_probs=22.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+|+|.|+.|+||||||..++..+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            5899999999999999999988754

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=93.56  E-value=0.028  Score=51.38  Aligned_cols=25  Identities=28%  Similarity=0.271  Sum_probs=16.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHH-Hhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIF-NLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~-~~~  231 (471)
                      -.+++|+|..|+|||||++.+. ...
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3689999999999999999998 653

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=93.55  E-value=0.053  Score=53.18  Aligned_cols=51  Identities=29%  Similarity=0.303  Sum_probs=35.0

Q ss_pred             HHHHHHhhh-cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeeh
Q 041795          193 IEKIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGN  243 (471)
Q Consensus       193 ~~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~  243 (471)
                      ...|..+|. .+-..-+++.|.|.+|+||||||..++......=..++|++.
T Consensus        48 ~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~   99 (356)
T 1u94_A           48 SLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDA   99 (356)
T ss_dssp             CHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            344555554 232345699999999999999999988775543335666653

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=93.54  E-value=0.032  Score=48.69  Aligned_cols=26  Identities=31%  Similarity=0.487  Sum_probs=22.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ++++|+|..|+|||||++.+...+..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            58999999999999999999876554

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=93.53  E-value=0.034  Score=52.98  Aligned_cols=27  Identities=19%  Similarity=0.370  Sum_probs=20.2

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+|+|.|..|+||||+|+.+.+.+.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            356899999999999999999987643

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=93.50  E-value=0.069  Score=45.85  Aligned_cols=26  Identities=35%  Similarity=0.348  Sum_probs=23.2

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .-.+++|+|..|.|||||.+.++..+
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            45689999999999999999998865

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=93.46  E-value=0.082  Score=53.18  Aligned_cols=28  Identities=36%  Similarity=0.379  Sum_probs=24.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..++|.++|.+|+||||++..++..+..
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~  123 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKK  123 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3689999999999999999999877654

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=93.46  E-value=0.037  Score=49.83  Aligned_cols=23  Identities=26%  Similarity=0.180  Sum_probs=20.6

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|.|.|++|+||||+|+.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998765

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=93.46  E-value=0.039  Score=50.18  Aligned_cols=23  Identities=26%  Similarity=0.359  Sum_probs=20.8

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|.|.|++|+||||+|+.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998765

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=93.45  E-value=0.039  Score=50.50  Aligned_cols=26  Identities=23%  Similarity=0.103  Sum_probs=22.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...|.|.|+.|+||||+|+.+.+.+.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999988753

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.45  E-value=0.091  Score=51.55  Aligned_cols=28  Identities=29%  Similarity=0.394  Sum_probs=24.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+++|+|..|+|||||++.++..+..
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            3579999999999999999999887654

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=93.43  E-value=0.04  Score=50.65  Aligned_cols=25  Identities=24%  Similarity=0.418  Sum_probs=22.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+|+|.|++|+||||+|+.+...+
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998765

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=93.42  E-value=0.032  Score=54.08  Aligned_cols=26  Identities=23%  Similarity=0.302  Sum_probs=23.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++|.|+|+.|+||||||..++..+.
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            46899999999999999999998654

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.38  E-value=0.038  Score=53.32  Aligned_cols=25  Identities=28%  Similarity=0.281  Sum_probs=22.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ++|.|+|+.|+||||||..++..+.
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5899999999999999999988653

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=93.37  E-value=0.067  Score=53.92  Aligned_cols=29  Identities=28%  Similarity=0.395  Sum_probs=25.0

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..++|.++|.+|+||||++..++..+...
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            46899999999999999999998876543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=93.35  E-value=0.06  Score=50.39  Aligned_cols=35  Identities=17%  Similarity=0.291  Sum_probs=26.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhccccceEe
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF  240 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~  240 (471)
                      .-.+++|+|..|.|||||.+.+...+...+.+.+.
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~   58 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHII   58 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEE
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEE
Confidence            34689999999999999999988765543344443

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.30  E-value=0.038  Score=49.08  Aligned_cols=24  Identities=33%  Similarity=0.286  Sum_probs=21.7

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      +++|+|..|+|||||.+.++..+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhcc
Confidence            689999999999999999988765

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=93.29  E-value=0.79  Score=43.16  Aligned_cols=35  Identities=9%  Similarity=-0.010  Sum_probs=24.7

Q ss_pred             CcHHHHHHhhhcceEEEEEccCcccchhhHHHHHHH
Q 041795           55 ISPALFTAIQGSKISVIVLSKHYASSKWCLHELVKI   90 (471)
Q Consensus        55 ~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~   90 (471)
                      ....+.+.+++++++|.|+.-.-..+..| .++...
T Consensus        13 a~~~~~~~l~~aDvVl~VvDAr~p~~~~~-~~l~~~   47 (282)
T 1puj_A           13 ARREVTEKLKLIDIVYELVDARIPMSSRN-PMIEDI   47 (282)
T ss_dssp             HHHHHHHHGGGCSEEEEEEETTSTTTTSC-HHHHHH
T ss_pred             HHHHHHHHHhhCCEEEEEEeCCCCCccCC-HHHHHH
Confidence            44678889999999999998665555554 234443

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=93.28  E-value=0.068  Score=51.18  Aligned_cols=28  Identities=29%  Similarity=0.394  Sum_probs=24.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+++|+|..|+|||||++.++..+..
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3579999999999999999999887654

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=93.25  E-value=0.041  Score=50.08  Aligned_cols=26  Identities=19%  Similarity=0.181  Sum_probs=23.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      -.+++|+|+.|+|||||.+.+.....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCC
Confidence            46899999999999999999988754

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=93.24  E-value=0.061  Score=56.75  Aligned_cols=47  Identities=34%  Similarity=0.426  Sum_probs=38.4

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..++|.+..++.+...+..+    ..+.|+|.+|+||||||+.++......
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~~l~~~   87 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAELLPTE   87 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHHTSCCS
T ss_pred             ceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhccCCcc
Confidence            45889988888888777643    478999999999999999999876443

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=93.21  E-value=0.1  Score=53.23  Aligned_cols=28  Identities=25%  Similarity=0.329  Sum_probs=24.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+++|+|.+|+|||||++.++..+..
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~  319 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQ  319 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhh
Confidence            3579999999999999999999877654

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=93.19  E-value=0.048  Score=47.70  Aligned_cols=26  Identities=27%  Similarity=0.408  Sum_probs=23.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++++|+|..|+|||||+..+...+.
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~   31 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALC   31 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcc
Confidence            57899999999999999999987754

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=93.17  E-value=0.047  Score=52.15  Aligned_cols=27  Identities=22%  Similarity=0.378  Sum_probs=23.7

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+++++|.+|+||||++..++..+.
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~  130 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISM  130 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            357999999999999999999987765

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=93.14  E-value=0.049  Score=49.08  Aligned_cols=23  Identities=30%  Similarity=0.281  Sum_probs=20.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +|.|.|++|+||||.|+.+.+.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998764

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=93.12  E-value=0.11  Score=50.55  Aligned_cols=53  Identities=17%  Similarity=0.161  Sum_probs=34.2

Q ss_pred             ccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          188 GLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       188 Gr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      |...-...|.+++. +-..-.++.|.|.+|+||||||..++.....+=..++|+
T Consensus        28 gi~TG~~~LD~~~g-Gl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~f   80 (338)
T 4a1f_A           28 GIPTGFVQLDNYTS-GFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVF   80 (338)
T ss_dssp             SBCCSCHHHHHHHC-SBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             cccCCChHHHHHhc-CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            33333445555553 223346899999999999999999988755432234444

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=93.10  E-value=0.049  Score=52.27  Aligned_cols=28  Identities=29%  Similarity=0.226  Sum_probs=24.1

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ....+|+|.|..|.|||||++.+...+.
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3457999999999999999999987654

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=93.09  E-value=0.047  Score=51.93  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=20.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .+|.|.|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=93.01  E-value=0.056  Score=52.07  Aligned_cols=29  Identities=21%  Similarity=0.444  Sum_probs=24.3

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ++.++|+|.|=||+||||.|..+.-.+..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~   74 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSI   74 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHH
Confidence            45799999999999999999888776544

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=92.89  E-value=0.06  Score=49.31  Aligned_cols=26  Identities=27%  Similarity=0.240  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|+|.|+.|+||||+++.+...+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999998754

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=92.88  E-value=0.078  Score=53.45  Aligned_cols=27  Identities=33%  Similarity=0.473  Sum_probs=23.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .++|+|+|.+|+||||++..++.....
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~  125 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQK  125 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            568999999999999999998876543

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=92.88  E-value=0.078  Score=52.40  Aligned_cols=29  Identities=38%  Similarity=0.361  Sum_probs=24.5

Q ss_pred             CCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          203 GRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       203 ~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +-+....++|+|++|.|||||++.++...
T Consensus       165 ~i~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          165 NIPKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            34456799999999999999999998754

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=92.86  E-value=0.057  Score=51.99  Aligned_cols=24  Identities=33%  Similarity=0.358  Sum_probs=21.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -+++.|+|++|+|||+||.+++..
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            457789999999999999999876

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=92.86  E-value=0.089  Score=49.92  Aligned_cols=29  Identities=14%  Similarity=0.015  Sum_probs=24.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .-.+++|.|.+|+|||||+..++..+...
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~~~   62 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWGTA   62 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHH
Confidence            34689999999999999999998876543

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=92.77  E-value=0.05  Score=49.07  Aligned_cols=23  Identities=43%  Similarity=0.249  Sum_probs=20.7

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .+++|+|..|.|||||.+.++.-
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            48999999999999999998764

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=92.72  E-value=0.13  Score=50.19  Aligned_cols=38  Identities=26%  Similarity=0.286  Sum_probs=28.6

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..|..+|..+-..-.++.|+|.+|+||||||..++...
T Consensus       109 ~~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~  146 (343)
T 1v5w_A          109 QEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTA  146 (343)
T ss_dssp             HHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             hhHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34555554333456799999999999999999988763

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=92.72  E-value=0.053  Score=54.47  Aligned_cols=26  Identities=23%  Similarity=0.272  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|.|+|++|+||||+|+.++...
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            46799999999999999999987754

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=92.70  E-value=0.079  Score=54.46  Aligned_cols=47  Identities=4%  Similarity=-0.082  Sum_probs=32.4

Q ss_pred             cccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          187 VGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       187 vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..|.+..+.+.+..........+|.+.|+.|+||||+|+.+...+..
T Consensus       375 f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          375 FSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             TSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            34444444555544211223578999999999999999999998753

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=92.70  E-value=0.055  Score=49.95  Aligned_cols=26  Identities=19%  Similarity=0.313  Sum_probs=22.6

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .. .+++|+|..|.|||||.+.++.-+
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            35 789999999999999999987654

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=92.57  E-value=0.089  Score=50.82  Aligned_cols=38  Identities=24%  Similarity=0.319  Sum_probs=27.7

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..|..+|..+-..-.++.|+|.+|+||||||..++...
T Consensus        94 ~~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~  131 (324)
T 2z43_A           94 QALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNV  131 (324)
T ss_dssp             HHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             hhHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHH
Confidence            34445554222345699999999999999999988764

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=92.56  E-value=0.061  Score=51.56  Aligned_cols=26  Identities=23%  Similarity=0.248  Sum_probs=22.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++|.|.|+.|+||||||..++..+.
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhCc
Confidence            35899999999999999999987653

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=92.46  E-value=0.1  Score=53.54  Aligned_cols=28  Identities=21%  Similarity=0.349  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..++|+|+|.+|+||||++..++..+..
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~  127 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQR  127 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4679999999999999999999876554

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=92.45  E-value=0.065  Score=52.45  Aligned_cols=37  Identities=30%  Similarity=0.407  Sum_probs=27.8

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|..+|..+-..-.++.|+|.+|+|||||+..++...
T Consensus       119 ~LD~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          119 SLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             HHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3444454333446799999999999999999998765

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=92.41  E-value=0.17  Score=51.35  Aligned_cols=49  Identities=12%  Similarity=0.126  Sum_probs=32.8

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcccc-ceEeee
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE-GNCFLG  242 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-~~~~~~  242 (471)
                      ...|..++ .+-..-.++.|.|.+|+||||||..++..+...-. .++|+.
T Consensus       190 ~~~LD~~~-gGl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s  239 (454)
T 2r6a_A          190 FTELDRMT-SGFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFS  239 (454)
T ss_dssp             CHHHHHHH-SSBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             cHHHHhhc-CCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            34444444 22234568999999999999999999887654322 455544

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=92.41  E-value=0.12  Score=49.51  Aligned_cols=35  Identities=9%  Similarity=0.139  Sum_probs=27.4

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhccc--cceEeeeh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYKEF--EGNCFLGN  243 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~~f--~~~~~~~~  243 (471)
                      ++.|.|.+|+||||||.+++......+  ..++|++.
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~   66 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDS   66 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEES
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEec
Confidence            789999999999999999887765442  34667763

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=92.35  E-value=0.059  Score=49.55  Aligned_cols=24  Identities=38%  Similarity=0.441  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            468999999999999999988653

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=92.33  E-value=0.095  Score=54.50  Aligned_cols=27  Identities=33%  Similarity=0.336  Sum_probs=24.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      -.+++|+|+.|+|||||++.++..+..
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~L~~  395 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAARLME  395 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCChHHHHHHHHHHhhcc
Confidence            468999999999999999999988654

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=92.31  E-value=0.085  Score=50.48  Aligned_cols=27  Identities=22%  Similarity=0.207  Sum_probs=23.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|.|+|+.|+||||||..++..+.
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~~   35 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKILP   35 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhCC
Confidence            357899999999999999999987743

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=92.27  E-value=0.051  Score=49.58  Aligned_cols=24  Identities=38%  Similarity=0.376  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -.+++|+|..|.|||||.+.++.-
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999988654

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=92.25  E-value=0.099  Score=49.18  Aligned_cols=26  Identities=27%  Similarity=0.255  Sum_probs=22.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      -.++.|+|.+|+|||||+..++..+.
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            46999999999999999999887654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=92.22  E-value=0.081  Score=44.49  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +-|+++|.+|+|||||...+...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999998764

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=92.18  E-value=0.061  Score=49.27  Aligned_cols=37  Identities=30%  Similarity=0.218  Sum_probs=26.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh-hhccccceEeee
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL-IYKEFEGNCFLG  242 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~-~~~~f~~~~~~~  242 (471)
                      .-.++.|.|.+|+|||+||.+++.. ....-..++++.
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s   66 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVT   66 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeec
Confidence            3568999999999999999987654 333333444443

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=92.16  E-value=0.1  Score=51.32  Aligned_cols=50  Identities=34%  Similarity=0.279  Sum_probs=34.4

Q ss_pred             HHHHHHhhh-cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          193 IEKIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       193 ~~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ...|..+|. .+-..-.++.|.|.+|+||||||..++......=..++|++
T Consensus        59 ~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~  109 (366)
T 1xp8_A           59 SLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID  109 (366)
T ss_dssp             CHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEE
Confidence            445555554 22234568999999999999999998877544333566665

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=92.15  E-value=0.083  Score=48.32  Aligned_cols=28  Identities=25%  Similarity=0.395  Sum_probs=24.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ....|.|.|+.|+||||+++.+.+.+..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            3568999999999999999999988654

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=92.13  E-value=0.061  Score=49.95  Aligned_cols=34  Identities=24%  Similarity=0.348  Sum_probs=26.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      -.+++|+|..|.|||||.+.++.-+...  +.+++.
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~~p~--G~i~~~   59 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMTSGK--GSIQFA   59 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCCE--EEEEET
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCCC--eEEEEC
Confidence            3589999999999999999988766554  555553

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=92.13  E-value=0.07  Score=46.95  Aligned_cols=24  Identities=25%  Similarity=0.264  Sum_probs=21.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .-.|+|+|.+|+|||||.+.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            457899999999999999998865

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=92.12  E-value=0.12  Score=49.22  Aligned_cols=28  Identities=29%  Similarity=0.277  Sum_probs=24.2

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+++++|.+|+||||++..++..+..
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~  124 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKG  124 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3579999999999999999999877654

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=92.04  E-value=0.06  Score=49.57  Aligned_cols=25  Identities=28%  Similarity=0.433  Sum_probs=21.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-+
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4589999999999999999987644

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=92.02  E-value=0.16  Score=47.01  Aligned_cols=27  Identities=37%  Similarity=0.427  Sum_probs=23.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...++.+.|.||+|||||+..++....
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            367899999999999999999987655

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=92.01  E-value=0.13  Score=44.95  Aligned_cols=25  Identities=24%  Similarity=0.101  Sum_probs=21.6

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....|+|+|.+|+|||||...+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3568899999999999999988764

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=92.00  E-value=0.073  Score=49.44  Aligned_cols=24  Identities=25%  Similarity=0.331  Sum_probs=21.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -.+++|+|..|.|||||.+.++.-
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999998864

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=91.91  E-value=0.063  Score=50.67  Aligned_cols=25  Identities=28%  Similarity=0.405  Sum_probs=21.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.+..-+
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            3589999999999999999987543

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=91.91  E-value=0.063  Score=50.26  Aligned_cols=25  Identities=32%  Similarity=0.404  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-+
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999987543

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=91.87  E-value=0.077  Score=46.92  Aligned_cols=24  Identities=25%  Similarity=0.264  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|+|+|.+|+|||||.+.+...
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            356899999999999999998864

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=91.87  E-value=0.19  Score=48.90  Aligned_cols=29  Identities=28%  Similarity=0.313  Sum_probs=24.5

Q ss_pred             CCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .....+|+|+|.+|+|||||+..+.....
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~~   81 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLLI   81 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            34578999999999999999999876654

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=91.84  E-value=0.082  Score=47.16  Aligned_cols=24  Identities=29%  Similarity=0.106  Sum_probs=21.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -+.|.|.|.+|+||||||.++..+
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            357899999999999999999875

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=91.82  E-value=0.077  Score=49.79  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -.+++|+|..|.|||||.+.++.-
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999998864

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=91.78  E-value=0.067  Score=49.35  Aligned_cols=25  Identities=44%  Similarity=0.553  Sum_probs=21.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-+
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999987543

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=91.78  E-value=0.066  Score=50.26  Aligned_cols=25  Identities=32%  Similarity=0.452  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.+..-+
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4589999999999999999987643

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=91.74  E-value=0.068  Score=49.87  Aligned_cols=25  Identities=32%  Similarity=0.436  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-+
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999987544

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=91.70  E-value=0.26  Score=49.77  Aligned_cols=54  Identities=17%  Similarity=0.044  Sum_probs=34.9

Q ss_pred             ccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc-ccceEeee
Q 041795          188 GLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNCFLG  242 (471)
Q Consensus       188 Gr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~~~  242 (471)
                      |...-...|..++ .+-..-.++.|.|.+|+||||||..++...... =..++|+.
T Consensus       182 ~i~tG~~~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~s  236 (444)
T 2q6t_A          182 GVRTGFKELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYS  236 (444)
T ss_dssp             -CCCSCHHHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEE
T ss_pred             cccCCCHhhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEE
Confidence            3333344555555 333445689999999999999999998876542 22345543

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=91.64  E-value=0.076  Score=49.08  Aligned_cols=35  Identities=20%  Similarity=0.264  Sum_probs=25.7

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      .-.+++|+|..|.|||||.+.++.-+.. ..+.+++
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p-~~G~i~~   61 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFYQP-TAGEITI   61 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSSCC-SBSCEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCC-CCcEEEE
Confidence            3468999999999999999998764432 2344444

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=91.63  E-value=0.096  Score=44.71  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=19.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ..|+|+|.+|+|||||...+..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999875

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=91.62  E-value=0.071  Score=49.95  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=22.0

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .-.+++|+|..|.|||||.+.++.-+
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            34689999999999999999987543

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=91.61  E-value=0.097  Score=48.03  Aligned_cols=26  Identities=23%  Similarity=0.139  Sum_probs=22.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...|.|.|..|+||||+++.+.+.+.
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            35799999999999999999988764

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=91.59  E-value=0.073  Score=48.72  Aligned_cols=25  Identities=28%  Similarity=0.409  Sum_probs=21.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-+
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999987543

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=91.58  E-value=0.14  Score=48.97  Aligned_cols=27  Identities=22%  Similarity=0.464  Sum_probs=23.4

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +.-.+++|+|..|.|||||++.+..-+
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            345689999999999999999988765

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=91.56  E-value=0.073  Score=49.34  Aligned_cols=34  Identities=29%  Similarity=0.488  Sum_probs=24.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|.|||||.+.++.-+.. ..+.+++
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl~~p-~~G~I~i   68 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRFYIP-ENGQVLI   68 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCC-SEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC-CCcEEEE
Confidence            358999999999999999998764332 2344444

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=91.49  E-value=0.062  Score=48.66  Aligned_cols=25  Identities=36%  Similarity=0.460  Sum_probs=21.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-+
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3589999999999999999987543

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=91.49  E-value=0.11  Score=53.67  Aligned_cols=27  Identities=15%  Similarity=0.279  Sum_probs=23.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+|.++|++|.||||+|+.+...+.
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~   60 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLN   60 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            356899999999999999999987653

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=91.44  E-value=0.088  Score=44.27  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=19.5

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988764

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=91.43  E-value=0.077  Score=49.50  Aligned_cols=25  Identities=44%  Similarity=0.519  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-+
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4589999999999999999987543

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=91.41  E-value=0.089  Score=52.44  Aligned_cols=38  Identities=24%  Similarity=0.245  Sum_probs=27.4

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|.++|..+-..-.++.|+|.+|+|||||+..++-.
T Consensus       164 ~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~~  201 (400)
T 3lda_A          164 SKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVT  201 (400)
T ss_dssp             CHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             ChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHHH
Confidence            34555556433334569999999999999999987643

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=91.39  E-value=0.084  Score=46.02  Aligned_cols=21  Identities=38%  Similarity=0.487  Sum_probs=19.0

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|+|+|.+|+|||||...+..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999998875

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=91.33  E-value=0.079  Score=49.51  Aligned_cols=34  Identities=26%  Similarity=0.466  Sum_probs=26.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      -.+++|+|..|.|||||.+.++.-+..  .+.+++.
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl~~~--~G~I~i~   79 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRFYDA--EGDIKIG   79 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCC--EEEEEET
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccCCC--CeEEEEC
Confidence            458999999999999999998765532  4555553

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=91.29  E-value=0.08  Score=49.81  Aligned_cols=34  Identities=29%  Similarity=0.459  Sum_probs=25.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|.|||||.+.++.-+.. ..+.+++
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~Gl~~p-~~G~I~~   78 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQNLYQP-TGGKVLL   78 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCC-SEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC-CCCEEEE
Confidence            468999999999999999998765432 2344444

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=91.29  E-value=0.1  Score=47.76  Aligned_cols=24  Identities=29%  Similarity=0.243  Sum_probs=21.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.++|.|++|+||||+|+.+.+.+
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998764

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=91.25  E-value=0.23  Score=50.19  Aligned_cols=50  Identities=14%  Similarity=0.023  Sum_probs=33.1

Q ss_pred             hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      -...|.+++. +-..-.++.|.|.+|+||||||..++......=..++|+.
T Consensus       183 G~~~LD~~lg-Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fS  232 (444)
T 3bgw_A          183 GFTELDRMTY-GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  232 (444)
T ss_dssp             SCHHHHHHHS-SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEEC
T ss_pred             CcHHHHhhcC-CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEE
Confidence            3444555552 3334568999999999999999999887554322344443

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=91.23  E-value=0.26  Score=47.82  Aligned_cols=28  Identities=36%  Similarity=0.386  Sum_probs=24.0

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ....+++|+|.+|+|||||.+.+...+.
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~~   80 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLLT   80 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhhh
Confidence            4567999999999999999999986644

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=91.23  E-value=0.09  Score=47.29  Aligned_cols=24  Identities=21%  Similarity=0.290  Sum_probs=21.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+|+|.|+.|+||||+|+.+...+
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            478999999999999999987754

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=91.22  E-value=0.082  Score=49.57  Aligned_cols=25  Identities=32%  Similarity=0.353  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-+
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4589999999999999999987543

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=91.21  E-value=0.11  Score=51.67  Aligned_cols=25  Identities=24%  Similarity=0.373  Sum_probs=22.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ++|+|.|+.|+||||||..++..+.
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC
Confidence            5899999999999999999988754

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=91.20  E-value=0.1  Score=45.53  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -.|+++|.+|+|||||+..+...
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46889999999999999998764

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=91.10  E-value=0.086  Score=49.85  Aligned_cols=25  Identities=28%  Similarity=0.310  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-+
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4589999999999999999987644

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=91.09  E-value=0.13  Score=43.45  Aligned_cols=24  Identities=17%  Similarity=0.163  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+...
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            346889999999999999998764

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=91.05  E-value=0.089  Score=48.95  Aligned_cols=24  Identities=29%  Similarity=0.540  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -.+++|+|..|.|||||.+.++.-
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999988653

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=91.03  E-value=0.11  Score=45.08  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|+++|.+|+|||||...+...
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            357899999999999999998763

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=91.02  E-value=0.085  Score=48.14  Aligned_cols=25  Identities=32%  Similarity=0.150  Sum_probs=21.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...+|+|.|..|.|||||++.+...
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            3579999999999999999988764

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=90.90  E-value=0.19  Score=46.76  Aligned_cols=27  Identities=33%  Similarity=0.491  Sum_probs=22.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++|+|.|-||+||||+|..++..+...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~   28 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAM   28 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHC
Confidence            578888999999999999998876543

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=90.86  E-value=0.12  Score=43.67  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .-|+++|.+|+|||||...+...
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46889999999999999988754

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=90.74  E-value=0.17  Score=43.91  Aligned_cols=26  Identities=23%  Similarity=0.234  Sum_probs=21.7

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .....|+|+|.+|+|||||...+.+.
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            34567899999999999999888654

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=90.74  E-value=0.12  Score=43.64  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=19.5

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+|+|.+|+|||||...+.+.
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5789999999999999998764

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=90.72  E-value=0.12  Score=48.64  Aligned_cols=23  Identities=30%  Similarity=0.495  Sum_probs=20.8

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .++|+|..|+|||||.+.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998764

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=90.72  E-value=0.13  Score=45.99  Aligned_cols=25  Identities=20%  Similarity=0.123  Sum_probs=22.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .+|.|.|+.|+||||+|+.++..+.
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg   31 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYN   31 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999998764

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=90.66  E-value=0.11  Score=49.72  Aligned_cols=26  Identities=23%  Similarity=0.436  Sum_probs=21.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .-.+++|+|..|.|||||++.+..-+
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcCC
Confidence            34689999999999999999886543

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=90.66  E-value=0.22  Score=52.02  Aligned_cols=27  Identities=19%  Similarity=0.113  Sum_probs=23.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+|.|.|++|+||||+|+.+...+.
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhc
Confidence            456899999999999999999988765

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=90.64  E-value=0.14  Score=52.08  Aligned_cols=27  Identities=15%  Similarity=0.229  Sum_probs=23.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..+|.++|++|+||||+|+.+......
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~   65 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNF   65 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            468899999999999999999887543

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=90.61  E-value=0.19  Score=44.18  Aligned_cols=24  Identities=25%  Similarity=0.176  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .++.|+|..|+||||++..++.+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            478899999999999997766553

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=90.60  E-value=0.13  Score=43.38  Aligned_cols=23  Identities=30%  Similarity=0.395  Sum_probs=19.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      --|+|+|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999888754

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=90.53  E-value=0.13  Score=43.29  Aligned_cols=21  Identities=24%  Similarity=0.213  Sum_probs=19.0

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |+++|.+|+|||||...+...
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999998764

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=90.53  E-value=0.13  Score=44.73  Aligned_cols=26  Identities=27%  Similarity=0.213  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .--|+|+|.+|+|||||.+.+.+...
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~~~   39 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSKVP   39 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHTSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhhcc
Confidence            45689999999999999977665543

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=90.50  E-value=0.13  Score=43.68  Aligned_cols=24  Identities=29%  Similarity=0.177  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+++|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346899999999999999988764

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=90.47  E-value=0.075  Score=55.93  Aligned_cols=48  Identities=23%  Similarity=0.145  Sum_probs=34.2

Q ss_pred             CCccccchhHHHHHHhhhcCCC---------CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRP---------DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~---------~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +.++|.+..++.+...|..+..         ...-|.++|.+|+|||+||+.+++..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            5689998876666554443310         01158899999999999999998764

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=90.44  E-value=0.13  Score=43.45  Aligned_cols=22  Identities=14%  Similarity=0.211  Sum_probs=19.5

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+++|.+|+|||||...+.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999988764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=90.38  E-value=0.15  Score=43.66  Aligned_cols=25  Identities=40%  Similarity=0.337  Sum_probs=21.6

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....|+|+|.+|+|||||...+...
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567899999999999999998764

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=90.37  E-value=0.13  Score=44.74  Aligned_cols=24  Identities=29%  Similarity=0.576  Sum_probs=21.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+.+|+|..|.|||||..+++--+
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHH
Confidence            388999999999999999987643

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=90.36  E-value=0.12  Score=43.82  Aligned_cols=22  Identities=32%  Similarity=0.596  Sum_probs=19.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      --|+++|.+|+|||||...+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            3578999999999999998875

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=90.36  E-value=0.14  Score=43.45  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      --|+++|.+|+|||||...+.+.
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999998764

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=90.35  E-value=0.13  Score=44.75  Aligned_cols=24  Identities=21%  Similarity=0.073  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+.+.
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999998764

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=90.34  E-value=0.15  Score=50.08  Aligned_cols=26  Identities=23%  Similarity=0.363  Sum_probs=22.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...++|+|..|.|||||++.+...+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999887643

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=90.33  E-value=0.13  Score=43.65  Aligned_cols=22  Identities=41%  Similarity=0.456  Sum_probs=19.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      --|+|+|.+|+|||||...+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3588999999999999998853

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=90.31  E-value=0.13  Score=55.87  Aligned_cols=51  Identities=29%  Similarity=0.332  Sum_probs=38.2

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .++.|.++.+++|.+.+..           +....+-+.++|++|.|||.||+++++.....
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~  538 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN  538 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc
Confidence            4567888888888776541           11235568899999999999999999875443

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=90.27  E-value=0.11  Score=48.54  Aligned_cols=33  Identities=45%  Similarity=0.599  Sum_probs=25.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      -.+++|+|..|.|||||.+.++.-.  -..+.+++
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~--p~~G~I~~   62 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL--PYSGNIFI   62 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS--CCEEEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC--CCCcEEEE
Confidence            3589999999999999999987655  23444444

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=90.27  E-value=0.16  Score=45.37  Aligned_cols=25  Identities=24%  Similarity=0.101  Sum_probs=21.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....|.|+|.+|+|||||...+...
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4567899999999999999998875

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=90.23  E-value=0.14  Score=49.22  Aligned_cols=26  Identities=35%  Similarity=0.381  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..++++|.|+.|.|||||.+.+....
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhhc
Confidence            46899999999999999999988653

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=90.23  E-value=0.22  Score=51.80  Aligned_cols=45  Identities=16%  Similarity=0.084  Sum_probs=30.8

Q ss_pred             ccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          188 GLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       188 Gr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .|.+..+.+.+..........+|.+.|++|+||||+|+.+...+.
T Consensus       353 ~r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~  397 (546)
T 2gks_A          353 TRPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQ  397 (546)
T ss_dssp             SCHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhh
Confidence            344444455554422223357899999999999999999988754

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=90.23  E-value=0.11  Score=51.82  Aligned_cols=25  Identities=20%  Similarity=0.381  Sum_probs=22.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...+++|+|..|+|||||.+.+...
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCC
Confidence            4569999999999999999999873

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=90.22  E-value=0.13  Score=44.21  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      --|+++|.+|+|||||...+.+.
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46889999999999999988764

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=90.20  E-value=0.2  Score=49.32  Aligned_cols=34  Identities=18%  Similarity=0.290  Sum_probs=26.2

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhccccceE
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC  239 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~  239 (471)
                      .-.+++|+|..|.|||||.+.+...+.....+.+
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I  168 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHI  168 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEE
Confidence            3468999999999999999999876654323333

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=90.17  E-value=0.083  Score=49.25  Aligned_cols=26  Identities=23%  Similarity=0.311  Sum_probs=22.6

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ....|+|.|..|+||||+|+.+.+.+
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            35789999999999999999887665

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=90.16  E-value=0.14  Score=43.88  Aligned_cols=25  Identities=36%  Similarity=0.348  Sum_probs=21.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...-|+|+|.+|+|||||...+...
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            3567899999999999999988764

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=90.14  E-value=0.25  Score=49.56  Aligned_cols=29  Identities=28%  Similarity=0.281  Sum_probs=24.7

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+++++|.+|+||||++..++..+...
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~  125 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            35789999999999999999998876544

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=90.14  E-value=0.14  Score=44.65  Aligned_cols=24  Identities=29%  Similarity=0.231  Sum_probs=20.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            347889999999999999887654

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=90.12  E-value=0.18  Score=42.97  Aligned_cols=24  Identities=33%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+...
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEEECCCCccHHHHHHHHhcC
Confidence            346899999999999999988653

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=90.09  E-value=0.12  Score=44.49  Aligned_cols=23  Identities=30%  Similarity=0.264  Sum_probs=20.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..|+|+|.+|+|||||...+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999998753

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=90.07  E-value=0.15  Score=43.13  Aligned_cols=23  Identities=17%  Similarity=0.150  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      --|+++|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46889999999999999998763

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=90.06  E-value=0.12  Score=43.61  Aligned_cols=21  Identities=33%  Similarity=0.360  Sum_probs=18.4

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|+++|.+|+|||||...+.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999988753

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=90.04  E-value=0.23  Score=45.17  Aligned_cols=25  Identities=20%  Similarity=0.020  Sum_probs=21.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .|.+.|.||+||||+|..++.....
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~   32 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLR   32 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHH
Confidence            4778999999999999988887543

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=90.04  E-value=0.25  Score=46.60  Aligned_cols=26  Identities=31%  Similarity=0.567  Sum_probs=22.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ++|+|.|-||+||||+|..++..+..
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~La~   28 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAALAE   28 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHHHH
Confidence            67888999999999999998887654

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=90.02  E-value=0.15  Score=43.72  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=20.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+.+.
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            346889999999999999988754

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=90.00  E-value=0.16  Score=48.83  Aligned_cols=37  Identities=22%  Similarity=0.214  Sum_probs=27.5

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..|..+|..+-..-.++.|+|.+|+||||||..++..
T Consensus        85 ~~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           85 SELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             HHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             hhHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3455555423234579999999999999999998865

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=90.00  E-value=0.15  Score=43.62  Aligned_cols=24  Identities=29%  Similarity=0.380  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            456899999999999999998754

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=89.94  E-value=0.24  Score=46.00  Aligned_cols=33  Identities=21%  Similarity=0.256  Sum_probs=24.7

Q ss_pred             HhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          198 SLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       198 ~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +.+.........|+++|.+|+|||||...+...
T Consensus        27 ~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           27 GKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             HHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             HHHhhccCCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            333333334567899999999999999998764

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=89.94  E-value=0.15  Score=44.50  Aligned_cols=24  Identities=25%  Similarity=0.310  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhC
Confidence            346889999999999999888764

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=89.93  E-value=0.15  Score=43.52  Aligned_cols=24  Identities=25%  Similarity=0.122  Sum_probs=21.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            567899999999999999998764

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=89.87  E-value=0.15  Score=43.21  Aligned_cols=23  Identities=22%  Similarity=0.208  Sum_probs=20.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      --|+|+|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            46899999999999999988753

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=89.87  E-value=0.14  Score=50.15  Aligned_cols=25  Identities=36%  Similarity=0.371  Sum_probs=22.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-.
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCC
Confidence            4589999999999999999998754

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=89.82  E-value=0.22  Score=44.60  Aligned_cols=30  Identities=23%  Similarity=0.513  Sum_probs=25.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccccc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFEG  237 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~  237 (471)
                      .-|+|-|.-|+||||+++.+.+.+...++.
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~~~~~v   32 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLVKDYDV   32 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTTTSCE
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHCCCCE
Confidence            458899999999999999999987655543

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=89.82  E-value=0.15  Score=44.44  Aligned_cols=25  Identities=16%  Similarity=0.373  Sum_probs=21.6

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....|+|+|.+|+|||||...+...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4668899999999999999988753

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=89.75  E-value=0.21  Score=45.13  Aligned_cols=27  Identities=22%  Similarity=0.181  Sum_probs=23.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...|.|.|+.|+||||+++.+.+.+..
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~   32 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRE   32 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            358999999999999999999887654

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=89.72  E-value=0.15  Score=49.94  Aligned_cols=25  Identities=36%  Similarity=0.473  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.+..-.
T Consensus        54 Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           54 GQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEEcCCCchHHHHHHHHhcCC
Confidence            4689999999999999999987643

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=89.70  E-value=0.16  Score=43.76  Aligned_cols=24  Identities=29%  Similarity=0.391  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457899999999999999998764

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=89.68  E-value=0.22  Score=42.61  Aligned_cols=25  Identities=24%  Similarity=0.357  Sum_probs=21.6

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...-|+|+|.+|+|||||...+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3567899999999999999998765

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=89.68  E-value=0.17  Score=42.99  Aligned_cols=24  Identities=29%  Similarity=0.225  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|+++|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999998754

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=89.64  E-value=0.16  Score=43.95  Aligned_cols=24  Identities=21%  Similarity=0.105  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            457899999999999999998764

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=89.61  E-value=0.16  Score=44.58  Aligned_cols=23  Identities=30%  Similarity=0.290  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..|+++|.+|+|||||...+.+.
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999998764

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=89.60  E-value=0.17  Score=43.79  Aligned_cols=23  Identities=22%  Similarity=0.306  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      --|+|+|.+|+|||||...+.+.
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35889999999999999998764

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=89.56  E-value=0.16  Score=49.56  Aligned_cols=25  Identities=28%  Similarity=0.223  Sum_probs=21.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-.
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCccHHHHHHHHHcCC
Confidence            4589999999999999999998654

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=89.54  E-value=0.17  Score=44.19  Aligned_cols=24  Identities=29%  Similarity=0.266  Sum_probs=21.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            457899999999999999988764

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=89.51  E-value=0.27  Score=45.84  Aligned_cols=31  Identities=23%  Similarity=0.302  Sum_probs=24.0

Q ss_pred             hhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          200 LCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       200 L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +.........|+++|.+|+|||||...++..
T Consensus        32 ~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           32 LKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             HHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HhhcCCCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            3333334568899999999999999998864

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=89.51  E-value=0.16  Score=49.61  Aligned_cols=25  Identities=40%  Similarity=0.535  Sum_probs=21.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|+|||||.+.++.-.
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3589999999999999999988654

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=89.50  E-value=0.17  Score=43.56  Aligned_cols=23  Identities=26%  Similarity=0.135  Sum_probs=19.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      --|+++|.+|+|||||...+.+.
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46889999999999999888754

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=89.47  E-value=0.13  Score=48.78  Aligned_cols=25  Identities=28%  Similarity=0.409  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-+
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4689999999999999999987643

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=89.40  E-value=0.18  Score=43.36  Aligned_cols=23  Identities=26%  Similarity=0.088  Sum_probs=19.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      --|+|+|.+|+|||||...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999888754

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=89.39  E-value=0.18  Score=43.46  Aligned_cols=24  Identities=29%  Similarity=0.374  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhC
Confidence            457899999999999999988754

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=89.38  E-value=0.3  Score=43.09  Aligned_cols=27  Identities=26%  Similarity=0.433  Sum_probs=22.1

Q ss_pred             eEEEEe-ccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIW-GMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~-G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++|+|+ +-||+||||+|..++..+...
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~   29 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRS   29 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHC
Confidence            578888 469999999999998876553

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=89.36  E-value=0.15  Score=49.88  Aligned_cols=25  Identities=40%  Similarity=0.417  Sum_probs=21.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-.
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4589999999999999999998644

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=89.34  E-value=0.17  Score=43.74  Aligned_cols=24  Identities=25%  Similarity=0.286  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            457899999999999999998764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=89.34  E-value=0.2  Score=43.56  Aligned_cols=25  Identities=32%  Similarity=0.359  Sum_probs=21.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....|+|+|.+|+|||||...+...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcC
Confidence            3457899999999999999988764

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=89.33  E-value=0.21  Score=48.76  Aligned_cols=28  Identities=25%  Similarity=0.250  Sum_probs=24.0

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +..+|+|+|.+|+|||||...+......
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~~~  100 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKMLTE  100 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhhh
Confidence            4789999999999999999998876443

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=89.33  E-value=0.14  Score=44.34  Aligned_cols=22  Identities=23%  Similarity=0.190  Sum_probs=19.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+|+|.+|+|||||...+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999988754

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=89.30  E-value=0.17  Score=49.91  Aligned_cols=25  Identities=36%  Similarity=0.317  Sum_probs=21.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-.
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHcCC
Confidence            4589999999999999999998644

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=89.28  E-value=0.18  Score=44.23  Aligned_cols=24  Identities=25%  Similarity=0.382  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+...
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999988764

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=89.23  E-value=0.19  Score=43.05  Aligned_cols=25  Identities=24%  Similarity=0.212  Sum_probs=21.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...-|+|+|.+|+|||||...+...
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcC
Confidence            3567899999999999999988653

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=89.21  E-value=0.18  Score=43.21  Aligned_cols=24  Identities=21%  Similarity=0.170  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346899999999999999988764

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=89.19  E-value=0.14  Score=45.21  Aligned_cols=23  Identities=39%  Similarity=0.446  Sum_probs=19.7

Q ss_pred             CceEEEEeccCcchhhhHHHHHH
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~  228 (471)
                      ...-|+|+|.+|+|||||...+.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            35678999999999999998864

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=89.19  E-value=0.18  Score=49.44  Aligned_cols=25  Identities=28%  Similarity=0.309  Sum_probs=22.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHCCC
Confidence            4589999999999999999998654

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=89.18  E-value=0.19  Score=44.23  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=19.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .--|+|+|.+|+|||||...+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34689999999999999988864

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=89.14  E-value=0.19  Score=43.07  Aligned_cols=24  Identities=29%  Similarity=0.131  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+++|.+|+|||||...+...
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456899999999999999988764

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=89.14  E-value=0.26  Score=44.86  Aligned_cols=28  Identities=21%  Similarity=0.332  Sum_probs=24.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ....|.|.|+.|+||||+++.+.+.+..
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3578999999999999999999987654

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=89.14  E-value=0.18  Score=43.41  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|+|+|.+|+|||||...+.+.
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            457899999999999999988753

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=89.10  E-value=0.24  Score=52.10  Aligned_cols=26  Identities=31%  Similarity=0.342  Sum_probs=23.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|.|.|++|+||||+|+.+...+
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L   76 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYL   76 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998875

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=89.10  E-value=0.18  Score=49.44  Aligned_cols=25  Identities=28%  Similarity=0.408  Sum_probs=22.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCC
Confidence            4689999999999999999998654

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=89.09  E-value=0.18  Score=43.05  Aligned_cols=23  Identities=22%  Similarity=0.147  Sum_probs=19.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      --|+|+|.+|+|||||...+...
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46889999999999999988753

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=89.08  E-value=0.35  Score=44.02  Aligned_cols=29  Identities=24%  Similarity=0.390  Sum_probs=23.9

Q ss_pred             CceEEEEec-cCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWG-MGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G-~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..++|+|+| -||+||||+|..++..+...
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~   32 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALSQE   32 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHHhC
Confidence            357888886 59999999999999887664

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=89.06  E-value=0.21  Score=44.25  Aligned_cols=24  Identities=25%  Similarity=0.098  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+++|.+|+|||||...+.+.
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999888754

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=89.05  E-value=0.19  Score=43.88  Aligned_cols=24  Identities=21%  Similarity=0.073  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+...
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcC
Confidence            446889999999999999998764

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=89.03  E-value=0.19  Score=44.19  Aligned_cols=24  Identities=29%  Similarity=0.374  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            457899999999999999988754

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=88.97  E-value=0.19  Score=49.56  Aligned_cols=25  Identities=32%  Similarity=0.270  Sum_probs=21.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|+|||||.+.++.-.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCcHHHHHHHHHHcCC
Confidence            3589999999999999999988653

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=88.96  E-value=0.28  Score=46.82  Aligned_cols=31  Identities=23%  Similarity=0.290  Sum_probs=24.6

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHH
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~  228 (471)
                      +++|.+.+.     -.+++|+|..|+|||||.+.+.
T Consensus       156 i~~L~~~l~-----G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLE-----GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTT-----TCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhcc-----CcEEEEECCCCCCHHHHHHHHH
Confidence            455555553     2488999999999999999987

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=88.88  E-value=0.36  Score=43.88  Aligned_cols=28  Identities=21%  Similarity=-0.151  Sum_probs=23.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      -.++.|+|..|+||||++..+.++...+
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~r~~~~   39 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLHRLEYA   39 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            4688999999999999999988876544

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=88.84  E-value=0.19  Score=44.77  Aligned_cols=24  Identities=21%  Similarity=0.073  Sum_probs=21.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            457889999999999999998764

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=88.83  E-value=0.21  Score=45.54  Aligned_cols=27  Identities=22%  Similarity=0.288  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...|.|.|+.|+||||+++.+.+.+..
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~   51 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQE   51 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            468999999999999999999987654

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=88.83  E-value=0.19  Score=49.43  Aligned_cols=25  Identities=32%  Similarity=0.288  Sum_probs=21.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.++.-.
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            4689999999999999999988643

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=88.82  E-value=0.19  Score=44.32  Aligned_cols=24  Identities=38%  Similarity=0.428  Sum_probs=21.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhC
Confidence            457899999999999999998864

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=88.81  E-value=0.2  Score=44.56  Aligned_cols=24  Identities=29%  Similarity=0.243  Sum_probs=20.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|+|+|.+|+|||||...+...
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999998764

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=88.80  E-value=0.21  Score=43.56  Aligned_cols=24  Identities=25%  Similarity=0.198  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcC
Confidence            356889999999999999998764

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=88.79  E-value=0.19  Score=44.60  Aligned_cols=24  Identities=25%  Similarity=0.257  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            457899999999999999988764

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=88.77  E-value=0.25  Score=43.51  Aligned_cols=25  Identities=36%  Similarity=0.348  Sum_probs=21.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...-|+|+|.+|+|||||...+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3567899999999999999998764

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=88.76  E-value=0.16  Score=44.88  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=19.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ..|+++|.+|+|||||...+..
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4588999999999999998864

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=88.74  E-value=0.21  Score=43.69  Aligned_cols=24  Identities=29%  Similarity=0.163  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            456889999999999999998764

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=88.72  E-value=0.37  Score=44.67  Aligned_cols=28  Identities=32%  Similarity=0.383  Sum_probs=22.9

Q ss_pred             CCceEEEEec-cCcchhhhHHHHHHHhhh
Q 041795          205 PDFRIVGIWG-MGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       205 ~~~~vv~I~G-~gGiGKTtLA~~v~~~~~  232 (471)
                      ...++|+|+| -||+||||+|..++..+.
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la   53 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS   53 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH
Confidence            3467888866 699999999999988876

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=88.71  E-value=0.2  Score=43.85  Aligned_cols=24  Identities=21%  Similarity=0.214  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+...
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            456899999999999999998764

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=88.59  E-value=0.25  Score=42.95  Aligned_cols=23  Identities=30%  Similarity=0.238  Sum_probs=20.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +-|.|.|.+|+||||||.++..+
T Consensus        17 ~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            57899999999999999998774

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=88.58  E-value=0.22  Score=43.44  Aligned_cols=24  Identities=21%  Similarity=0.158  Sum_probs=21.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            557899999999999999998764

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=88.57  E-value=0.37  Score=43.86  Aligned_cols=25  Identities=32%  Similarity=0.676  Sum_probs=21.2

Q ss_pred             EEEeccCcchhhhHHHHHHHhhhcc
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      |+|.|-||+||||+|..++..+...
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~   27 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASD   27 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTT
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHC
Confidence            5668999999999999998876554

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=88.56  E-value=0.22  Score=43.34  Aligned_cols=24  Identities=17%  Similarity=0.056  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            457899999999999999998764

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=88.56  E-value=0.22  Score=43.47  Aligned_cols=24  Identities=25%  Similarity=0.145  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            446889999999999999988764

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=88.50  E-value=0.32  Score=42.34  Aligned_cols=24  Identities=13%  Similarity=0.080  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999998765

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=88.49  E-value=0.22  Score=43.81  Aligned_cols=25  Identities=12%  Similarity=0.098  Sum_probs=21.0

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...-|+|+|.+|+|||||...+...
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhC
Confidence            3567899999999999999988754

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=88.48  E-value=0.25  Score=44.95  Aligned_cols=26  Identities=15%  Similarity=0.059  Sum_probs=23.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..+|+|.|+.|+||||+|+.++..+.
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~lg   39 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEELG   39 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHcC
Confidence            46999999999999999999998764

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=88.45  E-value=0.67  Score=43.36  Aligned_cols=51  Identities=16%  Similarity=0.146  Sum_probs=32.8

Q ss_pred             hhHHHHHHhhhc--CCCCceEEEEecc-CcchhhhHHHHHHHhhhccccceEee
Q 041795          191 SRIEKIKSLLCI--GRPDFRIVGIWGM-GGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       191 ~~~~~l~~~L~~--~~~~~~vv~I~G~-gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      +.++.|...|..  .....++|.|.|. ||+||||+|..++..+...=..++.+
T Consensus        64 Ea~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLI  117 (271)
T 3bfv_A           64 EKFRGIRSNIMFANPDSAVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIV  117 (271)
T ss_dssp             HHHHHHHHHHHHSSTTCCCCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             HHHHHHHHHHHhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEE
Confidence            344445444432  2345689999975 99999999999988766532233433

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=88.45  E-value=0.2  Score=44.13  Aligned_cols=24  Identities=21%  Similarity=0.091  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999988764

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=88.42  E-value=0.21  Score=43.64  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            456899999999999999998763

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=88.37  E-value=0.23  Score=43.21  Aligned_cols=24  Identities=21%  Similarity=0.104  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            457899999999999999988754

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=88.34  E-value=0.24  Score=45.50  Aligned_cols=27  Identities=22%  Similarity=0.409  Sum_probs=23.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...|.|.|+.|+||||+++.+.+.+..
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~   53 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQ   53 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            468999999999999999999887644

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=88.29  E-value=0.23  Score=43.14  Aligned_cols=24  Identities=25%  Similarity=0.191  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            347899999999999999998764

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=88.27  E-value=0.19  Score=44.22  Aligned_cols=24  Identities=17%  Similarity=0.368  Sum_probs=19.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|.++|.+|+|||||...+.+.
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            457889999999999998866553

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=88.16  E-value=0.15  Score=45.22  Aligned_cols=24  Identities=21%  Similarity=0.184  Sum_probs=20.2

Q ss_pred             CceEEEEeccCcchhhhHHHHHHH
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ....|+|+|.+|+|||||.+.+..
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            346899999999999999987653

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=88.15  E-value=0.32  Score=43.42  Aligned_cols=26  Identities=15%  Similarity=0.130  Sum_probs=22.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...+|+|+|++|+||+|+|..+.+.+
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~~   35 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSRL   35 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHHc
Confidence            45699999999999999998886644

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=88.10  E-value=0.2  Score=44.01  Aligned_cols=24  Identities=25%  Similarity=0.122  Sum_probs=20.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999888754

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=88.09  E-value=0.43  Score=46.90  Aligned_cols=30  Identities=23%  Similarity=0.155  Sum_probs=24.9

Q ss_pred             CCceEEEEec-cCcchhhhHHHHHHHhhhcc
Q 041795          205 PDFRIVGIWG-MGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       205 ~~~~vv~I~G-~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...++|+|+| -||+||||+|..++..+...
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~  171 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANM  171 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhC
Confidence            4578999986 89999999999988876554

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=88.07  E-value=0.25  Score=47.01  Aligned_cols=26  Identities=19%  Similarity=0.291  Sum_probs=22.3

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .....|+|+|.+|+|||||...+...
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~   47 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGR   47 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTS
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCC
Confidence            34678999999999999999988753

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=88.07  E-value=0.43  Score=43.21  Aligned_cols=27  Identities=37%  Similarity=0.519  Sum_probs=22.1

Q ss_pred             eEEEEec-cCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWG-MGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G-~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++|+|+| -||+||||+|..++..+...
T Consensus         3 ~~i~v~s~kgGvGKTt~a~~LA~~la~~   30 (237)
T 1g3q_A            3 RIISIVSGKGGTGKTTVTANLSVALGDR   30 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHT
T ss_pred             eEEEEecCCCCCCHHHHHHHHHHHHHhc
Confidence            5777776 69999999999998887654

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=88.05  E-value=0.66  Score=46.37  Aligned_cols=29  Identities=24%  Similarity=0.214  Sum_probs=24.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .-.+++|+|..|.|||||.+.+...+...
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~l~~~  194 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQELNSS  194 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCCT
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhhcCCC
Confidence            35689999999999999999998876543

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=88.03  E-value=0.19  Score=47.90  Aligned_cols=21  Identities=33%  Similarity=0.537  Sum_probs=18.7

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|+|+|.+|+|||||.+.++.
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            459999999999999999875

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=88.01  E-value=0.24  Score=48.37  Aligned_cols=27  Identities=37%  Similarity=0.460  Sum_probs=23.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      -.+++|+|..|+|||||.+.+......
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~~~~   97 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNGASA   97 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            458999999999999999999987654

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=87.99  E-value=0.22  Score=49.32  Aligned_cols=34  Identities=35%  Similarity=0.531  Sum_probs=26.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      -..++|+|..|+|||||.+.++.-..  ..+.+++.
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaGl~~--~~G~I~i~   80 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLRLLN--TEGEIQID   80 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTCSE--EEEEEEES
T ss_pred             CCEEEEECCCCChHHHHHHHHhCCCC--CCeEEEEC
Confidence            46899999999999999999986443  34556554

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=87.92  E-value=0.28  Score=44.71  Aligned_cols=25  Identities=20%  Similarity=0.287  Sum_probs=21.7

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....|+|+|.+|+|||||...+...
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCC
Confidence            4568899999999999999988764

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=87.85  E-value=0.24  Score=44.53  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=19.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ..-|+|+|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45689999999999999988763

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=87.81  E-value=0.69  Score=43.96  Aligned_cols=31  Identities=23%  Similarity=0.309  Sum_probs=25.2

Q ss_pred             CCCceEEEEecc-CcchhhhHHHHHHHhhhcc
Q 041795          204 RPDFRIVGIWGM-GGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       204 ~~~~~vv~I~G~-gGiGKTtLA~~v~~~~~~~  234 (471)
                      ....++|.|.|. ||+||||+|..++..+...
T Consensus       101 ~~~~kvI~vts~kgG~GKTtva~nLA~~lA~~  132 (299)
T 3cio_A          101 ETENNILMITGATPDSGKTFVSSTLAAVIAQS  132 (299)
T ss_dssp             SCSCCEEEEEESSSSSCHHHHHHHHHHHHHHT
T ss_pred             CCCCeEEEEECCCCCCChHHHHHHHHHHHHhC
Confidence            345689999985 8999999999998876654

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=87.69  E-value=0.17  Score=43.69  Aligned_cols=24  Identities=21%  Similarity=0.105  Sum_probs=10.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEECCCCC------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457899999999999999887653

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=87.68  E-value=0.25  Score=43.10  Aligned_cols=24  Identities=29%  Similarity=0.199  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+++|.+|+|||||...+.+.
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            357899999999999999998865

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=87.67  E-value=0.4  Score=45.29  Aligned_cols=39  Identities=26%  Similarity=0.366  Sum_probs=26.8

Q ss_pred             hHHHHHHhhhcCCCCceEEEEec---cCcchhhhHHHHHHHhhhc
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWG---MGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G---~gGiGKTtLA~~v~~~~~~  233 (471)
                      .+.++.+.+..   ..++|+|++   -||+||||+|..++..+..
T Consensus        22 ~~~~~~r~~~~---~~~~i~v~~~s~KGGvGKTT~a~nLA~~la~   63 (298)
T 2oze_A           22 ILEELRRILSN---KNEAIVILNNYFKGGVGKSKLSTMFAYLTDK   63 (298)
T ss_dssp             HHHHHHHHHHH---HCSCEEEEECCSSSSSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC---CCcEEEEEeccCCCCchHHHHHHHHHHHHHh
Confidence            34555555542   235666665   8999999999999877654

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=87.67  E-value=0.21  Score=44.10  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=20.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            557899999999999999988643

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=87.64  E-value=0.25  Score=43.61  Aligned_cols=24  Identities=21%  Similarity=0.162  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            457899999999999999998764

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=87.63  E-value=0.23  Score=43.13  Aligned_cols=25  Identities=28%  Similarity=0.155  Sum_probs=21.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....|+|+|.+|+|||||...+...
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3567899999999999999998753

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=87.61  E-value=0.27  Score=44.43  Aligned_cols=22  Identities=23%  Similarity=0.202  Sum_probs=19.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.|+|.+|+|||+|...+.+.
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            4789999999999999987653

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=87.61  E-value=0.2  Score=49.16  Aligned_cols=25  Identities=40%  Similarity=0.551  Sum_probs=22.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|+|..|.|||||++.+...+.
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            5899999999999999999987554

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=87.58  E-value=0.29  Score=42.68  Aligned_cols=25  Identities=24%  Similarity=0.272  Sum_probs=21.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....|+|+|.+|+|||||...+...
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            4678999999999999999988653

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=87.58  E-value=0.25  Score=43.76  Aligned_cols=23  Identities=26%  Similarity=0.219  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .-|+|+|.+|+|||||...+...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999988764

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=87.56  E-value=0.29  Score=46.67  Aligned_cols=24  Identities=25%  Similarity=0.392  Sum_probs=21.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|+|+|.+|+|||||...+...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            458999999999999999998764

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=87.56  E-value=0.25  Score=43.80  Aligned_cols=24  Identities=25%  Similarity=0.156  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+.+.
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999888754

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=87.56  E-value=0.27  Score=43.50  Aligned_cols=24  Identities=21%  Similarity=0.213  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457899999999999999988754

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=87.54  E-value=0.21  Score=43.12  Aligned_cols=24  Identities=29%  Similarity=0.149  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            357899999999999999998764

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=87.54  E-value=0.5  Score=48.46  Aligned_cols=38  Identities=5%  Similarity=-0.227  Sum_probs=28.6

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhcc-ccceEeee
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNCFLG  242 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~~~  242 (471)
                      ..-.++.|.|.+|+||||||..++...... =..++|+.
T Consensus       240 ~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s  278 (503)
T 1q57_A          240 RGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAM  278 (503)
T ss_dssp             CTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEE
T ss_pred             CCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEe
Confidence            345689999999999999999998876543 22455554

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=87.53  E-value=0.29  Score=44.15  Aligned_cols=26  Identities=27%  Similarity=0.452  Sum_probs=23.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..|.+.|..|+||||+++.+.+.+..
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~   29 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQ   29 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            47899999999999999999987654

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=87.48  E-value=0.28  Score=44.34  Aligned_cols=25  Identities=12%  Similarity=0.203  Sum_probs=21.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....|+|+|.+|+|||||...+...
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3568899999999999999988654

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=87.47  E-value=0.18  Score=43.40  Aligned_cols=24  Identities=29%  Similarity=0.278  Sum_probs=20.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHH
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ....|+|+|.+|+|||||...+..
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            456789999999999999988763

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=87.47  E-value=0.23  Score=43.48  Aligned_cols=23  Identities=22%  Similarity=0.161  Sum_probs=19.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ..-|+|+|.+|+|||||...+..
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            45689999999999999998854

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=87.45  E-value=0.48  Score=43.50  Aligned_cols=27  Identities=37%  Similarity=0.471  Sum_probs=21.9

Q ss_pred             eEEEEec-cCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWG-MGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G-~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++|+|+| -||+||||+|..++..+...
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~~la~~   30 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIATGLAQK   30 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhC
Confidence            5778866 59999999999998876643

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=87.44  E-value=0.26  Score=43.52  Aligned_cols=24  Identities=17%  Similarity=0.083  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhC
Confidence            557899999999999999988654

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=87.37  E-value=0.22  Score=50.60  Aligned_cols=26  Identities=31%  Similarity=0.240  Sum_probs=22.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      -.+++|+|..|+|||||++.++.-..
T Consensus       138 Ge~v~IvGpnGsGKSTLlr~L~Gl~~  163 (460)
T 2npi_A          138 GPRVVIVGGSQTGKTSLSRTLCSYAL  163 (460)
T ss_dssp             CCCEEEEESTTSSHHHHHHHHHHTTH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCccc
Confidence            45899999999999999999987643

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=87.36  E-value=0.27  Score=43.38  Aligned_cols=24  Identities=29%  Similarity=0.178  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..-|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999988764

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=87.35  E-value=0.26  Score=42.64  Aligned_cols=25  Identities=20%  Similarity=0.153  Sum_probs=21.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...-|+++|.+|+|||||...+.+.
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            4567899999999999999988754

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=87.29  E-value=0.31  Score=43.83  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .-.|||.|.-|+||||+++.+..
T Consensus         9 ~~~iglTGgigsGKStv~~~l~~   31 (210)
T 4i1u_A            9 MYAIGLTGGIGSGKTTVADLFAA   31 (210)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998765

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=87.23  E-value=0.29  Score=43.79  Aligned_cols=24  Identities=17%  Similarity=0.015  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|.|+|.+|+|||||...+...
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            346889999999999999998764

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=87.20  E-value=0.26  Score=44.04  Aligned_cols=24  Identities=33%  Similarity=0.271  Sum_probs=20.1

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            456889999999999999988753

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=87.19  E-value=0.3  Score=45.60  Aligned_cols=24  Identities=33%  Similarity=0.480  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|+++|.+|+|||||...+...
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            357899999999999999998764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=87.03  E-value=0.27  Score=42.95  Aligned_cols=23  Identities=35%  Similarity=0.309  Sum_probs=19.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ..-|+|+|.+|+|||||...+..
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~   48 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTD   48 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhc
Confidence            34688999999999999998764

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=86.91  E-value=0.3  Score=47.74  Aligned_cols=23  Identities=39%  Similarity=0.592  Sum_probs=20.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .+++|+|.+|+|||||...+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CEEEEECCCCccHHHHHHHHhcc
Confidence            48999999999999999988754

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=86.85  E-value=0.4  Score=42.52  Aligned_cols=23  Identities=30%  Similarity=0.244  Sum_probs=17.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ..|-|++-.|.||||+|-...-+
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalR   51 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAAR   51 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            45666666779999999877665

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=86.85  E-value=0.36  Score=43.34  Aligned_cols=27  Identities=19%  Similarity=0.142  Sum_probs=22.2

Q ss_pred             eEEEEecc-CcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGM-GGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~-gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++|.|.|. ||+||||+|..++..+...
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa~~la~~   29 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALLQAAKAA   29 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            57888885 8999999999998876544

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=86.85  E-value=0.65  Score=45.99  Aligned_cols=28  Identities=18%  Similarity=0.141  Sum_probs=23.3

Q ss_pred             CCceEEEEe-ccCcchhhhHHHHHHHhhh
Q 041795          205 PDFRIVGIW-GMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       205 ~~~~vv~I~-G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...++|+|+ |-||+||||+|..++..+.
T Consensus       106 ~~~~vIav~s~KGGvGKTT~a~nLA~~La  134 (398)
T 3ez2_A          106 SEAYVIFISNLKGGVSKTVSTVSLAHAMR  134 (398)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCccHHHHHHHHHHHHH
Confidence            447788888 5699999999999988765

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=86.84  E-value=0.39  Score=49.63  Aligned_cols=22  Identities=32%  Similarity=0.232  Sum_probs=19.7

Q ss_pred             CceEEEEeccCcchhhhHHHHH
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAI  227 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v  227 (471)
                      .-.+++|+|..|.|||||++.+
T Consensus        38 ~Ge~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           38 IGRSTLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHH
Confidence            3469999999999999999995

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=86.75  E-value=0.85  Score=44.37  Aligned_cols=30  Identities=27%  Similarity=0.344  Sum_probs=23.4

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +..+++.+.|-||+||||+|..++..+...
T Consensus        24 ~~~~i~v~sgKGGvGKTTvA~~LA~~lA~~   53 (349)
T 3ug7_A           24 DGTKYIMFGGKGGVGKTTMSAATGVYLAEK   53 (349)
T ss_dssp             CSCEEEEEECSSSTTHHHHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHHC
Confidence            345566777899999999999988776544

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=86.68  E-value=0.56  Score=41.92  Aligned_cols=26  Identities=31%  Similarity=0.307  Sum_probs=21.0

Q ss_pred             EEEEe-ccCcchhhhHHHHHHHhhhcc
Q 041795          209 IVGIW-GMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       209 vv~I~-G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +|+|+ +-||+||||+|..++..+...
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~la~~   28 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYLALQ   28 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHHHhc
Confidence            56665 579999999999998887654

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=86.64  E-value=0.36  Score=43.67  Aligned_cols=27  Identities=26%  Similarity=0.373  Sum_probs=23.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...|.+-|+.|+||||+++.+.+.+..
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            358999999999999999999987654

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=86.59  E-value=0.32  Score=43.45  Aligned_cols=25  Identities=20%  Similarity=0.198  Sum_probs=21.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ....|+|+|.+|+|||||...+...
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            4568899999999999999887653

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=86.59  E-value=0.29  Score=48.95  Aligned_cols=22  Identities=36%  Similarity=0.472  Sum_probs=19.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -++|+|..|+|||||.+.++..
T Consensus        44 ~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           44 NILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            3999999999999999998764

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=86.55  E-value=0.58  Score=47.38  Aligned_cols=26  Identities=38%  Similarity=0.440  Sum_probs=22.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +.+.|.|.+|+||||++..+...+..
T Consensus        46 ~~~li~G~aGTGKT~ll~~~~~~l~~   71 (459)
T 3upu_A           46 HHVTINGPAGTGATTLTKFIIEALIS   71 (459)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            38999999999999999998877543

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=86.52  E-value=0.4  Score=41.52  Aligned_cols=24  Identities=21%  Similarity=0.188  Sum_probs=20.2

Q ss_pred             CceEEEEeccCcchhhhHHHHHHH
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ..--|+++|.+|+|||||...+..
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~   44 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHL   44 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHc
Confidence            455789999999999999988753

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=86.48  E-value=0.43  Score=47.02  Aligned_cols=28  Identities=25%  Similarity=-0.025  Sum_probs=24.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      -..++|+|.+|+|||||++.+.+.+...
T Consensus       174 GQr~~IvG~sG~GKTtLl~~Iar~i~~~  201 (422)
T 3ice_A          174 GQRGLIVAPPKAGKTMLLQNIAQSIAYN  201 (422)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHHHHHHHH
T ss_pred             CcEEEEecCCCCChhHHHHHHHHHHhhc
Confidence            4589999999999999999998876543

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=86.32  E-value=0.41  Score=40.41  Aligned_cols=25  Identities=36%  Similarity=0.389  Sum_probs=21.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..+.+|+|..|.|||||..+++--+
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3588999999999999999887543

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=86.26  E-value=0.4  Score=44.09  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=20.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .+|+|.|+.|+||||+|+.+...
T Consensus         2 ~~i~ltG~~~sGK~tv~~~l~~~   24 (241)
T 1dek_A            2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            47999999999999999988664

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=86.22  E-value=0.4  Score=48.50  Aligned_cols=28  Identities=32%  Similarity=0.554  Sum_probs=23.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      ..++|+|.+|+|||||+..+......++
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~~  179 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQEH  179 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhcc
Confidence            3689999999999999999988765543

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=86.14  E-value=0.68  Score=45.05  Aligned_cols=28  Identities=25%  Similarity=0.380  Sum_probs=24.3

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+++.+.|-||+||||+|..++..+.
T Consensus        16 ~~~~i~~~~gkGGvGKTt~a~~lA~~la   43 (348)
T 3io3_A           16 DSLKWIFVGGKGGVGKTTTSSSVAVQLA   43 (348)
T ss_dssp             TTCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHHH
Confidence            3468899999999999999999887766

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=86.13  E-value=0.34  Score=43.12  Aligned_cols=24  Identities=25%  Similarity=0.159  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            457899999999999999988753

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=86.11  E-value=0.61  Score=43.20  Aligned_cols=28  Identities=18%  Similarity=0.304  Sum_probs=22.0

Q ss_pred             ceEEEEec-cCcchhhhHHHHHHHhhhcc
Q 041795          207 FRIVGIWG-MGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       207 ~~vv~I~G-~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .++|+|+| -||+||||+|..++..+...
T Consensus        18 ~~vI~v~s~kGGvGKTT~a~nLA~~la~~   46 (262)
T 2ph1_A           18 KSRIAVMSGKGGVGKSTVTALLAVHYARQ   46 (262)
T ss_dssp             SCEEEEECSSSCTTHHHHHHHHHHHHHHT
T ss_pred             CeEEEEEcCCCCCCHHHHHHHHHHHHHHC
Confidence            45777765 69999999999998876543

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=86.11  E-value=0.33  Score=50.29  Aligned_cols=24  Identities=33%  Similarity=0.526  Sum_probs=21.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -.+++|+|..|.|||||++.++..
T Consensus       312 Ge~~~i~G~NGsGKSTLlk~l~Gl  335 (538)
T 1yqt_A          312 GEVIGIVGPNGIGKTTFVKMLAGV  335 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999998764

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=86.03  E-value=1.1  Score=42.28  Aligned_cols=51  Identities=12%  Similarity=0.173  Sum_probs=33.0

Q ss_pred             hhHHHHHHhhh--cCCCCceEEEEec-cCcchhhhHHHHHHHhhhccccceEee
Q 041795          191 SRIEKIKSLLC--IGRPDFRIVGIWG-MGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       191 ~~~~~l~~~L~--~~~~~~~vv~I~G-~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      +.+..|...|.  ......++|.|+| -||+||||+|..++..+...=..++.+
T Consensus        74 Ea~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLI  127 (286)
T 3la6_A           74 EAIRSLRTSLHFAMMQAQNNVLMMTGVSPSIGMTFVCANLAAVISQTNKRVLLI  127 (286)
T ss_dssp             HHHHHHHHHHHHHSTTTTCCEEEEEESSSSSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             HHHHHHHHHHhhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEE
Confidence            34445544443  2234567888888 489999999999988776542234444

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=85.96  E-value=0.21  Score=48.33  Aligned_cols=25  Identities=36%  Similarity=0.460  Sum_probs=21.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|+|..|.|||||.+.+...+.
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~  196 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIP  196 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc
Confidence            4799999999999999999887653

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=85.95  E-value=0.35  Score=48.74  Aligned_cols=28  Identities=21%  Similarity=0.357  Sum_probs=23.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .-..++|+|..|+|||||.+.++.....
T Consensus       156 ~Gq~~~IvG~sGsGKSTLl~~Iag~~~~  183 (438)
T 2dpy_A          156 RGQRMGLFAGSGVGKSVLLGMMARYTRA  183 (438)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcccCC
Confidence            3468999999999999999999887543

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=85.94  E-value=0.24  Score=47.39  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.7

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .+++|+|.+|+|||||.+.+..
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g  195 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISP  195 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHhcc
Confidence            4899999999999999998754

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=85.94  E-value=0.7  Score=44.69  Aligned_cols=29  Identities=31%  Similarity=0.375  Sum_probs=24.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..+++.+.|-||+||||+|..++..+...
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~~la~~   43 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAIQLAKV   43 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHTTS
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHhC
Confidence            45788889999999999999998876554

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=85.90  E-value=0.39  Score=49.62  Aligned_cols=39  Identities=23%  Similarity=0.181  Sum_probs=28.1

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .+...|..+-..-.+++|.|.+|+|||||++.++.....
T Consensus       269 ~ld~vL~g~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~  307 (525)
T 1tf7_A          269 RLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACA  307 (525)
T ss_dssp             HHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHT
T ss_pred             HHHHHhCCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            344444322233569999999999999999999876543

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=85.90  E-value=0.49  Score=45.03  Aligned_cols=23  Identities=35%  Similarity=0.492  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .+++|+|.+|+|||||.+.+...
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             CeEEEECCCCCcHHHHHHHhccc
Confidence            48899999999999999998653

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=85.89  E-value=0.27  Score=42.79  Aligned_cols=24  Identities=25%  Similarity=0.194  Sum_probs=20.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .--|+|+|.+|+|||||...+...
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPS   44 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999887654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	471
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	3e-21
d1fyva_	161	c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (H	5e-20
d1fyxa_	149	c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (H	4e-18
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	2e-05
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	8e-05
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	0.003

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 91.0 bits (225), Expect = 3e-21
 Identities = 30/260 (11%), Positives = 65/260 (25%), Gaps = 68/260 (26%)

Query: 186 LVGLNSRIEKIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFN----LIYKEFEGNCF 240
                  ++++   L  +   D   + + G  G+GK+ +A    +    LI   ++   +
Sbjct: 22  CYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVW 81

Query: 241 LGNVREESEKG-----------------------------------------------VL 253
           L +     +                                                 V 
Sbjct: 82  LKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVF 141

Query: 254 DDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYEVNGLRYHEALELF 313
           DDV +   +++            R ++TTRD  I +          EV  L   E  +  
Sbjct: 142 DDVVQEETIRWA------QELRLRCLVTTRDVEISNAAS-QTCEFIEVTSLEIDECYDFL 194

Query: 314 CNCAFKENHCPSGFLASSKRV---------LKVLGSFFHRKSKLDWEKALENISRISDPD 364
                            +K +         L +       K+     +    +       
Sbjct: 195 EAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVG 254

Query: 365 IYDVLKISYNDLSLEEKSIF 384
           +  +   SY  L++  +   
Sbjct: 255 VECITPYSYKSLAMALQRCV 274

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]} Length = 161

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 84.8 bits (209), Expect = 5e-20
 Identities = 20/119 (16%), Positives = 46/119 (38%), Gaps = 2/119 (1%)

Query: 11  KYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISV 70
           ++   +S+ G D+     + L   L ++ ++  ++      G  I   + T I+ S  S+
Sbjct: 12  QFHAFISYSGHDSF-WVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKSI 70

Query: 71  IVLSKHYASSKWCLHELVKILECK-STNGQIVVPVFYHVDPSDVRKQTGSFRDAFVKHK 128
            VLS ++  S+WC +EL              ++ +     P      +     + +  +
Sbjct: 71  FVLSPNFVQSEWCHYELYFAHHNLFHEGSNSLILILLEPIPQYSIPSSYHKLKSLMARR 129

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]} Length = 149

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 79.0 bits (194), Expect = 4e-18
 Identities = 23/125 (18%), Positives = 43/125 (34%), Gaps = 4/125 (3%)

Query: 7   SSSSKYDVSLSFRGGDTRDNFTSHLYAAL--CRKKIKTFINGDEIRRGDDISPALFTAIQ 64
           S +  YD  +S+   D      + +   L       K  ++  +   G  I   +  +I+
Sbjct: 1   SRNICYDAFVSYSERD-AYWVENLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIE 59

Query: 65  GSKISVIVLSKHYASSKWCLHELVKIL-ECKSTNGQIVVPVFYHVDPSDVRKQTGSFRDA 123
            S  +V VLS+++  S+WC +EL          N    + +           Q       
Sbjct: 60  KSHKTVFVLSENFVKSEWCKYELDFSHFRLFDENNDAAILILLEPIEKKAIPQRFCKLRK 119

Query: 124 FVKHK 128
            +  K
Sbjct: 120 IMNTK 124

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 43.2 bits (100), Expect = 2e-05
 Identities = 28/201 (13%), Positives = 52/201 (25%), Gaps = 14/201 (6%)

Query: 181 TNFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCF 240
            N D +   +  +  +K  L        +   +G  GTGKT+   A+   +Y        
Sbjct: 9   KNLDEVTAQDHAVTVLKKTLKSANLPHML--FYGPPGTGKTSTILALTKELYGPDLMKSR 66

Query: 241 LGNVREESEKGVLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVHDTNVYE 300
           +  +    E+G+     K+     LT                    ILD+      +   
Sbjct: 67  ILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQS 126

Query: 301 VNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKVLGSFFHRKSKLDW---------- 350
                      +   C             +S+       +     +              
Sbjct: 127 ALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFISEQENVK 186

Query: 351 --EKALENISRISDPDIYDVL 369
             +  LE I  IS  D+   +
Sbjct: 187 CDDGVLERILDISAGDLRRGI 207

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 42.1 bits (97), Expect = 8e-05
 Identities = 34/214 (15%), Positives = 59/214 (27%), Gaps = 25/214 (11%)

Query: 181 TNFDGLVGLNSRIEKIKSLL---------------CIGRPDFRIVGIWGMGGTGKTTLAG 225
           TN   + G    + K+K+ L                 G   FR   ++G  G GKTT A 
Sbjct: 11  TNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAH 70

Query: 226 AIFNLIYKEFEGNC----FLGNVREESEKGVLDDVNKIGQLQYLTCGLDRFGPGSRIIIT 281
            +   +  +             +     K  LD+++ +G  ++     +  G    II+ 
Sbjct: 71  LVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMD 130

Query: 282 TRDKWILDKFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRVLKVLGSF 341
             D       G                 L        K        L    R        
Sbjct: 131 EVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIK 190

Query: 342 FHRKSKLDWEK------ALENISRISDPDIYDVL 369
               +    EK       ++ + + +  DI  V+
Sbjct: 191 SRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVI 224

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

 Score = 37.3 bits (86), Expect = 0.003
 Identities = 24/134 (17%), Positives = 41/134 (30%), Gaps = 6/134 (4%)

Query: 126 KHKKQMAEKVQKWRDALTEASNLSGWNSMTIRSEAELVDVIVKDILKK-LENITVSTNFD 184
              +Q  + V   +   +         +       + +D++        +E       + 
Sbjct: 70  TICQQAVDTVLAKKRVDSLQLTREQMLTNRFNDLLDRMDIMFGSTGSADIEEWMAGVAWL 129

Query: 185 --GLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI-YKEFEGNCFL 241
              L  ++S +      +    P  R     G   +GKTTLA A+  L   K    N   
Sbjct: 130 HCLLPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNL-- 187

Query: 242 GNVREESEKGVLDD 255
              R   E GV  D
Sbjct: 188 PLDRLNFELGVAID 201

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	471
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d1fyva_	161	Toll-like receptor 1, TLR1 {Human (Homo sapiens) [	99.81
d1fyxa_	149	Toll-like receptor 2, TLR2 {Human (Homo sapiens) [	99.78
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.54
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.35
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.32
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.29
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.27
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.2
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.18
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.15
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.03
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.03
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.02
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.87
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.85
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.8
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.8
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	97.68
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.63
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.62
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.61
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.56
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.46
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.33
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.03
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.01
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.0
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.88
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.85
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.8
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	96.79
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.78
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.77
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.71
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.68
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.63
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.59
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.56
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.55
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.53
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.52
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.45
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.41
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.4
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.39
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.35
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.33
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.2
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.18
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.04
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.99
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.94
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.78
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.78
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.72
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.72
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.68
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.63
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.57
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	95.47
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.37
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	95.34
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.31
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.26
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.24
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.23
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.15
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.07
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.02
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.0
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	94.99
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.94
d2qy9a2	211	GTPase domain of the signal recognition particle r	94.9
d1ls1a2	207	GTPase domain of the signal sequence recognition p	94.85
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.81
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.81
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	94.8
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	94.73
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	94.7
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.63
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	94.62
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.61
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.6
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.57
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.47
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.42
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.37
d1okkd2	207	GTPase domain of the signal recognition particle r	94.25
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.16
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.93
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	93.88
d1j8yf2	211	GTPase domain of the signal sequence recognition p	93.84
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	93.71
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	93.67
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	93.45
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.28
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	93.12
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.1
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	93.1
d1g2912	240	Maltose transport protein MalK, N-terminal domain	92.88
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	92.87
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	92.86
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	92.78
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	92.78
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.66
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	92.64
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.61
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	92.61
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.59
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	92.56
d2awna2	232	Maltose transport protein MalK, N-terminal domain	92.56
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	92.52
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	92.45
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	92.43
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	92.41
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	92.41
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	92.35
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.34
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	92.32
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	92.23
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	92.22
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	92.21
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.14
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	92.14
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	92.08
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	92.03
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	92.0
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	91.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.95
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	91.9
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	91.9
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	91.77
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	91.72
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	91.57
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	91.48
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	91.48
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.42
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	91.37
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	91.37
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	91.3
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	91.28
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	91.25
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	91.24
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	91.18
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	91.09
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	91.09
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	91.06
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	90.91
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	90.85
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	90.85
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	90.83
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	90.79
d1nrjb_	209	Signal recognition particle receptor beta-subunit	90.77
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	90.76
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	90.76
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	90.75
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	90.74
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	90.68
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	90.65
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	90.6
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	90.58
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	90.55
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	90.52
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	90.48
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	90.38
d2fh5b1	207	Signal recognition particle receptor beta-subunit	90.35
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	90.26
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	90.23
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	90.21
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	90.17
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	90.15
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	90.14
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	90.03
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	90.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	89.97
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	89.93
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	89.93
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	89.92
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	89.81
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	89.81
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	89.76
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.62
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	89.6
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	89.52
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	89.45
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	89.39
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	89.39
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	89.38
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	89.38
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	89.34
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	89.26
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	89.19
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.03
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	89.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	88.96
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	88.86
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	88.75
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	88.55
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	88.43
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	88.31
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	88.26
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	88.24
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	88.2
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	88.14
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	87.96
d1tuea_	205	Replication protein E1 helicase domain {Human papi	87.96
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	87.91
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	87.89
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	87.82
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	87.76
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	87.7
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	87.59
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	87.52
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	87.31
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	87.26
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	87.0
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	86.94
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	86.93
d1wu7a1	97	Histidyl-tRNA synthetase (HisRS), C-terminal domai	86.0
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	85.69
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	85.35
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	85.3
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	85.2
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	84.77
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	83.69
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	83.17
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	81.88
d1xpua3	289	Transcription termination factor Rho, ATPase domai	81.54
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	81.34
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	80.91

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=2.9e-33  Score=268.15  Aligned_cols=198  Identities=14%  Similarity=0.111  Sum_probs=163.2

Q ss_pred             CCCCccccchhHHHHHHhhhc-CCCCceEEEEeccCcchhhhHHHHHHHh----hhccccceEeeehhhhhhhc------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI-GRPDFRIVGIWGMGGTGKTTLAGAIFNL----IYKEFEGNCFLGNVREESEK------  250 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~----~~~~f~~~~~~~~~~~~~~~------  250 (471)
                      ..+.++||+.++++|.++|.. .+++.++|+|+||||+||||||+++|++    ...+|++++|+.........      
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~   97 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFT   97 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHH
Confidence            445688999999999999874 4556889999999999999999999987    56679999998743321100      


Q ss_pred             ------------------------------------C-----cccccCCHhhHHHHhcCCCCCCCCcEEEEEeCChhhhh
Q 041795          251 ------------------------------------G-----VLDDVNKIGQLQYLTCGLDRFGPGSRIIITTRDKWILD  289 (471)
Q Consensus       251 ------------------------------------~-----VLDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~  289 (471)
                                                          +     ||||||+..+|+.+.      ..||+||||||++.++.
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~~v~~  171 (277)
T d2a5yb3          98 DILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISN  171 (277)
T ss_dssp             HHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBGGGGG
T ss_pred             HHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhc------ccCceEEEEeehHHHHH
Confidence                                                0     899999999998764      35899999999999998


Q ss_pred             hhCcCCCceEEeCCCCHHHHHHHHHhccccCCCCCchHHHHHHHH----------HHHHhhhhcCCCHHHHHHHHHHhcC
Q 041795          290 KFGVHDTNVYEVNGLRYHEALELFCNCAFKENHCPSGFLASSKRV----------LKVLGSFFHRKSKLDWEKALENISR  359 (471)
Q Consensus       290 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~l~~~i----------l~~lg~~L~~~~~~~w~~~l~~l~~  359 (471)
                      .+.. +..+|+|++|+.+||++||.+++|....++ ...+++++|          ++++|+.|+.++.+.|.+..+.+..
T Consensus       172 ~~~~-~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~-~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~  249 (277)
T d2a5yb3         172 AASQ-TCEFIEVTSLEIDECYDFLEAYGMPMPVGE-KEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLES  249 (277)
T ss_dssp             GCCS-CEEEEECCCCCHHHHHHHHHHTSCCCC--C-HHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHH
T ss_pred             hcCC-CCceEECCCCCHHHHHHHHHHHhCCccCch-hhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhc
Confidence            7654 136899999999999999999998665433 445565555          8899999999999999999999877


Q ss_pred             CCCCchHhHHHhhccCCChhHHHHHccc
Q 041795          360 ISDPDIYDVLKISYNDLSLEEKSIFLDI  387 (471)
Q Consensus       360 ~~~~~i~~~l~~Sy~~L~~~~k~~fl~l  387 (471)
                      ....++..++.+||+.||++.|.||.++
T Consensus       250 ~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         250 RGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            6678899999999999999999999764

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=4e-21  Score=167.66  Aligned_cols=103  Identities=19%  Similarity=0.364  Sum_probs=92.1

Q ss_pred             CCCCCceeEEEcccccccCcchH-HHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccchhhH
Q 041795            6 FSSSSKYDVSLSFRGGDTRDNFT-SHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWCL   84 (471)
Q Consensus         6 ~~~~~~~dvFiS~~~~D~~~~f~-~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~   84 (471)
                      ...+++|||||||+++|  ..|+ +.|...|+++|+++|+|++++.+|+++.++|.++|++|+++|+|+|++|+.|.||.
T Consensus         7 ~~~~~~yDvFisys~~D--~~~v~~~L~~~Le~~g~~v~~d~~d~~~G~~~~~~i~~~i~~s~~~i~vlS~~~~~s~w~~   84 (161)
T d1fyva_           7 LQRNLQFHAFISYSGHD--SFWVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKSIFVLSPNFVQSEWCH   84 (161)
T ss_dssp             SSSCCCEEEEEECCGGG--HHHHHHTHHHHHHTTTCCEECTTTTCCTTSCHHHHHHHHHHHEEEEEEEESHHHHHHTSHH
T ss_pred             cCCCCeeEEEEecChhH--HHHHHHHHHHHHHhCCCcceEeccccccccccHHHHHHHHHhCCEEEEEecCccccChHHH
Confidence            44678999999999999  6677 57999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh-hcCCCeEEeEEeecCC
Q 041795           85 HELVKILECK-STNGQIVVPVFYHVDP  110 (471)
Q Consensus        85 ~El~~~~~~~-~~~~~~viPif~~v~p  110 (471)
                      .|+..++.+. ..+..++|||+++..|
T Consensus        85 ~E~~~a~~~~~~~~~~~lIpV~l~~~~  111 (161)
T d1fyva_          85 YELYFAHHNLFHEGSNSLILILLEPIP  111 (161)
T ss_dssp             HHHHTTSCCCSCSSCSSEEEEESSCCC
T ss_pred             HHHHHHHHHHHHcCCCceeEEEEecCc
Confidence            9999998765 3455789999976443

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1.7e-20  Score=161.58  Aligned_cols=103  Identities=20%  Similarity=0.274  Sum_probs=90.1

Q ss_pred             CCCCceeEEEcccccccCcchHH-HHHHHHHh--CCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEccCcccchhh
Q 041795            7 SSSSKYDVSLSFRGGDTRDNFTS-HLYAALCR--KKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLSKHYASSKWC   83 (471)
Q Consensus         7 ~~~~~~dvFiS~~~~D~~~~f~~-~l~~~L~~--~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc   83 (471)
                      +.+..|||||||+++|  ..|+. .|...|++  .|+++|+|++++.+|+++.++|.++|++|+++|+|+||+|+.|.||
T Consensus         1 ~~~~~YDvFiSys~~D--~~~V~~~l~~~LE~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~S~~~i~vlS~~~l~s~wc   78 (149)
T d1fyxa_           1 SRNICYDAFVSYSERD--AYWVENLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEWC   78 (149)
T ss_dssp             CCSCCEEEEEECCGGG--HHHHHTHHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHTH
T ss_pred             CCCCEEEEEEECchhh--HHHHHHHHHHHHHhcCCCceEEEecccccccchHHHHHHHHHHhCCEEEEEEcCccccccch
Confidence            3578999999999999  66764 68999986  4999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh-hcCCCeEEeEEeecCCC
Q 041795           84 LHELVKILECK-STNGQIVVPVFYHVDPS  111 (471)
Q Consensus        84 ~~El~~~~~~~-~~~~~~viPif~~v~ps  111 (471)
                      ..|+..++... ..++.++|||+++..|.
T Consensus        79 ~~E~~~a~~~~~~~~~~~iIpV~l~~~~~  107 (149)
T d1fyxa_          79 KYELDFSHFRLFDENNDAAILILLEPIEK  107 (149)
T ss_dssp             HHHSCCSCCTTCGGGTTCCEEEESSCCCT
T ss_pred             HHHHHHHHHHHHHcCCceEEEEEeccCch
Confidence            99998877655 45667899999875443

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.54  E-value=5.5e-08  Score=89.88  Aligned_cols=47  Identities=26%  Similarity=0.282  Sum_probs=39.3

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..+.|+||++++++|.+..      .+.+.|+|++|+|||+|++++.+.....
T Consensus        10 ~~~~f~GR~~el~~l~~~~------~~~i~i~G~~G~GKTsLl~~~~~~~~~~   56 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGLR------APITLVLGLRRTGKSSIIKIGINELNLP   56 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHTC------SSEEEEEESTTSSHHHHHHHHHHHHTCC
T ss_pred             ChhhCCChHHHHHHHHhcc------CCEEEEEcCCCCcHHHHHHHHHHHCCCC
Confidence            5678999999999988742      3688999999999999999998875443

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.35  E-value=4.5e-07  Score=81.60  Aligned_cols=134  Identities=17%  Similarity=0.248  Sum_probs=85.8

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc-ccceEeeehh---------hh----h
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNCFLGNV---------RE----E  247 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~~~~~---------~~----~  247 (471)
                      ..++++|.++.++.|..++..+.  ...+.++|++|+||||+|+.+++.+... +...+...+.         ..    .
T Consensus        12 ~~~divg~~~~~~~L~~~i~~~~--~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~   89 (227)
T d1sxjc2          12 TLDEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDF   89 (227)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhhc
Confidence            44679999999999999997443  3447799999999999999999875322 1111111000         00    0


Q ss_pred             hhc----------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhh-hCcCCCceEEeCCCCHHHHHHHH
Q 041795          248 SEK----------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDK-FGVHDTNVYEVNGLRYHEALELF  313 (471)
Q Consensus       248 ~~~----------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~-~~~~~~~~~~l~~L~~~ea~~Lf  313 (471)
                      ...          -|+|+++.  ......|+..+......++++++|.+.. +... ...  ...+++.+++.++-...+
T Consensus        90 ~~~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr--~~~i~~~~~~~~~i~~~l  167 (227)
T d1sxjc2          90 ASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQ--CTRFRFQPLPQEAIERRI  167 (227)
T ss_dssp             HHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT--SEEEECCCCCHHHHHHHH
T ss_pred             cccccccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHH--Hhhhcccccccccccccc
Confidence            000          08899864  3344455544444556788888887643 2221 122  567899999999999888


Q ss_pred             Hhcccc
Q 041795          314 CNCAFK  319 (471)
Q Consensus       314 ~~~a~~  319 (471)
                      .+.+..
T Consensus       168 ~~I~~~  173 (227)
T d1sxjc2         168 ANVLVH  173 (227)
T ss_dssp             HHHHHT
T ss_pred             cccccc
Confidence            876543

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.32  E-value=3e-07  Score=83.18  Aligned_cols=135  Identities=16%  Similarity=0.204  Sum_probs=82.3

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc---cceEeee------------hhhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF---EGNCFLG------------NVRE  246 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f---~~~~~~~------------~~~~  246 (471)
                      ..++++|.+..++.|..++...  ....+.++|++|+||||+|+.+++.+....   ...+.+.            .+..
T Consensus        10 ~~~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (237)
T d1sxjd2          10 NLDEVTAQDHAVTVLKKTLKSA--NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKN   87 (237)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCT--TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHH
Confidence            4567999999999999998743  344578999999999999999998753211   1111111            0000


Q ss_pred             hhhc--------------------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCceEEeCC
Q 041795          247 ESEK--------------------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTNVYEVNG  303 (471)
Q Consensus       247 ~~~~--------------------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~~~~l~~  303 (471)
                      ....                    -|+|+++.  ......+...+......+++|+||.+. .+...... ....+++++
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~s-r~~~i~f~~  166 (237)
T d1sxjd2          88 FARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLAS-QCSKFRFKA  166 (237)
T ss_dssp             HHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHH-HSEEEECCC
T ss_pred             HhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccc-hhhhhcccc
Confidence            0000                    07898863  233333333333334566677776543 22221111 135789999


Q ss_pred             CCHHHHHHHHHhcccc
Q 041795          304 LRYHEALELFCNCAFK  319 (471)
Q Consensus       304 L~~~ea~~Lf~~~a~~  319 (471)
                      ++.++...++.+.+..
T Consensus       167 ~~~~~~~~~L~~i~~~  182 (237)
T d1sxjd2         167 LDASNAIDRLRFISEQ  182 (237)
T ss_dssp             CCHHHHHHHHHHHHHT
T ss_pred             ccccccchhhhhhhhh
Confidence            9999999988876644

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.29  E-value=4.2e-07  Score=82.96  Aligned_cols=133  Identities=17%  Similarity=0.227  Sum_probs=79.2

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc------ccceEeee-------------
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE------FEGNCFLG-------------  242 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~~~-------------  242 (471)
                      ..++++|.++..+.|..++.... ...-+.|+|++|+||||+|+.+++.+...      .+...+..             
T Consensus         9 ~~~diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (252)
T d1sxje2           9 SLNALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSS   87 (252)
T ss_dssp             SGGGCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEEC
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-CCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccC
Confidence            44679999999999988876433 34457799999999999999998864211      11111100             


Q ss_pred             ---------h--------hhhhhh----c------------------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEE
Q 041795          243 ---------N--------VREESE----K------------------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIIT  281 (471)
Q Consensus       243 ---------~--------~~~~~~----~------------------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiT  281 (471)
                               .        ......    .                  .+||+++.  ......+...+......+++|+|
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~Il~  167 (252)
T d1sxje2          88 PYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMV  167 (252)
T ss_dssp             SSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEE
T ss_pred             CccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccccccccceee
Confidence                     0        000000    0                  06788864  33344444444444566777887


Q ss_pred             eCChh-hhhh-hCcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          282 TRDKW-ILDK-FGVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       282 TR~~~-v~~~-~~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      |.+.. +... ...  ...+++++++.++..+.+...+
T Consensus       168 tn~~~~i~~~l~sR--~~~i~~~~~~~~~~~~~l~~i~  203 (252)
T d1sxje2         168 CDSMSPIIAPIKSQ--CLLIRCPAPSDSEISTILSDVV  203 (252)
T ss_dssp             ESCSCSSCHHHHTT--SEEEECCCCCHHHHHHHHHHHH
T ss_pred             eccccchhhhhhcc--hheeeecccchhhHHHHHHHHH
Confidence            76543 2111 111  3468899999999998886654

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.27  E-value=2.6e-06  Score=78.25  Aligned_cols=130  Identities=18%  Similarity=0.198  Sum_probs=83.1

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc------ccceEeeehhhhhhhc-------
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE------FEGNCFLGNVREESEK-------  250 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~~~~~~~~~~~-------  250 (471)
                      +.++||++++++|.+.|....  -.-+.++|.+|+|||+|+..++.++...      ....+|..+.......       
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~--k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~   95 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDF   95 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCH
T ss_pred             CcccChHHHHHHHHHHHhcCc--cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhH
Confidence            458999999999999997443  2356699999999999999998875432      2334553322211110       


Q ss_pred             --------------C----cccccCCH----------hhHHHHh-cCCCCCCCCcEEEEEeCChhhhhhhCcC-----CC
Q 041795          251 --------------G----VLDDVNKI----------GQLQYLT-CGLDRFGPGSRIIITTRDKWILDKFGVH-----DT  296 (471)
Q Consensus       251 --------------~----VLDdv~~~----------~~~~~l~-~~~~~~~~gs~IiiTTR~~~v~~~~~~~-----~~  296 (471)
                                    +    ++|++...          .....++ +.+.  ...-++|.||...........+     .-
T Consensus        96 e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgatT~eey~~~~e~d~al~rrF  173 (268)
T d1r6bx2          96 EKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFSNIFEKDRALARRF  173 (268)
T ss_dssp             HHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHHHCCCCCTTSSGGGE
T ss_pred             HHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeCCHHHHHHHHhhcHHHHhhh
Confidence                          1    57886422          2333444 3443  2246788888766655443321     13


Q ss_pred             ceEEeCCCCHHHHHHHHHhcc
Q 041795          297 NVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..+.|.+++.+++..++...+
T Consensus       174 ~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         174 QKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             EEEECCCCCHHHHHHHHHHHH
T ss_pred             cccccCCCCHHHHHHHHHHhh
Confidence            578999999999999887644

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.20  E-value=4e-06  Score=76.72  Aligned_cols=55  Identities=18%  Similarity=0.206  Sum_probs=44.9

Q ss_pred             CCCCccccchhHHHHHHhhhc----CCCCceEEEEeccCcchhhhHHHHHHHhhhcccc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI----GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE  236 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~  236 (471)
                      .+..++||+.++++|.++|..    .+...+.+.|+|++|+|||++|+.+++.+.....
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~   72 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTT   72 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccC
Confidence            345699999999999998863    2334678999999999999999999998765543

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.18  E-value=8.7e-07  Score=79.57  Aligned_cols=133  Identities=17%  Similarity=0.267  Sum_probs=83.0

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccc-cceEe-eehh------------hhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF-EGNCF-LGNV------------REE  247 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~~~~-~~~~------------~~~  247 (471)
                      ..++++|-+..++.|.+++..+.  ..-+.++|++|+||||+|+.+++.+...+ ...++ +...            ...
T Consensus        13 ~~~d~ig~~~~~~~L~~~~~~~~--~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~~   90 (224)
T d1sxjb2          13 VLSDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHF   90 (224)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHH
T ss_pred             CHHHhcCCHHHHHHHHHHHHcCC--CCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHHHH
Confidence            44679999999999999997443  44577999999999999999988755332 11111 1110            000


Q ss_pred             hhc-----------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhh-CcCCCceEEeCCCCHHHHHHH
Q 041795          248 SEK-----------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKF-GVHDTNVYEVNGLRYHEALEL  312 (471)
Q Consensus       248 ~~~-----------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~-~~~~~~~~~l~~L~~~ea~~L  312 (471)
                      ...           -|+|+++.  ......|...+......+++++||.+.. +.... ..  ...+++++++.++-...
T Consensus        91 ~~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr--~~~i~~~~~~~~~i~~~  168 (224)
T d1sxjb2          91 AQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQ--CAILRYSKLSDEDVLKR  168 (224)
T ss_dssp             HHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTT--SEEEECCCCCHHHHHHH
T ss_pred             HHhhccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHH--HHHhhhcccchhhhHHH
Confidence            000           07888863  2333334333333345667777766543 22222 22  46789999999999888


Q ss_pred             HHhccc
Q 041795          313 FCNCAF  318 (471)
Q Consensus       313 f~~~a~  318 (471)
                      +.+.+-
T Consensus       169 l~~i~~  174 (224)
T d1sxjb2         169 LLQIIK  174 (224)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            877664

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.15  E-value=1.5e-06  Score=78.24  Aligned_cols=135  Identities=21%  Similarity=0.290  Sum_probs=82.5

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc-ccceEe-eehhh--------hhhh--
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNCF-LGNVR--------EESE--  249 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~-~~~~~--------~~~~--  249 (471)
                      ...+++|-+..++.|..++..+  ..+.+.|+|++|+||||+|+.+++.+... ++.... +....        ....  
T Consensus        22 ~~~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~~~~~~~~~~   99 (231)
T d1iqpa2          22 RLDDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEF   99 (231)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHHHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccchhHHHHHHHHH
Confidence            4578999999999999999754  34568899999999999999999875432 221111 11110        0000  


Q ss_pred             --c----------CcccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCCh-hhhhhhCcCCCceEEeCCCCHHHHHHHHH
Q 041795          250 --K----------GVLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDK-WILDKFGVHDTNVYEVNGLRYHEALELFC  314 (471)
Q Consensus       250 --~----------~VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~-~v~~~~~~~~~~~~~l~~L~~~ea~~Lf~  314 (471)
                        .          -++|+++.  ......|...+........+|.||... .+...... ....+.+.+.+.++....+.
T Consensus       100 ~~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~s-R~~~i~~~~~~~~~~~~~l~  178 (231)
T d1iqpa2         100 ARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQS-RCAIFRFRPLRDEDIAKRLR  178 (231)
T ss_dssp             HHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHH-TEEEEECCCCCHHHHHHHHH
T ss_pred             HhhhhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhC-ccccccccccchhhHHHHHH
Confidence              0          06788863  334444444433233345566665443 33222211 14578999999999888887


Q ss_pred             hcccc
Q 041795          315 NCAFK  319 (471)
Q Consensus       315 ~~a~~  319 (471)
                      +.+..
T Consensus       179 ~~~~~  183 (231)
T d1iqpa2         179 YIAEN  183 (231)
T ss_dssp             HHHHT
T ss_pred             HHHHH
Confidence            76643

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.03  E-value=6.5e-06  Score=74.54  Aligned_cols=134  Identities=17%  Similarity=0.204  Sum_probs=85.7

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcccc---------------------ceEe
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE---------------------GNCF  240 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~---------------------~~~~  240 (471)
                      ...+++|.++.++.|..++..+. -...+.|+|.+|+||||+|+.+++.+.....                     ....
T Consensus        10 ~~~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   88 (239)
T d1njfa_          10 TFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIE   88 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEEE
T ss_pred             CHHHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeEEE
Confidence            44679999999999999987432 2456789999999999999999886532210                     0122


Q ss_pred             eeh--------hhhhhhc-------C-----cccccCCH--hhHHHHhcCCCCCCCCcEEEEEeCChhhh-hhhCcCCCc
Q 041795          241 LGN--------VREESEK-------G-----VLDDVNKI--GQLQYLTCGLDRFGPGSRIIITTRDKWIL-DKFGVHDTN  297 (471)
Q Consensus       241 ~~~--------~~~~~~~-------~-----VLDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~v~-~~~~~~~~~  297 (471)
                      +..        +++....       +     |||+++..  ...+.|+..+......+++|+||.+..-. .... ....
T Consensus        89 ~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~-SRc~  167 (239)
T d1njfa_          89 IDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTIL-SRCL  167 (239)
T ss_dssp             EETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHH-TTSE
T ss_pred             ecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHh-hhhc
Confidence            211        1111111       1     89999743  34455655555455677888887665322 2221 1146


Q ss_pred             eEEeCCCCHHHHHHHHHhcc
Q 041795          298 VYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       298 ~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      .+.+++++.++-...+...+
T Consensus       168 ~i~~~~~~~~~i~~~l~~i~  187 (239)
T d1njfa_         168 QFHLKALDVEQIRHQLEHIL  187 (239)
T ss_dssp             EEECCCCCHHHHHHHHHHHH
T ss_pred             ccccccCcHHHhhhHHHHHH
Confidence            78999999999888777655

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.03  E-value=3.6e-06  Score=73.16  Aligned_cols=125  Identities=13%  Similarity=0.102  Sum_probs=75.4

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc------ccceEeeehhhhhhh--------
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE------FEGNCFLGNVREESE--------  249 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~~~~~~~~~~--------  249 (471)
                      +..+||++++++|.+.|.....  .-+.++|.+|+|||+|+..++.++...      -+..+|.-+......        
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k--~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~   99 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTK--NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEF   99 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSS--CEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhccCC--CCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHH
Confidence            4589999999999999984332  346799999999999999999875431      334555332222111        


Q ss_pred             -------------c-C----cccccCCH----------hhHHHHhcCCCCCCCCcEEEEEeCChhhhhhhCcC-----CC
Q 041795          250 -------------K-G----VLDDVNKI----------GQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGVH-----DT  296 (471)
Q Consensus       250 -------------~-~----VLDdv~~~----------~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~~~~~-----~~  296 (471)
                                   . +    ++|++...          +.-+.|.+.+.  ...-++|.||-..........+     .-
T Consensus       100 E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~--rg~l~~IgatT~eey~~~~e~d~aL~rrF  177 (195)
T d1jbka_         100 EERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGATTLDEYRQYIEKDAALERRF  177 (195)
T ss_dssp             HHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH--TTSCCEEEEECHHHHHHHTTTCHHHHTTE
T ss_pred             HHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh--CCCceEEecCCHHHHHHHHHcCHHHHhcC
Confidence                         0 1    56776421          11122332222  1235677777655544333220     13


Q ss_pred             ceEEeCCCCHHHHHHH
Q 041795          297 NVYEVNGLRYHEALEL  312 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~L  312 (471)
                      ..+.|.+++.+++..+
T Consensus       178 ~~I~V~Ep~~e~t~~I  193 (195)
T d1jbka_         178 QKVFVAEPSVEDTIAI  193 (195)
T ss_dssp             EEEECCCCCHHHHHTT
T ss_pred             CEeecCCCCHHHHHHH
Confidence            5688888888888654

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.02  E-value=4.5e-06  Score=74.25  Aligned_cols=131  Identities=21%  Similarity=0.176  Sum_probs=78.6

Q ss_pred             CCccccchhH--HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeehhhhhh-------------
Q 041795          184 DGLVGLNSRI--EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGNVREES-------------  248 (471)
Q Consensus       184 ~~~vGr~~~~--~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~~~~~~-------------  248 (471)
                      +.++|-..+.  +.++++....+.....+.|+|.+|+|||.|++++++.........+++....-..             
T Consensus        11 nF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (213)
T d1l8qa2          11 NFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGTINE   90 (213)
T ss_dssp             SCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTCHHH
T ss_pred             hccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHHccchhh
Confidence            3456765443  3344444433333455789999999999999999999877666667765322110             


Q ss_pred             -----hc---CcccccCCH---hhHHH-HhcCCCC-CCCCcEEEEEeCChh---------hhhhhCcCCCceEEeCCCCH
Q 041795          249 -----EK---GVLDDVNKI---GQLQY-LTCGLDR-FGPGSRIIITTRDKW---------ILDKFGVHDTNVYEVNGLRY  306 (471)
Q Consensus       249 -----~~---~VLDdv~~~---~~~~~-l~~~~~~-~~~gs~IiiTTR~~~---------v~~~~~~~~~~~~~l~~L~~  306 (471)
                           ..   -+|||++..   ..|+. |...++. ...|.+||+||+...         +...+..  ..+++++ ++.
T Consensus        91 ~~~~~~~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~--g~~~~i~-p~d  167 (213)
T d1l8qa2          91 FRNMYKSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEG--GILVEIE-LDN  167 (213)
T ss_dssp             HHHHHHTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHT--SEEEECC-CCH
T ss_pred             HHHHHhhccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhC--ceEEEEC-CCc
Confidence                 00   189999632   33432 2222221 135788999998642         2222333  4577785 577


Q ss_pred             HHHHHHHHhcc
Q 041795          307 HEALELFCNCA  317 (471)
Q Consensus       307 ~ea~~Lf~~~a  317 (471)
                      ++-..++.+.+
T Consensus       168 ~~~~~iL~~~a  178 (213)
T d1l8qa2         168 KTRFKIIKEKL  178 (213)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777777766

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=97.87  E-value=3.7e-05  Score=69.73  Aligned_cols=133  Identities=22%  Similarity=0.262  Sum_probs=75.0

Q ss_pred             CCccccchhHHHHHHhhh----------cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccce-------Eeeeh---
Q 041795          184 DGLVGLNSRIEKIKSLLC----------IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGN-------CFLGN---  243 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~----------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~-------~~~~~---  243 (471)
                      ++++|.++.+++|.+.+.          .+....+-+.++|++|+|||+||+.+++.....|-..       -|+..   
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~~~~   88 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAA   88 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTTHHHH
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhccccHHHH
Confidence            568899988877766432          1223356799999999999999999998754332100       01100   


Q ss_pred             -hhhhhhc--------CcccccCCH----------------hhHHHHhcCCCCC--CCCcEEEEEeCChhhhh-hh----
Q 041795          244 -VREESEK--------GVLDDVNKI----------------GQLQYLTCGLDRF--GPGSRIIITTRDKWILD-KF----  291 (471)
Q Consensus       244 -~~~~~~~--------~VLDdv~~~----------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~v~~-~~----  291 (471)
                       +++....        -+|||++..                ..+..|+..+...  ..+.-||-||.+...+. .+    
T Consensus        89 ~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~R~~  168 (247)
T d1ixza_          89 RVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPG  168 (247)
T ss_dssp             HHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTT
T ss_pred             HHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccCHhHcCCC
Confidence             0110000        067887421                0122333222211  12333344776654322 11    


Q ss_pred             CcCCCceEEeCCCCHHHHHHHHHhccc
Q 041795          292 GVHDTNVYEVNGLRYHEALELFCNCAF  318 (471)
Q Consensus       292 ~~~~~~~~~l~~L~~~ea~~Lf~~~a~  318 (471)
                      ..  ...++++..+.++-.++|.....
T Consensus       169 Rf--~~~i~~~~P~~~eR~~il~~~l~  193 (247)
T d1ixza_         169 RF--DRQIAIDAPDVKGREQILRIHAR  193 (247)
T ss_dssp             SS--CEEEECCSCCHHHHHHHHHHHHT
T ss_pred             CC--cEEEEECCcCHHHHHHHHHHHhc
Confidence            23  56899999999999999987653

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.85  E-value=5.6e-05  Score=69.00  Aligned_cols=148  Identities=19%  Similarity=0.175  Sum_probs=84.2

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceE-------eee---
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC-------FLG---  242 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~-------~~~---  242 (471)
                      ++++|.++.+++|.+.+..           +-...+-+.++|++|+|||+||+++++.....|-..-       |+.   
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g~~~   83 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE   83 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTTHHH
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccccccHH
Confidence            4588999999888886421           2234677999999999999999999987544321110       110   


Q ss_pred             -hhhhhhh----c----CcccccCCHh-------------hHHHHhcCC--CCCCCCcEEEEEeCChhhhhh----h-Cc
Q 041795          243 -NVREESE----K----GVLDDVNKIG-------------QLQYLTCGL--DRFGPGSRIIITTRDKWILDK----F-GV  293 (471)
Q Consensus       243 -~~~~~~~----~----~VLDdv~~~~-------------~~~~l~~~~--~~~~~gs~IiiTTR~~~v~~~----~-~~  293 (471)
                       .++....    .    -++||++...             ....+....  .....+.-||.||........    . ..
T Consensus        84 ~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~gRf  163 (258)
T d1e32a2          84 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRF  163 (258)
T ss_dssp             HHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTTSS
T ss_pred             HHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhcccc
Confidence             0000000    0    1678885310             111221111  122334556668877654321    1 13


Q ss_pred             CCCceEEeCCCCHHHHHHHHHhccccCC-CCCchHHHHHHH
Q 041795          294 HDTNVYEVNGLRYHEALELFCNCAFKEN-HCPSGFLASSKR  333 (471)
Q Consensus       294 ~~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~l~~~  333 (471)
                        +..++++..+.++-..+|....-+.. ....++..+++.
T Consensus       164 --d~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~  202 (258)
T d1e32a2         164 --DREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANE  202 (258)
T ss_dssp             --CEEEECCCCCHHHHHHHHHHTTTTSCBCTTCCHHHHHHH
T ss_pred             --cceeECCCCCHHHHHHHhhhhccCcccccccchhhhhhc
Confidence              57899999999999999987653221 222345555443

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.80  E-value=1.4e-05  Score=77.32  Aligned_cols=129  Identities=16%  Similarity=0.158  Sum_probs=75.5

Q ss_pred             CCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc------ccceEeeehhhhhhhc-------
Q 041795          184 DGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE------FEGNCFLGNVREESEK-------  250 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~~~~~~~~~~~-------  250 (471)
                      +.++||+.+++++.+.|.....+  -+.++|.+|+|||+|+..++.++...      .+..+|.-+.......       
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~--n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~   99 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKN--NPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEF   99 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCC--CCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CH
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCC--CCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhH
Confidence            45899999999999999844322  23678999999999998888774322      3345664332221110       


Q ss_pred             ---------------C----cccccCCH----------hhHHHHhcCCCCCCCCcEEEEEeCChhhhhhhCc-----CCC
Q 041795          251 ---------------G----VLDDVNKI----------GQLQYLTCGLDRFGPGSRIIITTRDKWILDKFGV-----HDT  296 (471)
Q Consensus       251 ---------------~----VLDdv~~~----------~~~~~l~~~~~~~~~gs~IiiTTR~~~v~~~~~~-----~~~  296 (471)
                                     +    ++|++...          +.-+.|.+.+..  ..-++|-+|-...... +..     ..-
T Consensus       100 e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~r--g~~~~I~~tT~~ey~~-~e~d~al~rrF  176 (387)
T d1qvra2         100 EERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDEYRE-IEKDPALERRF  176 (387)
T ss_dssp             HHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHHHHH-HTTCTTTCSCC
T ss_pred             HHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhC--CCcceeeecCHHHHHH-hcccHHHHHhc
Confidence                           1    67877532          111222222221  2245666665554432 222     114


Q ss_pred             ceEEeCCCCHHHHHHHHHhcc
Q 041795          297 NVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       297 ~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                      ..+.|++.+.+++..++...+
T Consensus       177 ~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         177 QPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             CCEEECCCCHHHHHHHHHHHH
T ss_pred             ccccCCCCcHHHHHHHHHHHH
Confidence            679999999999999988654

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.80  E-value=1.2e-05  Score=72.32  Aligned_cols=52  Identities=27%  Similarity=0.252  Sum_probs=41.7

Q ss_pred             CCCccccchhHHHHHHhhhc---CCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          183 FDGLVGLNSRIEKIKSLLCI---GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      -++++|-+..+++|..++..   .+...+-+.++|++|+||||+|+.+++.+...
T Consensus         8 ~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~   62 (238)
T d1in4a2           8 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN   62 (238)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC
T ss_pred             HHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCC
Confidence            36799999999999988852   22335568899999999999999999876544

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=97.68  E-value=0.00011  Score=64.69  Aligned_cols=125  Identities=18%  Similarity=0.169  Sum_probs=79.1

Q ss_pred             chhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc---------------------ccceEee-------
Q 041795          190 NSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE---------------------FEGNCFL-------  241 (471)
Q Consensus       190 ~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~~-------  241 (471)
                      +...+++.+.+..+. -...+.++|+.|+||||+|+.+++.+...                     .....++       
T Consensus         8 ~~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~   86 (207)
T d1a5ta2           8 RPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKN   86 (207)
T ss_dssp             HHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCS
T ss_pred             HHHHHHHHHHHHcCC-cCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhccc
Confidence            344566666665322 24568999999999999999998864211                     1111111       


Q ss_pred             ----ehhhhhhhc-------C-----cccccCC--HhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhh-CcCCCceEEe
Q 041795          242 ----GNVREESEK-------G-----VLDDVNK--IGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKF-GVHDTNVYEV  301 (471)
Q Consensus       242 ----~~~~~~~~~-------~-----VLDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~-~~~~~~~~~l  301 (471)
                          ..+++....       +     |+|+++.  .+....|+..+.....++.+|+||.+.. +...+ ..  ...+.+
T Consensus        87 ~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SR--c~~i~~  164 (207)
T d1a5ta2          87 TLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSR--CRLHYL  164 (207)
T ss_dssp             SBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTT--SEEEEC
T ss_pred             ccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcce--eEEEec
Confidence                111111111       1     8899974  4556677766666667888888887754 33322 22  567999


Q ss_pred             CCCCHHHHHHHHHhcc
Q 041795          302 NGLRYHEALELFCNCA  317 (471)
Q Consensus       302 ~~L~~~ea~~Lf~~~a  317 (471)
                      .+++.++....+....
T Consensus       165 ~~~~~~~~~~~L~~~~  180 (207)
T d1a5ta2         165 APPPEQYAVTWLSREV  180 (207)
T ss_dssp             CCCCHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHcC
Confidence            9999999998887643

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=97.63  E-value=6.6e-05  Score=68.35  Aligned_cols=147  Identities=21%  Similarity=0.195  Sum_probs=81.0

Q ss_pred             CCccccchhHHHHHHhhh---c-------CCCCceEEEEeccCcchhhhHHHHHHHhhhcccc---c----eEeeeh---
Q 041795          184 DGLVGLNSRIEKIKSLLC---I-------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE---G----NCFLGN---  243 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~---~-------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~---~----~~~~~~---  243 (471)
                      ++++|.++.+++|.+.+.   .       +....+.+.++|++|+|||+||+.+++.....|-   .    ..|+..   
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~~~g~~~~   91 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGAS   91 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCCCHH
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhcchhHHHH
Confidence            568899888888766432   1       1233677899999999999999999987543320   0    011111   


Q ss_pred             -hhhhhhc---C-----cccccCCH------------h----hHHHHhcCCCC--CCCCcEEEEEeCChhhhh-hh----
Q 041795          244 -VREESEK---G-----VLDDVNKI------------G----QLQYLTCGLDR--FGPGSRIIITTRDKWILD-KF----  291 (471)
Q Consensus       244 -~~~~~~~---~-----VLDdv~~~------------~----~~~~l~~~~~~--~~~gs~IiiTTR~~~v~~-~~----  291 (471)
                       +++....   .     ++||++..            .    .+..|+..++.  ...+.-||-||.+..... .+    
T Consensus        92 ~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~R~g  171 (256)
T d1lv7a_          92 RVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPG  171 (256)
T ss_dssp             HHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTT
T ss_pred             HHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHhHcCCC
Confidence             1111100   0     57887411            0    12233322221  123445555887654332 11    


Q ss_pred             CcCCCceEEeCCCCHHHHHHHHHhccccCC-CCCchHHHHHH
Q 041795          292 GVHDTNVYEVNGLRYHEALELFCNCAFKEN-HCPSGFLASSK  332 (471)
Q Consensus       292 ~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~l~~  332 (471)
                      ..  +..++++..+.++-.++|....-+.. ....++..+++
T Consensus       172 Rf--d~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~  211 (256)
T d1lv7a_         172 RF--DRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIAR  211 (256)
T ss_dssp             SS--CEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHH
T ss_pred             CC--CEEEECCCcCHHHHHHHHHHhccCCCcCcccCHHHHHH
Confidence            23  57899999999998888876653222 22334445443

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.62  E-value=0.00011  Score=66.55  Aligned_cols=51  Identities=20%  Similarity=0.137  Sum_probs=37.0

Q ss_pred             CCccccchhHHHHHHhhh-------c-CCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          184 DGLVGLNSRIEKIKSLLC-------I-GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~-------~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +.++|..+.++.+.+.+.       . .....+-|.++|++|+|||+||+.+++.....
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~   67 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP   67 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCS
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccccc
Confidence            457887777766655332       1 22346779999999999999999999986544

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.61  E-value=0.00015  Score=66.34  Aligned_cols=132  Identities=21%  Similarity=0.241  Sum_probs=78.4

Q ss_pred             CCccccchhHHHHHHhhhc-----------CCCCceEEEEeccCcchhhhHHHHHHHhhhccccceE-------eeehh-
Q 041795          184 DGLVGLNSRIEKIKSLLCI-----------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNC-------FLGNV-  244 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~-------~~~~~-  244 (471)
                      .+++|.++.+++|.+.+..           +-...+-|.++|.+|+|||+||+.+++....+|-...       |.... 
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~~~~~   86 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESE   86 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCTTTHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccccchH
Confidence            5688999988888876531           2233667999999999999999999988654421110       00000 


Q ss_pred             ---hhhhhc--------CcccccCCHh----------------hHHHHhcCCCCCC--CCcEEEEEeCChhhhh-hh---
Q 041795          245 ---REESEK--------GVLDDVNKIG----------------QLQYLTCGLDRFG--PGSRIIITTRDKWILD-KF---  291 (471)
Q Consensus       245 ---~~~~~~--------~VLDdv~~~~----------------~~~~l~~~~~~~~--~gs~IiiTTR~~~v~~-~~---  291 (471)
                         +.....        -+|||++...                ....++..+....  .+--||-||....-+. .+   
T Consensus        87 ~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~  166 (265)
T d1r7ra3          87 ANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRP  166 (265)
T ss_dssp             HHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSS
T ss_pred             HHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCC
Confidence               000000        0678885210                1234554444222  2445666777654321 11   


Q ss_pred             -CcCCCceEEeCCCCHHHHHHHHHhcc
Q 041795          292 -GVHDTNVYEVNGLRYHEALELFCNCA  317 (471)
Q Consensus       292 -~~~~~~~~~l~~L~~~ea~~Lf~~~a  317 (471)
                       ..  ...++++..+.++-..+|..+.
T Consensus       167 gRf--~~~i~~~~p~~~~R~~il~~~l  191 (265)
T d1r7ra3         167 GRL--DQLIYIPLPDEKSRVAILKANL  191 (265)
T ss_dssp             TTS--EEEEECCCCCCHHHHHHHHHHT
T ss_pred             CCc--cEEEEecchHHHHHHHHHHHHh
Confidence             22  5689999999999999998654

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=97.56  E-value=2.1e-05  Score=72.16  Aligned_cols=51  Identities=27%  Similarity=0.201  Sum_probs=39.3

Q ss_pred             CCCCccccchhHHHHHHhhh----cCC--CC-ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          182 NFDGLVGLNSRIEKIKSLLC----IGR--PD-FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~----~~~--~~-~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++.++||+.++++|.+.+.    .+.  .+ ..++.++|++|+|||++++.+++.+.
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~   71 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVS   71 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHH
Confidence            45779999999999988663    121  22 33567789999999999999998754

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.46  E-value=3.5e-05  Score=69.27  Aligned_cols=52  Identities=25%  Similarity=0.324  Sum_probs=41.5

Q ss_pred             CCCccccchhHHHHHHhhhc---CCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          183 FDGLVGLNSRIEKIKSLLCI---GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .+++||-+..+++|..++..   ....++-+.++|++|+||||+|+.+++.....
T Consensus         8 ~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~   62 (239)
T d1ixsb2           8 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN   62 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            35689999999999888763   22346678899999999999999999876544

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.33  E-value=7.3e-05  Score=67.56  Aligned_cols=52  Identities=29%  Similarity=0.373  Sum_probs=41.8

Q ss_pred             CCCCccccchhHHHHHHhhhc---------------CCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          182 NFDGLVGLNSRIEKIKSLLCI---------------GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~---------------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+++|.+..+++|.++|..               +....+.+.++|++|+||||+|+.+++....
T Consensus        12 ~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~   78 (253)
T d1sxja2          12 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY   78 (253)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHh
Confidence            446799999999999998742               1223568999999999999999999997543

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.03  E-value=0.00015  Score=61.49  Aligned_cols=26  Identities=23%  Similarity=0.363  Sum_probs=23.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ++.|+|.|++|+||||||+.+++.+.
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            57899999999999999999988653

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.01  E-value=0.00024  Score=59.90  Aligned_cols=37  Identities=16%  Similarity=0.068  Sum_probs=28.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc-ccceEeee
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE-FEGNCFLG  242 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~~~  242 (471)
                      ...+|.|+|++|+||||+|++++..+... ++...++.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~~~   42 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLL   42 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCchhhhh
Confidence            35689999999999999999999997654 34444443

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.00  E-value=0.00012  Score=60.83  Aligned_cols=26  Identities=23%  Similarity=0.301  Sum_probs=22.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +.|.|.|++|+||||+|+.++..+.-
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~   28 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNM   28 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            46888999999999999999987643

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=96.88  E-value=0.00022  Score=59.70  Aligned_cols=28  Identities=25%  Similarity=0.379  Sum_probs=24.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +++++|+|..|+|||||++.+.+.+..+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            4699999999999999999999876543

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.85  E-value=0.00031  Score=60.22  Aligned_cols=36  Identities=25%  Similarity=0.127  Sum_probs=29.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ..+|.++|++|+||||+|+.++..+...+....++.
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~~   54 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   54 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCCCccchh
Confidence            468889999999999999999998776665555543

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.80  E-value=0.00069  Score=57.96  Aligned_cols=34  Identities=26%  Similarity=0.306  Sum_probs=27.6

Q ss_pred             CCCCceEEEEeccCcchhhhHHHHHHHhhhcccc
Q 041795          203 GRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE  236 (471)
Q Consensus       203 ~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~  236 (471)
                      ...+.-+|+|.|.+|+||||||+.+...+....-
T Consensus        18 ~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~~~   51 (198)
T d1rz3a_          18 KTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGI   51 (198)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHHHHHTTC
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHhccccc
Confidence            3445678999999999999999999887665543

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.79  E-value=0.0011  Score=57.45  Aligned_cols=110  Identities=13%  Similarity=0.024  Sum_probs=67.2

Q ss_pred             hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcccc---ceEeee---------hhhhhhhc-------C-
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFE---GNCFLG---------NVREESEK-------G-  251 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~---~~~~~~---------~~~~~~~~-------~-  251 (471)
                      +++.|.+++..+  ....+.++|.+|+||||+|..+.+.+.....   ...++.         .+++....       + 
T Consensus         2 ~~~~l~~~i~~~--~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~~~~~~~~   79 (198)
T d2gnoa2           2 QLETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYT   79 (198)
T ss_dssp             HHHHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSS
T ss_pred             HHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHhhCcccCC
Confidence            456666666633  5789999999999999999999886543211   233322         22221111       1 


Q ss_pred             ----cccccC--CHhhHHHHhcCCCCCCCCcEEEEEeCChh-hhhhhCcCCCceEEeCCC
Q 041795          252 ----VLDDVN--KIGQLQYLTCGLDRFGPGSRIIITTRDKW-ILDKFGVHDTNVYEVNGL  304 (471)
Q Consensus       252 ----VLDdv~--~~~~~~~l~~~~~~~~~gs~IiiTTR~~~-v~~~~~~~~~~~~~l~~L  304 (471)
                          |+|+++  +....+.|+..+.....++.+|++|.+.. +...... ....+.++..
T Consensus        80 ~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~S-RC~~i~~~~p  138 (198)
T d2gnoa2          80 RKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKS-RVFRVVVNVP  138 (198)
T ss_dssp             SEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHT-TSEEEECCCC
T ss_pred             CEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhc-ceEEEeCCCc
Confidence                899997  45667777776665567888888777653 3332221 1344566543

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.78  E-value=0.00031  Score=57.72  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ++|.|+|++|+||||||+++...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999988654

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=96.77  E-value=0.0003  Score=58.90  Aligned_cols=24  Identities=25%  Similarity=0.340  Sum_probs=21.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ++|.|.|++|+||||+|+.+...+
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            579999999999999999998764

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=96.71  E-value=0.00031  Score=58.84  Aligned_cols=25  Identities=28%  Similarity=0.228  Sum_probs=21.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..|.|.|++|+||||+|+.+++++.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4577999999999999999988753

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.68  E-value=0.00063  Score=61.54  Aligned_cols=31  Identities=29%  Similarity=0.308  Sum_probs=26.0

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      +.++.|.++|++|+||||||+.+++.....|
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~~~~~   60 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEETQGNV   60 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTTTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhcce
Confidence            3467899999999999999999998865543

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.63  E-value=0.00035  Score=59.03  Aligned_cols=27  Identities=33%  Similarity=0.316  Sum_probs=23.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +.|.|+|.+|+|||||+++++..+...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            568999999999999999999887554

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.59  E-value=0.00046  Score=57.92  Aligned_cols=25  Identities=20%  Similarity=0.332  Sum_probs=20.9

Q ss_pred             EEEeccCcchhhhHHHHHHHhhhcc
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      |.++||+|+||||+|+.+++.+.-.
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~   28 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVG   28 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCC
Confidence            4466999999999999999887544

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.56  E-value=0.00064  Score=56.87  Aligned_cols=28  Identities=25%  Similarity=0.474  Sum_probs=24.7

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ...+++.|+|++|+||||+|+.+...+.
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4578999999999999999999988763

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.55  E-value=0.00048  Score=57.76  Aligned_cols=26  Identities=15%  Similarity=0.290  Sum_probs=23.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++|.|.|.+|+||||+|+.+++.+.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999988764

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.53  E-value=0.0005  Score=57.52  Aligned_cols=23  Identities=35%  Similarity=0.446  Sum_probs=20.7

Q ss_pred             EEEeccCcchhhhHHHHHHHhhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      |.|+||+|+||||+|+.++..+.
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            67889999999999999998863

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.52  E-value=0.00072  Score=58.15  Aligned_cols=27  Identities=26%  Similarity=0.278  Sum_probs=24.0

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +.+.+|.|+|++|+||||+|+.+++.+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999998764

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.45  E-value=0.00082  Score=57.92  Aligned_cols=28  Identities=18%  Similarity=0.230  Sum_probs=24.9

Q ss_pred             CCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+..++|.|.|++|+||||+|+.+++.+
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4568899999999999999999998765

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.41  E-value=0.00078  Score=58.41  Aligned_cols=28  Identities=14%  Similarity=0.189  Sum_probs=23.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +.+|.++|.+|+||||||++++..+...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            4689999999999999999999876543

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.40  E-value=0.00076  Score=57.01  Aligned_cols=27  Identities=30%  Similarity=0.433  Sum_probs=24.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++|+|.|++|+||||+++.+...+...
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~   28 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKE   28 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            689999999999999999999886554

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.39  E-value=0.0006  Score=57.46  Aligned_cols=24  Identities=21%  Similarity=0.225  Sum_probs=21.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .|.++|++|+||||+|+.+++.+.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            466889999999999999998764

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.35  E-value=0.00096  Score=55.84  Aligned_cols=26  Identities=35%  Similarity=0.280  Sum_probs=22.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..-.|.|.|++|+||||+|+.+++.+
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            34568899999999999999998764

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.33  E-value=0.00086  Score=56.11  Aligned_cols=27  Identities=26%  Similarity=0.295  Sum_probs=24.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++++|+|..|+|||||+.++...+..+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            589999999999999999999887654

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.20  E-value=0.00082  Score=56.35  Aligned_cols=25  Identities=40%  Similarity=0.456  Sum_probs=22.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -++|.|.|++|+||||+|+.+...+
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999987653

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.18  E-value=0.001  Score=56.37  Aligned_cols=26  Identities=27%  Similarity=0.379  Sum_probs=22.4

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +...+|.++|++|+||||+|+.++..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            45779999999999999999987653

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.04  E-value=0.0023  Score=54.13  Aligned_cols=27  Identities=22%  Similarity=0.410  Sum_probs=24.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++|.|.|++|+||||+|+.+...+...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            688999999999999999999887654

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.99  E-value=0.0015  Score=60.85  Aligned_cols=27  Identities=26%  Similarity=0.294  Sum_probs=23.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .+.+.++|++|+|||.||+.+++....
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~~~~~   75 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAKLANA   75 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             CceEEEECCCCCCHHHHHHHHhhcccc
Confidence            467889999999999999999987543

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.94  E-value=0.0018  Score=54.40  Aligned_cols=25  Identities=40%  Similarity=0.419  Sum_probs=22.2

Q ss_pred             EEEeccCcchhhhHHHHHHHhhhcc
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      |+|+|.+|+|||||++.+...+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCCC
Confidence            7899999999999999999876554

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=95.78  E-value=0.0021  Score=56.04  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=23.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++|+|-|++|+||||+|+.+.+++.
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46999999999999999999998763

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=95.78  E-value=0.0088  Score=55.47  Aligned_cols=46  Identities=22%  Similarity=0.320  Sum_probs=32.3

Q ss_pred             ccccchhHHHHHHhhh-----c-C-CCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          186 LVGLNSRIEKIKSLLC-----I-G-RPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       186 ~vGr~~~~~~l~~~L~-----~-~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ++|-++.++.+.+.+.     . . .....++.++|+.|+|||.||+.+++.+
T Consensus        25 v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          25 VVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             EeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            5666666666654332     1 1 1224578899999999999999998875

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.72  E-value=0.0037  Score=55.34  Aligned_cols=48  Identities=21%  Similarity=0.170  Sum_probs=37.8

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .|.+.|..+-+.-.++.|+|.+|+|||+||.+++.....+...++|+.
T Consensus        14 ~LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          14 RLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             HHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             HHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceee
Confidence            355555534345679999999999999999999998777777777775

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=95.72  E-value=0.0028  Score=54.04  Aligned_cols=25  Identities=32%  Similarity=0.384  Sum_probs=21.2

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ++++| |.|++|+||||+|+.+++.+
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            45666 78999999999999998765

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.68  E-value=0.003  Score=54.91  Aligned_cols=27  Identities=22%  Similarity=0.416  Sum_probs=23.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +-+|||.|..|+||||||+.+.+.+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            458999999999999999999887643

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.63  E-value=0.003  Score=54.02  Aligned_cols=24  Identities=29%  Similarity=0.313  Sum_probs=21.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+|.|.|++|+||||+|+.+++.+
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999998865

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.57  E-value=0.0045  Score=53.88  Aligned_cols=29  Identities=21%  Similarity=0.249  Sum_probs=25.2

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      +...+|-+.|++|.||||||+++...+..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~   50 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVR   50 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            45679999999999999999999988644

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.47  E-value=0.0031  Score=53.14  Aligned_cols=22  Identities=32%  Similarity=0.425  Sum_probs=20.0

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |.|.|++|+||||+|+.++..+
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999998765

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.37  E-value=0.0031  Score=54.03  Aligned_cols=27  Identities=33%  Similarity=0.395  Sum_probs=22.7

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      .|.|+|++|+|||||++.+.+.....|
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCce
Confidence            478999999999999999988755444

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=95.34  E-value=0.0034  Score=53.51  Aligned_cols=24  Identities=29%  Similarity=0.128  Sum_probs=20.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.|.|.|++|+||||+|+.+++.+
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            357799999999999999998765

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=95.31  E-value=0.0036  Score=53.55  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=19.8

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|.|.|++|+||||+|+.++..+
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            45678999999999999998864

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.26  E-value=0.0034  Score=53.55  Aligned_cols=29  Identities=38%  Similarity=0.474  Sum_probs=23.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcccc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFE  236 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~  236 (471)
                      +.|.|+|++|+|||||++.+.+.....|.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~~   30 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSFG   30 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCccee
Confidence            45889999999999999999887655443

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=95.24  E-value=0.0041  Score=52.59  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=20.1

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |.|.|++|+||||+|+.+++.+
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999999875

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.23  E-value=0.0042  Score=52.46  Aligned_cols=22  Identities=32%  Similarity=0.324  Sum_probs=20.1

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |.|.|++|+||||+|+.+++.+
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6788999999999999999875

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=95.15  E-value=0.0071  Score=57.23  Aligned_cols=48  Identities=25%  Similarity=0.212  Sum_probs=33.3

Q ss_pred             cccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          187 VGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       187 vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .|.+..+-+..+.+..+.+..+.+.++|++|+|||++|..+++.....
T Consensus       134 ~~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~  181 (362)
T d1svma_         134 PKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGK  181 (362)
T ss_dssp             TTHHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             cchHHHHHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            333333333333333455667899999999999999999999976544

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=95.07  E-value=0.0052  Score=52.57  Aligned_cols=26  Identities=27%  Similarity=0.300  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..++|.|.|++|+||||+|+.+++.+
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998764

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=95.02  E-value=0.01  Score=51.60  Aligned_cols=38  Identities=24%  Similarity=0.302  Sum_probs=28.1

Q ss_pred             CCCceEEEEeccCcchhhhHHHHHHHhhhccccceEee
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFL  241 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~  241 (471)
                      ...+.+|.++|+.|+||||.+.+++..+..+-..+..+
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~li   45 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLA   45 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEE
Confidence            45678999999999999999888887754433334433

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=95.00  E-value=0.012  Score=54.59  Aligned_cols=49  Identities=16%  Similarity=0.112  Sum_probs=36.0

Q ss_pred             CCccccchhHHHHHHhhh-------cCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          184 DGLVGLNSRIEKIKSLLC-------IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~-------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..++|-+..++.|...+.       .......++.++|++|+|||.||+.++..+.
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~   77 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG   77 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc
Confidence            347788877777765442       1122355889999999999999999998754

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=94.99  E-value=0.01  Score=55.20  Aligned_cols=39  Identities=26%  Similarity=0.256  Sum_probs=29.5

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .++.+.+.....+..+|+|.|.+|+|||||..++...+.
T Consensus        38 ~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~   76 (323)
T d2qm8a1          38 RDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLT   76 (323)
T ss_dssp             HHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHh
Confidence            334444444455688999999999999999999887644

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=94.94  E-value=0.006  Score=53.12  Aligned_cols=23  Identities=30%  Similarity=0.330  Sum_probs=20.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHhh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +|+|-|++|+||||+|+.++..+
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            67899999999999999998875

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=94.90  E-value=0.012  Score=51.04  Aligned_cols=30  Identities=23%  Similarity=0.289  Sum_probs=25.2

Q ss_pred             CCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .+...+|.++|+.|+||||.+.+++..+..
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~   35 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQ   35 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            455789999999999999999888877653

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=94.85  E-value=0.012  Score=50.91  Aligned_cols=29  Identities=28%  Similarity=0.281  Sum_probs=24.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +.+++.++|+.|+||||.+.+++..+..+
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~   37 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGK   37 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            46799999999999999998888776544

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.81  E-value=0.0066  Score=51.34  Aligned_cols=29  Identities=14%  Similarity=0.355  Sum_probs=23.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcccc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFE  236 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~  236 (471)
                      +.|.|+|++|+|||||++.+..+....|.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~~~~   32 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPDRFA   32 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCcCee
Confidence            57899999999999999998876554443

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.81  E-value=0.0092  Score=54.32  Aligned_cols=31  Identities=19%  Similarity=0.202  Sum_probs=25.8

Q ss_pred             CCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          204 RPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       204 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ...+-+|||.|..|+||||||..+...+...
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~   54 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIYNHLMEK   54 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHHHHHHHH
Confidence            3446699999999999999999998876554

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.80  E-value=0.0065  Score=51.26  Aligned_cols=22  Identities=27%  Similarity=0.291  Sum_probs=19.1

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |.|.|++|+||||+|+.+++.+
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4477999999999999998764

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.73  E-value=0.0065  Score=51.07  Aligned_cols=22  Identities=27%  Similarity=0.225  Sum_probs=19.6

Q ss_pred             EEEeccCcchhhhHHHHHHHhh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      |.|.|++|+||||+|+.+++.+
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6689999999999999998764

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=94.70  E-value=0.014  Score=53.70  Aligned_cols=30  Identities=27%  Similarity=0.193  Sum_probs=25.9

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..+-+|||.|..|+||||+|+.+...+...
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~~~  107 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLSRW  107 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTS
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHhhh
Confidence            447799999999999999999998877644

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=94.63  E-value=0.018  Score=53.47  Aligned_cols=39  Identities=23%  Similarity=0.247  Sum_probs=29.3

Q ss_pred             HHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          196 IKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       196 l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +...+.....+..+|+|.|.+|+|||||...+...+...
T Consensus        43 ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~   81 (327)
T d2p67a1          43 LLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIRE   81 (327)
T ss_dssp             HHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            333333344568899999999999999999988765543

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.62  E-value=0.008  Score=50.77  Aligned_cols=25  Identities=28%  Similarity=0.360  Sum_probs=21.7

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ++|.|+|++|+|||||++.+.....
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            5789999999999999999877643

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.61  E-value=0.0093  Score=53.26  Aligned_cols=46  Identities=24%  Similarity=0.119  Sum_probs=35.9

Q ss_pred             CccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          185 GLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .|||....++++.+.+..-...-..|.|.|..|+|||++|+.+...
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence            3788888888888877643323335789999999999999999764

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=94.60  E-value=0.0079  Score=51.14  Aligned_cols=22  Identities=41%  Similarity=0.499  Sum_probs=19.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~  228 (471)
                      +-+|||+|+.|+||||+|..+-
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999998763

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.57  E-value=0.021  Score=51.47  Aligned_cols=41  Identities=27%  Similarity=0.413  Sum_probs=31.6

Q ss_pred             hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ++..|.+.+.  .++.++|.+.|=||+||||+|-.++..+...
T Consensus         7 ~~~~~~~~~~--~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~   47 (279)
T d1ihua2           7 SLSALVDDIA--RNEHGLIMLMGKGGVGKTTMAAAIAVRLADM   47 (279)
T ss_dssp             CHHHHHHHHH--TTSCEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             cHHHHHHHhh--cCCCEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            4556666665  4568999999999999999998887765543

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.47  E-value=0.0077  Score=54.81  Aligned_cols=28  Identities=18%  Similarity=0.389  Sum_probs=21.1

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ...+|||.|.+|.||||+|+.+.+.+..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~   30 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRR   30 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            4679999999999999999998876543

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=94.42  E-value=0.014  Score=52.42  Aligned_cols=27  Identities=33%  Similarity=0.491  Sum_probs=23.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +.|+|+|=||+||||+|..++..+...
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~   28 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAM   28 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhC
Confidence            689999999999999999988876544

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.37  E-value=0.011  Score=50.44  Aligned_cols=38  Identities=24%  Similarity=0.205  Sum_probs=27.8

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      .|..+|..+-..-.++.|.|.+|+|||+||.+++....
T Consensus        11 ~LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~   48 (242)
T d1n0wa_          11 ELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQ   48 (242)
T ss_dssp             HHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HHHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            34455542323457999999999999999999887643

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=94.25  E-value=0.019  Score=49.61  Aligned_cols=28  Identities=29%  Similarity=0.322  Sum_probs=23.7

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ..++|.++|+.|+||||.+.+++..+..
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~   32 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQN   32 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4679999999999999998888876543

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.16  E-value=0.021  Score=50.29  Aligned_cols=37  Identities=27%  Similarity=0.278  Sum_probs=29.0

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .|.++|..+-+.-+++.|.|.+|+|||++|.+++...
T Consensus        25 ~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          25 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             HHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4445555444567899999999999999999988764

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=93.93  E-value=0.016  Score=51.02  Aligned_cols=37  Identities=30%  Similarity=0.390  Sum_probs=27.9

Q ss_pred             HHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          196 IKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       196 l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      |..+|..+-+.-+++.|.|.+|+||||+|.+++....
T Consensus        25 LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          25 LDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             HHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            3445543334567999999999999999999887643

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=93.88  E-value=0.011  Score=50.27  Aligned_cols=27  Identities=30%  Similarity=0.115  Sum_probs=22.6

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ...-+|+|-|.-|+||||+|+.+.+..
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999887654

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=93.84  E-value=0.026  Score=48.88  Aligned_cols=29  Identities=31%  Similarity=0.356  Sum_probs=20.1

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ....||.++|+.|+||||.+.+++..++.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~   38 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKK   38 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            35789999999999999998888776543

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=93.71  E-value=0.015  Score=54.17  Aligned_cols=46  Identities=24%  Similarity=0.224  Sum_probs=32.2

Q ss_pred             CCCCccccchhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHH
Q 041795          182 NFDGLVGLNSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      +...++|.+..+..|.-.+...  +..-|.|.|.+|+||||||+.+..
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~--~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDP--GIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCG--GGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhcc--CCCeEEEECCCCccHHHHHHHHHH
Confidence            3456899987666554333211  112478999999999999999875

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=93.67  E-value=0.02  Score=50.08  Aligned_cols=25  Identities=40%  Similarity=0.531  Sum_probs=21.5

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      ||+|.|+.|.|||||...+.+....
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~   26 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLED   26 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Confidence            7899999999999999998765433

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=93.45  E-value=0.35  Score=43.07  Aligned_cols=23  Identities=26%  Similarity=0.245  Sum_probs=20.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .-.|+|+|++.+|||||...+..
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~  134 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAK  134 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             ceEEEEEecCccchhhhhhhhhc
Confidence            45689999999999999998865

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=93.28  E-value=0.02  Score=46.41  Aligned_cols=21  Identities=24%  Similarity=0.213  Sum_probs=18.6

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.|+|.+|+|||||...+...
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999988654

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.12  E-value=0.035  Score=48.18  Aligned_cols=35  Identities=26%  Similarity=0.324  Sum_probs=27.4

Q ss_pred             eEEEEe-ccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          208 RIVGIW-GMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       208 ~vv~I~-G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ++|+|+ |=||+||||+|..++..+...-..++.++
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g~~VlliD   37 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLGHDVTIVD   37 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEe
Confidence            788888 67999999999999888776544455554

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=93.10  E-value=0.027  Score=49.19  Aligned_cols=39  Identities=21%  Similarity=0.213  Sum_probs=28.8

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ..|.++|..+-..-.++.|.|.+|+|||++|..++....
T Consensus        21 ~~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          21 SELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             HHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            445555543233457999999999999999999987643

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.10  E-value=0.017  Score=50.46  Aligned_cols=36  Identities=25%  Similarity=0.264  Sum_probs=27.0

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .|..+|..+-+.-+++.|.|.+|+||||||.++...
T Consensus        22 ~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          22 NLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             HHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             HHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            444555433345679999999999999999987654

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=92.88  E-value=0.023  Score=50.19  Aligned_cols=25  Identities=32%  Similarity=0.270  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||++.++.-.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            3589999999999999999987543

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=92.87  E-value=0.032  Score=46.20  Aligned_cols=32  Identities=22%  Similarity=0.233  Sum_probs=22.3

Q ss_pred             HHhhhcCCCCceEEEEeccCcchhhhHHHHHHH
Q 041795          197 KSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       197 ~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .+.+....... -|+|+|.+|+|||||...+..
T Consensus         4 ~~~~~~~~k~~-kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_           4 LQFLGLYKKTG-KLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             HHHHTCTTCCE-EEEEEEETTSSHHHHHHHHSC
T ss_pred             HHhccccCCCC-EEEEECCCCCCHHHHHHHHhC
Confidence            33444333334 477999999999999887744

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=92.86  E-value=0.025  Score=48.76  Aligned_cols=24  Identities=21%  Similarity=0.311  Sum_probs=21.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+|.|+|++|+|||||.+.+....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578899999999999999988764

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=92.78  E-value=0.023  Score=49.05  Aligned_cols=19  Identities=47%  Similarity=0.627  Sum_probs=17.6

Q ss_pred             EEEEeccCcchhhhHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAI  227 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v  227 (471)
                      +|||+|+.|+||||.|+.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999865

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=92.78  E-value=0.032  Score=51.48  Aligned_cols=27  Identities=30%  Similarity=0.340  Sum_probs=22.7

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      .++.++|.+|+|||.||+.++..+..+
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~  150 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGK  150 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTT
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCC
Confidence            356678999999999999999987644

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=92.66  E-value=0.026  Score=45.98  Aligned_cols=22  Identities=32%  Similarity=0.330  Sum_probs=19.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+|+|.+|+|||||...+.+.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3779999999999999988764

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.64  E-value=0.03  Score=49.06  Aligned_cols=26  Identities=23%  Similarity=0.139  Sum_probs=23.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      ++.|+|-|+-|+||||+++.+.+.+.
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHh
Confidence            57899999999999999999988653

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=92.61  E-value=0.025  Score=49.10  Aligned_cols=49  Identities=27%  Similarity=0.209  Sum_probs=31.4

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh-hhccccceEeee
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL-IYKEFEGNCFLG  242 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~-~~~~f~~~~~~~  242 (471)
                      +.|.++|..+-+.-.++.|.|.+|+|||+||.+++.. ....-...+|+.
T Consensus        13 ~~LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s   62 (242)
T d1tf7a1          13 EGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVT   62 (242)
T ss_dssp             TTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             HHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCccccc
Confidence            3455555433345679999999999999999876544 333323344443

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=92.61  E-value=0.03  Score=47.84  Aligned_cols=25  Identities=28%  Similarity=0.462  Sum_probs=22.2

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .|+|-|+-|+||||+++.+.+.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~   26 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5889999999999999999888654

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.59  E-value=0.041  Score=47.45  Aligned_cols=27  Identities=15%  Similarity=0.308  Sum_probs=23.6

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      ..|+|-|+-|+||||+++.+.+.+..+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~   30 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAA   30 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            578999999999999999999887554

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=92.56  E-value=0.023  Score=49.90  Aligned_cols=23  Identities=35%  Similarity=0.403  Sum_probs=19.9

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -.+++|+|..|+|||||.+.+..
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCcchhhHhccC
Confidence            45899999999999999987653

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.56  E-value=0.027  Score=49.44  Aligned_cols=25  Identities=36%  Similarity=0.317  Sum_probs=21.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|+.|+|||||.+.++--.
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            4589999999999999999886543

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=92.52  E-value=0.043  Score=49.69  Aligned_cols=27  Identities=30%  Similarity=0.522  Sum_probs=22.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +.|+|.|=||+||||+|..++..+...
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~~   29 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAEM   29 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            678899999999999999887765543

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=92.45  E-value=0.02  Score=49.25  Aligned_cols=25  Identities=36%  Similarity=0.460  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|+|||||.+.++..+
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            4589999999999999999987644

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=92.43  E-value=0.034  Score=50.26  Aligned_cols=30  Identities=23%  Similarity=0.181  Sum_probs=25.1

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +..++|.+.|=||+||||+|..++..+..+
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~   35 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQ   35 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHHHC
Confidence            347888999999999999999988876553

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=92.41  E-value=0.024  Score=50.74  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -.+++|+|..|.|||||++.+..
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            46999999999999999999864

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=92.41  E-value=0.023  Score=50.20  Aligned_cols=23  Identities=35%  Similarity=0.495  Sum_probs=20.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -.+++|+|..|+|||||++.++-
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHcC
Confidence            46899999999999999999864

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=92.35  E-value=0.028  Score=49.73  Aligned_cols=25  Identities=36%  Similarity=0.559  Sum_probs=21.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -..++|+|..|.|||||++.+..-+
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            3589999999999999999986543

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=92.34  E-value=0.028  Score=48.28  Aligned_cols=20  Identities=50%  Similarity=0.640  Sum_probs=18.1

Q ss_pred             eEEEEeccCcchhhhHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAI  227 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v  227 (471)
                      -+|||+|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999865

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=92.32  E-value=0.052  Score=47.09  Aligned_cols=35  Identities=29%  Similarity=0.306  Sum_probs=26.8

Q ss_pred             eEEEEec-cCcchhhhHHHHHHHhhhccccceEeee
Q 041795          208 RIVGIWG-MGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       208 ~vv~I~G-~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ++|+|+| -||+||||+|..++..+...-..++.++
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD   38 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVD   38 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEe
Confidence            6899994 6999999999999888765533455444

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=92.23  E-value=0.032  Score=49.22  Aligned_cols=25  Identities=32%  Similarity=0.288  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.+..-.
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            4589999999999999999887544

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=92.22  E-value=0.028  Score=50.18  Aligned_cols=25  Identities=32%  Similarity=0.481  Sum_probs=21.4

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -..++|+|..|.|||||++.+..-+
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            4589999999999999999986543

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=92.21  E-value=0.032  Score=48.86  Aligned_cols=24  Identities=29%  Similarity=0.263  Sum_probs=21.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            458999999999999999998754

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.14  E-value=0.033  Score=45.65  Aligned_cols=22  Identities=23%  Similarity=0.146  Sum_probs=19.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|.+|+|||+|...+.+.
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988764

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=92.14  E-value=0.033  Score=47.10  Aligned_cols=24  Identities=17%  Similarity=0.419  Sum_probs=21.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHH
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .++.|+|+|.+|+|||||...+.+
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcC
Confidence            466899999999999999999875

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.08  E-value=0.031  Score=49.74  Aligned_cols=25  Identities=32%  Similarity=0.485  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -..++|+|..|.|||||++.+..-+
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhccc
Confidence            4689999999999999999986543

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.03  E-value=0.035  Score=45.57  Aligned_cols=20  Identities=20%  Similarity=0.381  Sum_probs=18.1

Q ss_pred             EEEeccCcchhhhHHHHHHH
Q 041795          210 VGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~  229 (471)
                      |.++|.+|+|||||...+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999988775

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=92.00  E-value=0.035  Score=49.15  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=21.9

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .-..++|+|..|.|||||++.+..-+
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            34689999999999999999986543

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.97  E-value=0.035  Score=48.87  Aligned_cols=34  Identities=21%  Similarity=0.277  Sum_probs=25.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      ..++|+|+.|.|||||.+.++.-+.. -.+.+++.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~p-~~G~I~~~   58 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVKP-DRGEVRLN   58 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCC-SEEEEEET
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCCC-CceEEEEC
Confidence            37889999999999999999875443 24455543

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=91.95  E-value=0.051  Score=44.92  Aligned_cols=23  Identities=26%  Similarity=0.302  Sum_probs=19.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ---|.++|.+|+|||||...+..
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhc
Confidence            34578999999999999988754

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.90  E-value=0.036  Score=45.93  Aligned_cols=22  Identities=27%  Similarity=0.176  Sum_probs=18.9

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|.+|+|||+|+..+.+.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3679999999999999987654

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.90  E-value=0.033  Score=50.45  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=21.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -..++|+|..|.|||||++.+..-
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhCC
Confidence            468999999999999999998753

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=91.77  E-value=0.062  Score=50.51  Aligned_cols=26  Identities=23%  Similarity=0.298  Sum_probs=22.3

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ....+..+|+.|+|||.||+.++...
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            35668999999999999999998754

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.72  E-value=0.039  Score=45.32  Aligned_cols=22  Identities=27%  Similarity=0.166  Sum_probs=19.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988753

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=91.57  E-value=0.036  Score=48.86  Aligned_cols=25  Identities=40%  Similarity=0.417  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|..|.|||||.+.+..-.
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCc
Confidence            4689999999999999999987643

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.48  E-value=0.043  Score=45.15  Aligned_cols=22  Identities=32%  Similarity=0.283  Sum_probs=19.0

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3689999999999999988753

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.48  E-value=0.024  Score=49.60  Aligned_cols=25  Identities=24%  Similarity=0.327  Sum_probs=22.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      .+.|+|-|+-|+||||+|+.+.+.+
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999999987764

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=91.42  E-value=0.039  Score=45.14  Aligned_cols=21  Identities=24%  Similarity=0.327  Sum_probs=18.3

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|.|+|.+|+|||||...+.+
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            367999999999999998755

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=91.37  E-value=0.045  Score=45.13  Aligned_cols=22  Identities=23%  Similarity=0.123  Sum_probs=19.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|.+|+|||||...+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999987653

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=91.37  E-value=0.046  Score=45.08  Aligned_cols=21  Identities=33%  Similarity=0.362  Sum_probs=19.1

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .|+|+|.+|+|||||...+..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            689999999999999998864

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.30  E-value=0.043  Score=45.31  Aligned_cols=22  Identities=27%  Similarity=0.299  Sum_probs=19.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988763

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.28  E-value=0.041  Score=45.34  Aligned_cols=21  Identities=33%  Similarity=0.621  Sum_probs=18.2

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.++|.+|+|||||...+.+.
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999887653

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=91.25  E-value=0.086  Score=47.08  Aligned_cols=49  Identities=31%  Similarity=0.347  Sum_probs=34.8

Q ss_pred             HHHHhhh-cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeeeh
Q 041795          195 KIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLGN  243 (471)
Q Consensus       195 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~~  243 (471)
                      .|..+|. .+-+.-+++-|+|.+|+||||||.+++......=...+|++.
T Consensus        41 ~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidt   90 (263)
T d1u94a1          41 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDA   90 (263)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             HHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEcc
Confidence            4445553 222345799999999999999999988876555445677653

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.24  E-value=0.044  Score=44.79  Aligned_cols=21  Identities=24%  Similarity=0.245  Sum_probs=18.7

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.++|.+|+|||+|...+.+.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788999999999999998753

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.18  E-value=0.043  Score=45.25  Aligned_cols=21  Identities=33%  Similarity=0.360  Sum_probs=18.3

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|.++|.+|+|||+|...+.+
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhC
Confidence            378999999999999988765

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.09  E-value=0.05  Score=44.86  Aligned_cols=22  Identities=18%  Similarity=0.205  Sum_probs=19.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|.+|+|||+|...+.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988753

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.09  E-value=0.047  Score=44.85  Aligned_cols=22  Identities=32%  Similarity=0.441  Sum_probs=19.2

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|-+|+|||+|...+.+.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988764

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.06  E-value=0.05  Score=44.68  Aligned_cols=21  Identities=24%  Similarity=0.333  Sum_probs=18.5

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |+|+|.+|+|||||...+.+.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988763

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=90.91  E-value=0.061  Score=47.09  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=20.7

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ++|||.|..|+||||+|+.+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999998664

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.85  E-value=0.054  Score=44.60  Aligned_cols=21  Identities=29%  Similarity=0.563  Sum_probs=18.7

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.++|.+|+|||+|...+.+.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578999999999999988764

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.85  E-value=0.054  Score=44.75  Aligned_cols=21  Identities=43%  Similarity=0.461  Sum_probs=18.7

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|+++|.+|+|||||...+.+
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            478999999999999998765

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.83  E-value=0.051  Score=45.01  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=19.4

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      --|.|+|.+|+|||+|...+.+.
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35779999999999999887653

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=90.79  E-value=0.046  Score=48.19  Aligned_cols=25  Identities=44%  Similarity=0.519  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|+.|.|||||.+.+..-+
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4699999999999999999887544

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.77  E-value=0.057  Score=45.84  Aligned_cols=23  Identities=26%  Similarity=0.187  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +.|+|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999888764

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=90.76  E-value=0.046  Score=48.24  Aligned_cols=25  Identities=44%  Similarity=0.553  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|+.|.|||||.+.+..-+
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4599999999999999999987543

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=90.76  E-value=0.046  Score=48.71  Aligned_cols=25  Identities=32%  Similarity=0.436  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.+++|+|+.|.|||||++.+.--+
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCC
Confidence            3589999999999999999987643

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.75  E-value=0.046  Score=45.79  Aligned_cols=21  Identities=29%  Similarity=0.235  Sum_probs=18.5

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|.|+|.+|+|||||+..+.+
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            377999999999999988875

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.74  E-value=0.053  Score=44.45  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=19.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|.+|+|||||...+.+.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988763

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=90.68  E-value=0.071  Score=44.34  Aligned_cols=24  Identities=33%  Similarity=0.511  Sum_probs=19.0

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHH
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ...+ |.++|.+|+|||||...+..
T Consensus        16 k~~K-I~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          16 KELR-ILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             SCEE-EEEEEETTSSHHHHHHHTCC
T ss_pred             ceEE-EEEECCCCCCHHHHHHHHhc
Confidence            3454 56999999999999988743

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.65  E-value=0.054  Score=44.66  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=19.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999987653

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.60  E-value=0.059  Score=44.23  Aligned_cols=21  Identities=29%  Similarity=0.472  Sum_probs=18.6

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.++|.+|+|||+|...+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            679999999999999987654

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.58  E-value=0.064  Score=46.66  Aligned_cols=25  Identities=36%  Similarity=0.421  Sum_probs=22.4

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .+++..|.|.-|.|||||.+.+...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5789999999999999999988775

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.55  E-value=0.056  Score=44.68  Aligned_cols=21  Identities=29%  Similarity=0.379  Sum_probs=18.5

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|.++|.+|+|||+|+..+..
T Consensus         7 KI~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999998765

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=90.52  E-value=0.049  Score=45.34  Aligned_cols=20  Identities=35%  Similarity=0.586  Sum_probs=18.2

Q ss_pred             EEEeccCcchhhhHHHHHHH
Q 041795          210 VGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~  229 (471)
                      |+|+|.+|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999988754

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=90.48  E-value=0.062  Score=45.99  Aligned_cols=27  Identities=26%  Similarity=0.401  Sum_probs=23.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      +-|+|-|+-|+||||+++.+.+.+...
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~   29 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQL   29 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            468899999999999999998876543

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.38  E-value=0.064  Score=43.13  Aligned_cols=22  Identities=32%  Similarity=0.318  Sum_probs=19.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+++|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999887664

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.35  E-value=0.066  Score=45.62  Aligned_cols=23  Identities=30%  Similarity=0.291  Sum_probs=20.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +.|+|+|.+|+|||||...+...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999888763

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.26  E-value=0.08  Score=45.64  Aligned_cols=29  Identities=24%  Similarity=0.349  Sum_probs=24.8

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhccc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEF  235 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  235 (471)
                      -+.|+|-|+-|+||||+++.+.+.+..+.
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L~~~~   31 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKLQPNC   31 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHTTTSE
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHhCC
Confidence            35799999999999999999998876543

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.23  E-value=0.066  Score=44.33  Aligned_cols=21  Identities=29%  Similarity=0.368  Sum_probs=18.8

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|.++|..|+|||||+..+.+
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999998765

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.21  E-value=0.066  Score=43.99  Aligned_cols=22  Identities=14%  Similarity=0.211  Sum_probs=18.8

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+++|..|+|||+|...+.+.
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999987654

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.17  E-value=0.063  Score=43.99  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=19.5

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .-|.|+|.+|+|||+|...+.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45788999999999999987653

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.15  E-value=0.063  Score=44.51  Aligned_cols=22  Identities=32%  Similarity=0.145  Sum_probs=18.8

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678999999999999887764

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.14  E-value=0.068  Score=43.97  Aligned_cols=22  Identities=32%  Similarity=0.226  Sum_probs=19.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999987653

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.03  E-value=0.069  Score=44.56  Aligned_cols=22  Identities=41%  Similarity=0.442  Sum_probs=19.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|.+|+|||||...+.+.
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988763

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=90.00  E-value=0.058  Score=47.26  Aligned_cols=23  Identities=30%  Similarity=0.417  Sum_probs=20.5

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -.+++|+|..|.|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999988765

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.97  E-value=0.067  Score=43.81  Aligned_cols=21  Identities=29%  Similarity=0.499  Sum_probs=18.8

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.++|.+|+|||+|...+.+.
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988764

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=89.93  E-value=0.1  Score=46.30  Aligned_cols=39  Identities=18%  Similarity=0.257  Sum_probs=28.0

Q ss_pred             hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .+.++...+.......-.|+|+|.+|+|||||...++.+
T Consensus        17 ~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          17 KLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            344444445444444557889999999999999999864

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=89.93  E-value=0.075  Score=44.07  Aligned_cols=24  Identities=29%  Similarity=0.421  Sum_probs=21.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|+|+|.+|+|||||...+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999998764

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=89.92  E-value=0.063  Score=44.82  Aligned_cols=21  Identities=24%  Similarity=0.357  Sum_probs=17.8

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|.++|.+|+|||+|...+..
T Consensus         4 KivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            367999999999999987644

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.81  E-value=0.071  Score=44.06  Aligned_cols=21  Identities=38%  Similarity=0.442  Sum_probs=18.4

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|.++|.+|+|||+|...+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999988764

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.81  E-value=0.069  Score=45.10  Aligned_cols=22  Identities=23%  Similarity=0.194  Sum_probs=19.2

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.|+|.+|+|||||...+.+.
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4789999999999999988764

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=89.76  E-value=0.063  Score=44.20  Aligned_cols=33  Identities=27%  Similarity=0.245  Sum_probs=23.2

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHh
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .+..++.  .... -|.|+|.+|+|||||...+...
T Consensus         6 ~~~~~~~--~k~~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           6 RIWRLFN--HQEH-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHT--TSCE-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHhC--CCeE-EEEEECCCCCCHHHHHHHHhcC
Confidence            3444443  2334 4679999999999999887653

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.62  E-value=0.069  Score=44.94  Aligned_cols=19  Identities=26%  Similarity=0.487  Sum_probs=17.3

Q ss_pred             EEEEeccCcchhhhHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAI  227 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v  227 (471)
                      -|.++|.+|+|||+|...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999987

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=89.60  E-value=0.083  Score=43.54  Aligned_cols=24  Identities=25%  Similarity=0.392  Sum_probs=21.2

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ...|+|+|.+|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999999864

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=89.52  E-value=0.19  Score=44.86  Aligned_cols=48  Identities=25%  Similarity=0.251  Sum_probs=34.8

Q ss_pred             HHHHhhh-cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          195 KIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       195 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .|...|. .+-+.-+++-|+|.+|+||||||..++......=...+|++
T Consensus        47 ~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyID   95 (269)
T d1mo6a1          47 ALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFID   95 (269)
T ss_dssp             HHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             HHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEE
Confidence            4445553 34455789999999999999999888776555444567776

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=89.45  E-value=0.1  Score=42.69  Aligned_cols=26  Identities=35%  Similarity=0.348  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchhhhHHHHHHHhh
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      ..-+|.+.|.=|.||||+++.+++.+
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc
Confidence            34589999999999999999999864

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.39  E-value=0.078  Score=44.37  Aligned_cols=22  Identities=32%  Similarity=0.226  Sum_probs=19.2

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.|+|.+|+|||+|...+.+.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            4789999999999999987764

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.39  E-value=0.1  Score=43.50  Aligned_cols=22  Identities=27%  Similarity=0.178  Sum_probs=19.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5789999999999999988764

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=89.38  E-value=0.085  Score=43.05  Aligned_cols=22  Identities=27%  Similarity=0.300  Sum_probs=18.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+++|.+|+|||||...+...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3668999999999999887553

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=89.38  E-value=0.066  Score=44.43  Aligned_cols=22  Identities=23%  Similarity=0.190  Sum_probs=19.5

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998753

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=89.34  E-value=0.085  Score=43.33  Aligned_cols=21  Identities=33%  Similarity=0.449  Sum_probs=18.7

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|.++|.+|+|||+|...+.+
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            578999999999999998765

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=89.26  E-value=0.048  Score=48.57  Aligned_cols=23  Identities=39%  Similarity=0.442  Sum_probs=20.0

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -..++|+|..|.|||||++.+..
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHh
Confidence            45899999999999999987654

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.19  E-value=0.083  Score=44.00  Aligned_cols=22  Identities=23%  Similarity=0.163  Sum_probs=19.1

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|..|+|||+|...+.+.
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999988764

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.03  E-value=0.063  Score=43.48  Aligned_cols=22  Identities=32%  Similarity=0.357  Sum_probs=19.5

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+++|.+|+|||||...+...
T Consensus         2 kI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998764

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.00  E-value=0.093  Score=43.45  Aligned_cols=20  Identities=30%  Similarity=0.403  Sum_probs=18.3

Q ss_pred             EEEeccCcchhhhHHHHHHH
Q 041795          210 VGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~  229 (471)
                      |.++|.+|+|||+|...+.+
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998765

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.96  E-value=0.094  Score=43.24  Aligned_cols=21  Identities=33%  Similarity=0.501  Sum_probs=18.5

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|.++|.+|+|||||...+.+
T Consensus         8 KI~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999988765

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.86  E-value=0.097  Score=43.03  Aligned_cols=21  Identities=33%  Similarity=0.544  Sum_probs=18.5

Q ss_pred             EEEeccCcchhhhHHHHHHHh
Q 041795          210 VGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~~  230 (471)
                      |.++|.+|+|||+|...+.+.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999998764

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=88.75  E-value=0.069  Score=44.54  Aligned_cols=21  Identities=33%  Similarity=0.504  Sum_probs=18.2

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|+|+|.+|+|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999887643

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=88.55  E-value=0.1  Score=50.38  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +=|.++|+.|+|||.||+.++..+
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999999854

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.43  E-value=0.11  Score=43.08  Aligned_cols=22  Identities=23%  Similarity=0.397  Sum_probs=19.2

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|+++|.+|+|||+|...+.+.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5789999999999999988664

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=88.31  E-value=0.13  Score=42.84  Aligned_cols=23  Identities=30%  Similarity=0.186  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      +-|.|.|.+|+||||||..+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            56889999999999999887764

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.26  E-value=0.1  Score=43.78  Aligned_cols=22  Identities=27%  Similarity=0.178  Sum_probs=18.5

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|.+|+|||+|...+.+.
T Consensus         5 KvvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999887654

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=88.24  E-value=0.3  Score=46.25  Aligned_cols=44  Identities=20%  Similarity=0.289  Sum_probs=31.5

Q ss_pred             cccc-hhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          187 VGLN-SRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       187 vGr~-~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .|.. ..++.+.+++.   ....+|.|.|+.|.||||....+.+.+..
T Consensus       140 LG~~~~~~~~l~~l~~---~~~GliLvtGpTGSGKSTTl~~~l~~~~~  184 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIK---RPHGIILVTGPTGSGKSTTLYAGLQELNS  184 (401)
T ss_dssp             SCCCHHHHHHHHHHHT---SSSEEEEEECSTTSCHHHHHHHHHHHHCC
T ss_pred             hcccHHHHHHHHHHHh---hhhceEEEEcCCCCCccHHHHHHhhhhcC
Confidence            3444 34445555554   23579999999999999999998887543

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=88.20  E-value=0.16  Score=43.96  Aligned_cols=32  Identities=38%  Similarity=0.514  Sum_probs=25.0

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHH
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      +++|.++|.     -+...++|.+|+|||||...+..
T Consensus        86 ~~~L~~~l~-----~kt~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          86 IEELKEYLK-----GKISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             HHHHHHHHS-----SSEEEEECSTTSSHHHHHHHHST
T ss_pred             HhhHHHHhc-----CCeEEEECCCCCCHHHHHHhhcc
Confidence            566777664     24778999999999999988753

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=88.14  E-value=0.12  Score=46.01  Aligned_cols=26  Identities=27%  Similarity=0.308  Sum_probs=22.0

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      .+..|+|.+|+||||||..++-.+..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~ia~   55 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQIAG   55 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHc
Confidence            47789999999999999988876543

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.96  E-value=0.11  Score=43.30  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=18.7

Q ss_pred             EEEEeccCcchhhhHHHHHHHh
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      -|.++|.+|+|||+|...+...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999987554

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=87.96  E-value=0.2  Score=42.40  Aligned_cols=40  Identities=25%  Similarity=0.362  Sum_probs=31.6

Q ss_pred             hHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhh
Q 041795          192 RIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIY  232 (471)
Q Consensus       192 ~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  232 (471)
                      -+..+..+|. +.+.-..+.++|+++.|||++|..+.+-+.
T Consensus        39 Fl~~l~~~l~-~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~   78 (205)
T d1tuea_          39 FLGALKSFLK-GTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   78 (205)
T ss_dssp             HHHHHHHHHH-TCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHc-CCCCceEEEEECCCCccHHHHHHHHHHHhC
Confidence            3556666664 556678999999999999999999887653

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.91  E-value=0.057  Score=44.59  Aligned_cols=20  Identities=40%  Similarity=0.559  Sum_probs=16.9

Q ss_pred             EEEeccCcchhhhHHHHHHH
Q 041795          210 VGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       210 v~I~G~gGiGKTtLA~~v~~  229 (471)
                      |.++|.+|+|||+|...+.+
T Consensus         6 i~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC-
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77899999999999887654

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=87.89  E-value=0.1  Score=43.45  Aligned_cols=23  Identities=30%  Similarity=0.234  Sum_probs=19.9

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .-|.|.|.+|+||||||..+..+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            56889999999999999887653

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=87.82  E-value=0.11  Score=41.94  Aligned_cols=21  Identities=33%  Similarity=0.351  Sum_probs=18.5

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|+++|.+|+|||||..++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            367999999999999988874

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=87.76  E-value=0.2  Score=42.47  Aligned_cols=27  Identities=19%  Similarity=0.156  Sum_probs=23.0

Q ss_pred             eEEEEeccC-cchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMG-GTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~g-GiGKTtLA~~v~~~~~~~  234 (471)
                      +.+-|.|-| |+||||++..++..+...
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~   29 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAA   29 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHC
Confidence            467899998 999999999999887554

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=87.70  E-value=0.11  Score=43.09  Aligned_cols=23  Identities=43%  Similarity=0.443  Sum_probs=19.8

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      --|+|+|.+|+|||||..++.+.
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            35899999999999999888753

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=87.59  E-value=0.12  Score=46.33  Aligned_cols=24  Identities=33%  Similarity=0.368  Sum_probs=21.5

Q ss_pred             CceEEEEeccCcchhhhHHHHHHH
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ++|-|+|+|-+|.|||||+.++..
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHH
Confidence            578899999999999999998764

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=87.52  E-value=0.086  Score=43.52  Aligned_cols=23  Identities=17%  Similarity=0.137  Sum_probs=19.8

Q ss_pred             CceEEEEeccCcchhhhHHHHHH
Q 041795          206 DFRIVGIWGMGGTGKTTLAGAIF  228 (471)
Q Consensus       206 ~~~vv~I~G~gGiGKTtLA~~v~  228 (471)
                      ....|+|+|.+++|||||..++.
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~   37 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLT   37 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHh
Confidence            46789999999999999987764

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=87.31  E-value=0.13  Score=42.51  Aligned_cols=23  Identities=30%  Similarity=0.195  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      .-|.|.|.+|+||||||..+..+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            56889999999999999887765

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.26  E-value=0.086  Score=43.47  Aligned_cols=21  Identities=24%  Similarity=0.202  Sum_probs=8.8

Q ss_pred             EEEEeccCcchhhhHHHHHHH
Q 041795          209 IVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      -|.++|-+|+|||||...+.+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEEECCCCC-----------
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999987664

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=87.00  E-value=0.24  Score=44.11  Aligned_cols=48  Identities=35%  Similarity=0.322  Sum_probs=32.8

Q ss_pred             HHHHhhh-cCCCCceEEEEeccCcchhhhHHHHHHHhhhccccceEeee
Q 041795          195 KIKSLLC-IGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYKEFEGNCFLG  242 (471)
Q Consensus       195 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~~~  242 (471)
                      .|...|. .+-+.-+++-|+|.+|+||||||..++......=..++|++
T Consensus        44 ~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiD   92 (268)
T d1xp8a1          44 SLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID   92 (268)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEE
Confidence            3444453 22245679999999999999999988776543323456665

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=86.94  E-value=0.13  Score=44.44  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=18.7

Q ss_pred             eEEEEeccCcchhhhHHHHHHH
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      .-|.++|.+|+|||||...+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3578999999999999988753

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=86.93  E-value=0.096  Score=43.14  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=19.6

Q ss_pred             CCceEEEEeccCcchhhhHHHHHHH
Q 041795          205 PDFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       205 ~~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      ..++ |.++|.+|+|||||...+.+
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTC
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhc
Confidence            3455 66999999999999998764

>d1wu7a1 c.51.1.1 (A:330-426) Histidyl-tRNA synthetase (HisRS), C-terminal domain {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a/b)
fold: Anticodon-binding domain-like
superfamily: Class II aaRS ABD-related
family: Anticodon-binding domain of Class II aaRS
domain: Histidyl-tRNA synthetase (HisRS), C-terminal domain
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=86.00  E-value=0.65  Score=34.07  Aligned_cols=60  Identities=12%  Similarity=0.037  Sum_probs=45.2

Q ss_pred             CceeEEEcccccccCcchHHHHHHHHHhCCcceeecCCCCCCCCCCcHHHHHHhhhcceEEEEEc
Q 041795           10 SKYDVSLSFRGGDTRDNFTSHLYAALCRKKIKTFINGDEIRRGDDISPALFTAIQGSKISVIVLS   74 (471)
Q Consensus        10 ~~~dvFiS~~~~D~~~~f~~~l~~~L~~~g~~~~~d~~~~~~g~~~~~~i~~~i~~s~~~i~v~S   74 (471)
                      .+.+|||..-|.+.. ..+..|+..|+.+|+++.+|.    .+.++...+..|-..---.++++-
T Consensus         2 ~~~~V~i~~~g~~~~-~~~~~l~~~Lr~~gi~v~~d~----~~~~l~kq~~~A~~~~~~~~iiiG   61 (97)
T d1wu7a1           2 EKKSVYICRVGKINS-SIMNEYSRKLRERGMNVTVEI----MERGLSAQLKYASAIGADFAVIFG   61 (97)
T ss_dssp             SSCEEEEEEESSCCH-HHHHHHHHHHHTTTCEEEECC----SCCCHHHHHHHHHHTTCSEEEEEE
T ss_pred             CCceEEEEEeCHHHH-HHHHHHHHHHHHCCCEEEEEC----CCCcHHHHHHHHHhcCCCeEEecC
Confidence            357899998887655 489999999999999999986    355787888887554444445554

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=85.69  E-value=0.21  Score=46.58  Aligned_cols=37  Identities=32%  Similarity=0.272  Sum_probs=26.8

Q ss_pred             chhHHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          190 NSRIEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       190 ~~~~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +.....+...+.     .++..|.|.+|.||||++..+...+
T Consensus       151 ~~Q~~A~~~al~-----~~~~vI~G~pGTGKTt~i~~~l~~l  187 (359)
T d1w36d1         151 NWQKVAAAVALT-----RRISVISGGPGTGKTTTVAKLLAAL  187 (359)
T ss_dssp             CHHHHHHHHHHT-----BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHc-----CCeEEEEcCCCCCceehHHHHHHHH
Confidence            345555655553     3689999999999999987766554

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=85.35  E-value=0.28  Score=45.16  Aligned_cols=30  Identities=17%  Similarity=0.087  Sum_probs=25.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhhhcccc
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLIYKEFE  236 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~  236 (471)
                      +..|.|=|.=|+||||+++.+.+....+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~~~~   35 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASGGSP   35 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGCSSC
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhccCCC
Confidence            557889999999999999999988765543

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=85.30  E-value=0.22  Score=44.38  Aligned_cols=23  Identities=43%  Similarity=0.689  Sum_probs=20.3

Q ss_pred             ceEEEEeccCcchhhhHHHHHHH
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      +|-|+|+|-.|.|||||+.++..
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHH
Confidence            47899999999999999998753

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=85.20  E-value=0.29  Score=43.35  Aligned_cols=25  Identities=16%  Similarity=0.068  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchhhhHHHHHHHhh
Q 041795          207 FRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       207 ~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      -.++.|.|.+|+|||+++..++.++
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~   59 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQW   59 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhh
Confidence            3588899999999999999988664

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=84.77  E-value=0.41  Score=42.53  Aligned_cols=39  Identities=21%  Similarity=0.169  Sum_probs=30.8

Q ss_pred             HHHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhh
Q 041795          193 IEKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLI  231 (471)
Q Consensus       193 ~~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  231 (471)
                      +..+..+|....+.-..+.++|.|+.|||+++..+.+-+
T Consensus        90 ~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            345566665555667789999999999999999988765

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=83.69  E-value=0.16  Score=46.77  Aligned_cols=25  Identities=40%  Similarity=0.466  Sum_probs=21.3

Q ss_pred             EEEEeccCcchhhhHHHHHHHhhhc
Q 041795          209 IVGIWGMGGTGKTTLAGAIFNLIYK  233 (471)
Q Consensus       209 vv~I~G~gGiGKTtLA~~v~~~~~~  233 (471)
                      -|.|.|..|.||||+..++...+..
T Consensus       168 nili~G~tgSGKTT~l~al~~~i~~  192 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFIPK  192 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSCT
T ss_pred             CEEEEeeccccchHHHHHHhhhccc
Confidence            4789999999999999998876543

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=81.88  E-value=0.36  Score=41.59  Aligned_cols=23  Identities=39%  Similarity=0.394  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHh
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNL  230 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~  230 (471)
                      ++|+|+|-.+.|||||...+...
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhh
Confidence            46999999999999999887654

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=81.54  E-value=0.43  Score=42.75  Aligned_cols=46  Identities=17%  Similarity=-0.056  Sum_probs=30.8

Q ss_pred             HHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHHhhhc-cccceEee
Q 041795          195 KIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFNLIYK-EFEGNCFL  241 (471)
Q Consensus       195 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~~  241 (471)
                      ++++.|..- ..-..++|.|..|+|||+|+..+.+.... +-+.++.+
T Consensus        32 r~ID~l~Pi-grGQr~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~~   78 (289)
T d1xpua3          32 RVLDLASPI-GRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMV   78 (289)
T ss_dssp             HHHHHHSCC-BTTCEEEEEECSSSSHHHHHHHHHHHHHHHCTTSEEEE
T ss_pred             eeeeecccc-cCCCeeeEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEE
Confidence            344444421 12357899999999999999999887543 34444444

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.34  E-value=0.51  Score=43.46  Aligned_cols=35  Identities=20%  Similarity=0.369  Sum_probs=27.2

Q ss_pred             HHHHHhhhcCCCCceEEEEeccCcchhhhHHHHHHH
Q 041795          194 EKIKSLLCIGRPDFRIVGIWGMGGTGKTTLAGAIFN  229 (471)
Q Consensus       194 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  229 (471)
                      +.|.+++. ..+.+|=|+|+|-.|.|||||+..+..
T Consensus         5 ~~~~~lm~-~~~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2           5 DQMRSLMD-KVTNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             HHHHHHHH-CGGGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             HHHHHHhc-CcccCcEEEEEeCCCCcHHHHHHHHHH
Confidence            45555554 345688999999999999999988754

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=80.91  E-value=0.49  Score=43.35  Aligned_cols=27  Identities=26%  Similarity=0.176  Sum_probs=23.1

Q ss_pred             eEEEEeccCcchhhhHHHHHHHhhhcc
Q 041795          208 RIVGIWGMGGTGKTTLAGAIFNLIYKE  234 (471)
Q Consensus       208 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  234 (471)
                      -.|.|=|.=|+||||+++.+.+....+
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l~~~   32 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHFAIT   32 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTTTTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            458999999999999999998876544